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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
<li>Validated for various <strong>histone marks</strong></li>
<li><strong>High quality</strong> sequencing data</li>
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</div>',
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'info1' => '<p>ChIPmentation is based on tagmentation that allows library preparation to be integrated during the ChIP itself using transposase and sequencing-compatible adaptors. Our new improved µChIPmentation protocol combines 3 features for guaranteeing high quality sequencing data on small sample inputs 1) optimized chromatin shearing preparation protocol, 2) reduced number of steps, 3) reduced number of sample transfer from tube to tube - only 3 tubes per sample for the whole process, from cell fixation to purified libraries.</p>
<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
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<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
</div>
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<div class="extra-spaced">
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<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig2.png" /></div>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="extra-spaced">
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<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
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<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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'name' => '24 UDI for Tagmented libraries - Set I',
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
</ul>
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'info1' => '<p>The <b>24 UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries – Set I </b>is compatible with any <b>tagmentation</b><b>-based library preparation </b>protocols, such as <strong>ChIPmentation</strong>, <b>ATAC-seq</b> or <b>CUT&Tag</b> technologies.</p>
<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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'meta_title' => '24 unique dual indexes for tagmented libraries set 1',
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'name' => 'ATAC-seq kit',
'description' => '<p><a href="https://www.diagenode.com/files/products/kits/atacseq-kit-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
<div class="row">
<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>ATAC-seq</strong>, Assay for<span> </span><strong>T</strong>ransposase-<strong>A</strong>ccessible<span> </span><strong>C</strong>hromatin, followed by next generation sequencing, is a key technology for genome-wide mapping of accessible chromatin. The technology is based on the use of the<span> </span><strong>transposase Tn5</strong><span> </span>which cuts exposed open chromatin and simultaneously ligates adapters for subsequent amplification and sequencing. ATAC-seq methods allow you to:</p>
<ul>
<li> Gain insight into gene regulation and understand open chromatin signatures</li>
<li> Determine nucleosome positions at single nucleotide resolution</li>
<li> Uncover transcription factor (TF) occupancy</li>
</ul>
</div>
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<p>Diagenode’s<span> </span><b>ATAC-</b><b>seq</b><b><span> </span>kit<span> </span></b>is based on a highly validated protocol optimized for<span> </span><b>50,000<span> </span></b><b>cells</b><b><span> </span>per<span> </span></b><b>reaction</b>. The kit includes the reagents for cell lysis and nuclei extraction, tagmentation and DNA purification as well as for library amplification. The <a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">primer indexes for multiplexing</a> are not included in the kit and must be purchased separately.</p>
<h4><span style="font-weight: 400;">ATAC-seq kit features:</span></h4>
<ul>
<li><b>Cell<span> </span></b><b>requirement</b><b>:<span> </span></b><b>50,000<span> </span></b><b>cells /<span> </span></b><b>rxn</b></li>
<li><b>Robust protocol<span> </span></b>with<span> </span><b>high reproducibility<span> </span></b>between replicates and repetitive experiments</li>
<li><strong>Easy</strong><span> </span>and<span> </span><b>efficient DNA capture<span> </span></b>after the tagmentation reaction using Diagenode`s MicroChIP DiaPure columns (included)</li>
<li>Additional qPCR step to determine the number of cycles needed for library amplification: </li>
<ul type="”square”">
<li><b>Avoids<span> </span></b><b>over-amplification</b></li>
<li>Allows adaptation/flexibility for<span> </span><b>more challenging samples<span> </span></b>to succeed with library prep.</li>
<li>Gives<span> </span><strong>early indication</strong><span> </span>if the experiment does not work (no qPCR amplification)</li>
</ul>
</ul>
<p>Looking for ATAC-seq on tissue? Please, go to: <a href="https://www.diagenode.com/en/p/ATAC-seq-package-tissue-C01080006">ATAC-seq package for tissue</a></p>',
'label1' => 'Method overview',
'info1' => '<p><strong>ATAC-seq</strong>, <strong>A</strong>ssay for <strong>T</strong>ransposase-<strong>A</strong>ccessible <strong>C</strong>hromatin, followed by next generation sequencing, is a key technology to easily identify the <strong>open regions of the chromatin.</strong> The protocol consists of <strong>3 steps</strong>: <strong>nuclei preparation</strong>, <strong>tagmentation</strong> and <strong>library amplification</strong>. First, the cells undergo the lysis, ending with the crude nuclei. Then, the nuclei are incubated with a tagmentase (Tn5 transposase), which cuts the genomic regions associated with open chromatin and inserts the sequencing adaptors. Finally, the generated libraries are amplified and can be used for sequencing. High-throughput sequencing will then detect peaks, in open regions of the chromatin only, giving a map of the chromatin status in the whole genome of the sample.</p>
<p><img src="https://www.diagenode.com/img/product/kits/workflow-atac-seq.png" alt="ATAC-seq kit workflow" width="600px" caption="false" /></p>',
'label2' => 'Example of results',
'info2' => '<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig1.png" alt="library prepared with the Diagenode ATAC-seq kit " width="500px" caption="false" /></p>
<p><strong>Figure 1.</strong>Representative Bioanalyzer profile of an ATAC-seq library prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig2.png" alt="Diagenode ATAC-seq kit " caption="false" width="951" height="148" /></p>
<p><strong>Figure 2.</strong> Main ATAC-seq alignment and peak calling statistics of 3 replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells. (Mapping efficiency: Percentage of non-mitochondrial reads that mapped to the reference genome. Uniquely mapped ratio: Proportion of mapped reads that map to only one location on the reference genome (hg19). Peaks: Number of peaks (open chromatin regions) identified by MACS2 for each sample. FRiP - Fraction of reads in peaks: Percentage of reads in peaks, with respect to the number of uniquely mapped reads. Sequencing was realized in paired-end mode 50 base pairs (PE50) on an Illumina NovaSeq6000.)</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3a.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3b.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><strong>Figure 3</strong> Sequencing profiles of ATAC-seq library (3 replicates) prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig4.png" alt=" open chromatin regions" caption="false" width="383" height="739" /></p>
<p><strong>Figure 4. </strong><br /> Heatmap around TSS of three ATAC-seq replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>',
'label3' => 'Additional solutions for ATAC-seq kit',
'info3' => '<p><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></p>
<p>Magnetic rack:<span> </span><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag</a><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit"><span> </span>0.2 ml – Cat. No. B04000001</a></p>
<p>Additional supplies (included in the kit and available separately):</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">Tagmentase</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30"><span> </span>(Tn5 transposase)<span> </span></a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">loaded</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">, Cat. No. C01070012</a></li>
<li><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x">Tagmentation</a><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x"><span> </span>Buffer (2x), Cat. No. C01019043</a></li>
<li><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">MicroChIP</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">DiaPure</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">columns</a><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">, Cat. No. C03040001</a></li>
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'meta_description' => 'Diagenode’s ATAC-seq kit provides a robust protocol for assessing genome-wide chromatin accessibility',
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'name' => 'iDeal CUT&Tag kit for Histones <br /> Compatible with histones and some non-histone proteins',
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<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>CUT&Tag-sequencing</strong> (<strong>C</strong>leavage <strong>U</strong>nder <strong>T</strong>argets and <strong>Tag</strong>mentation) is a new alternative method to ChIP-seq combining antibody-targeted controlled cleavage by a protein A-Tn5 fusion with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins.</p>
<p><a href="https://www.diagenode.com/files/products/kits/iDeal-CUTandTag-kit-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
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<p>The Diagenode’s <strong>iDeal CUT&Tag kit for Histones</strong> provides an optimized protocol for a rapid chromatin profiling on <strong>histone marks</strong> and some <strong>non-histone proteins</strong>. The protocol is optimized for native cells (<strong>10,000-300,000</strong> cells per reaction) and can be completed within 1.5 days. The kit includes all reagents for cell processing, including CoA beads, pA-Tn5 and the DNA purification module. The antibodies (secondary antibodies, control antibodies) as well as primer indexes for multiplexing must be purchased separately.</p>
<p><strong>For a complete CUT&Tag protocol the following items must be purchased:</strong></p>
<ul>
<li><strong>iDeal CUT&Tag kit for Histones</strong> – including all reagents for CUT&Tag workflow (buffers, pA-Tn5, CoA beads, DNA purification)</li>
<li><strong>Antibody package for CUT&Tag: <a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antirabbit-24">anti-rabbit</a></strong> or <strong><a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antimouse-24">anti-mouse</a></strong> - including the secondary antibody, positive and negative control antibodies and primers</li>
<li><strong><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></strong> – for multiplexing up to 72 samples</li>
</ul>
<h3>iDeal CUT&Tag Kit features:</h3>
<ul>
<li><strong>Rapid</strong> and <strong>easy </strong>chromatin profiling assay for <strong>histones </strong>and<strong> some non-histone proteins</strong></li>
<ul style="margin-bottom: 0;">
<li>No chromatin preparation</li>
<li>Easy sample handling due to ConA magnetic beads</li>
<li>Integrated library prep</li>
</ul>
<li><strong>Low cell number</strong>: 10,000-300,000 cells</li>
<li><strong>Accurate amplification</strong> due to intermediate quantification step</li>
<li><strong>High resolution</strong> and <strong>sensitivity</strong></li>
<li><strong>Lower sequencing depth</strong></li>
</ul>
<p>The quality of antibody used in CUT&Tag is one of the crucial factors for assay success. The antibodies with confirmed high specificity will target only the protein of interest, enabling real results. Check out our selection of <strong><a href="https://www.diagenode.com/en/categories/cut-and-tag-antibodies">antibodies validated in CUT&Tag</a>.</strong></p>
<p>Looking for a standalone pA-Tn5? <a href="https://www.diagenode.com/en/products/view/3064">Read more</a>.</p>
<script src="chrome-extension://hhojmcideegachlhfgfdhailpfhgknjm/web_accessible_resources/index.js"></script>',
'label1' => 'Method overview',
'info1' => '<p>The iDeal CUT&Tag protocol involves the binding of cells on a solid phase ConA magnetic beads, allowing magnetic handling of the cells for the major steps of the protocol. Bead-bound cells are permeabilized, incubated with primary antibody against a target of interest and secondary antibody. Then, Diagenode’s protein pA-Tn5 Transposase - loaded is bound to the complex. Protein A guides Tn5 transposase on chromatin to the antibody attached to its target. Tn5 transposase is activated by Mg+2 ions to insert the sequencing adaptors into genomic regions of interest. DNA is then purified and the tagmented genomic regions of interest are amplified by PCR using Diagenode’s Primer Indexes for tagmented libraries.</p>
<p></p>
<p><img alt=" pA-Tn5 Antibody package for CUT & Tag" src="https://www.diagenode.com/img/product/kits/workflow-cutandtag.jpg" /></p>',
'label2' => 'Examples of results - histone marks',
'info2' => '<p>Successful CUT&Tag results showing a low background with high region-specific enrichment are presented below. Chromatin profiling has been performed on 50,000 K562 cells, using the Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020), the Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022), the 24 UDI for Tagmented Libraries (Cat.No. C01011034) and H3K4me3 (Cat. No. C15410003), H3K27me3 (Cat. No. C15410069) or H3H9me3 antibodies (Cat. No., C15410193) as indicated. The libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</p>
<p><br /> <img alt="CUT&Tag-sequencing" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1a.png" /> <img alt="CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1b.png" /> <img alt="Cleavage Under Targets and Tagmentation" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1c.png" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (Agilent Fragment traces) generated by the iDeal CUT&Tag protocol using 50,000 K562 cells and H3K27me3 (top), H3K4me4 (middle) primary antibodies and IgG control (bottom). Sharp peak at around 40 bp is an excess of <strong>free oligonucleotide used for pA-Tn5 loading</strong>.</p>
<p></p>
<p><br /><br /></p>
<div class="row">
<div class="small-4 columns">
<p><img alt="iDeal CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig2.png" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 2.</strong> Enrichments at TSS of the CUT&Tag libraries. The heatmap shows the enrichment around 3kb upstream and downstream of the TSS for H3K4me3. H3K4me3 as an active chromatin mark is associated with active promoters shows a narrow enrichment pattern.</p>
</div>
</div>
<p><br /><br /></p>
<p><br /> <img alt="iDeal CUT&Tag experiments of K562 cells " src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig3.png" /></p>
<p><strong>Figure 3.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 of K562 cells and H3K4me3 (blue), H3K27me3 (red) or H3K9me3 (green).</p>
<p><br /><br /></p>
<p><br /> <img alt="CUT&Tag experiments using 10,000 K562 cells" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig4.png" /></p>
<p><strong>Figure 4.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 (blue) or 10,000 (red)) of K562 cells and H3K27me3 antibody.</p>',
'label3' => 'Examples of results - transcription factors',
'info3' => '<p>Diagenode's<strong><span> iDeal CUT&Tag Kit for Histones</span></strong><span>, </span>developed for an efficient chromatin profiling on histone marks, can be used for profiling of <span>some transcription factors and co-factors using a mild fixation as described in the manual. </span></p>
<p><strong><span>Successful CUT&Tag results using CTCF and Suz12 antibodies and iDeal CUT&Tag Kit for Histones. </span></strong></p>
<p></p>
<p><span>Chromatin profiling of <strong>Suz12</strong> has been performed on 50,000 of fixed Mouse ES-E14TG2a cells (kindly provided by Luciano Di Croce, CRG, Spain) accordingly to the protocol of Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020). Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022) and the 24 UDI for Tagmented Libraries (Cat. No. C01011034) were used. The libraries were sized using Fragment Analyzer (Agilent) (triplicates, Figure 1, top). Relative enrichment has been confirmed by qPCR using know positive (T_Bra) and negative (Actb) loci (Figure 1, bottom). Libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</span></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1a.jpg" /><br /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1b.jpg" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (top) and relative enrichment (bottom) generated by the iDeal CUT&Tag protocol using 50,000 ES-E14TG2a cells and Suz12 Antibody and IgG control (bottom). Sharp peak at around 40 bp is an excess of free oligonucleotide used for pA-Tn5 loading which does not interfere with the sequencing.</p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for CTCF demonstrating the presence of high signal at promoter regions.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2a.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2b.jpg" /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2c.jpg" /></p>
<p></p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for SUZ12 and H3K27me3 triplicate samples, showing an overlap between the signal from both proteins, as part of the Polycomb Repressive Complex.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci1.jpg" width="100%" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci2.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci3.jpg" /></p>
<p><strong>Figure 2. IGV snapshots</strong></p>
<p></p>
<p></p>
<div class="row">
<div class="small-4 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig3.jpg" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 3. Heatmap around the TSS</strong><br /> Heatmap of the CTCF signal around the transcription start sites (TSS) of each gene present in the murine mm10 reference genome.</p>
</div>
</div>
<p></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig4.jpg" /></p>
<p><strong>Figure 4. CTCF motif</strong><br /> Presence of specific transcription factor binding motifs in the regions identified as CTCF peaks. The top3 motifs are corresponding to the CTCF binding motif.</p>
<p></p>
<p></p>
<div class="row">
<div class="small-6 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig5.jpg" /></p>
</div>
<div class="small-6 columns">
<p><strong>Figure 5. CTCF motif density</strong><br /> Location and density of the CTCF binding motif with respect to the center of the identified CTCF peaks.</p>
</div>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
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<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
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<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
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<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
</ul>
<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
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<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p>3 sets of UDI for tagmented libraries are available:</p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
</ul>
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'info1' => '<p>The <b>24 UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries – Set I </b>is compatible with any <b>tagmentation</b><b>-based library preparation </b>protocols, such as <strong>ChIPmentation</strong>, <b>ATAC-seq</b> or <b>CUT&Tag</b> technologies.</p>
<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
<li>Validated for various <strong>histone marks</strong></li>
<li><strong>High quality</strong> sequencing data</li>
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<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
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<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="row">
<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig3.png" /></div>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
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<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<div class="row">
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<p><strong>ATAC-seq</strong>, Assay for<span> </span><strong>T</strong>ransposase-<strong>A</strong>ccessible<span> </span><strong>C</strong>hromatin, followed by next generation sequencing, is a key technology for genome-wide mapping of accessible chromatin. The technology is based on the use of the<span> </span><strong>transposase Tn5</strong><span> </span>which cuts exposed open chromatin and simultaneously ligates adapters for subsequent amplification and sequencing. ATAC-seq methods allow you to:</p>
<ul>
<li> Gain insight into gene regulation and understand open chromatin signatures</li>
<li> Determine nucleosome positions at single nucleotide resolution</li>
<li> Uncover transcription factor (TF) occupancy</li>
</ul>
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<p>Diagenode’s<span> </span><b>ATAC-</b><b>seq</b><b><span> </span>kit<span> </span></b>is based on a highly validated protocol optimized for<span> </span><b>50,000<span> </span></b><b>cells</b><b><span> </span>per<span> </span></b><b>reaction</b>. The kit includes the reagents for cell lysis and nuclei extraction, tagmentation and DNA purification as well as for library amplification. The <a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">primer indexes for multiplexing</a> are not included in the kit and must be purchased separately.</p>
<h4><span style="font-weight: 400;">ATAC-seq kit features:</span></h4>
<ul>
<li><b>Cell<span> </span></b><b>requirement</b><b>:<span> </span></b><b>50,000<span> </span></b><b>cells /<span> </span></b><b>rxn</b></li>
<li><b>Robust protocol<span> </span></b>with<span> </span><b>high reproducibility<span> </span></b>between replicates and repetitive experiments</li>
<li><strong>Easy</strong><span> </span>and<span> </span><b>efficient DNA capture<span> </span></b>after the tagmentation reaction using Diagenode`s MicroChIP DiaPure columns (included)</li>
<li>Additional qPCR step to determine the number of cycles needed for library amplification: </li>
<ul type="”square”">
<li><b>Avoids<span> </span></b><b>over-amplification</b></li>
<li>Allows adaptation/flexibility for<span> </span><b>more challenging samples<span> </span></b>to succeed with library prep.</li>
<li>Gives<span> </span><strong>early indication</strong><span> </span>if the experiment does not work (no qPCR amplification)</li>
</ul>
</ul>
<p>Looking for ATAC-seq on tissue? Please, go to: <a href="https://www.diagenode.com/en/p/ATAC-seq-package-tissue-C01080006">ATAC-seq package for tissue</a></p>',
'label1' => 'Method overview',
'info1' => '<p><strong>ATAC-seq</strong>, <strong>A</strong>ssay for <strong>T</strong>ransposase-<strong>A</strong>ccessible <strong>C</strong>hromatin, followed by next generation sequencing, is a key technology to easily identify the <strong>open regions of the chromatin.</strong> The protocol consists of <strong>3 steps</strong>: <strong>nuclei preparation</strong>, <strong>tagmentation</strong> and <strong>library amplification</strong>. First, the cells undergo the lysis, ending with the crude nuclei. Then, the nuclei are incubated with a tagmentase (Tn5 transposase), which cuts the genomic regions associated with open chromatin and inserts the sequencing adaptors. Finally, the generated libraries are amplified and can be used for sequencing. High-throughput sequencing will then detect peaks, in open regions of the chromatin only, giving a map of the chromatin status in the whole genome of the sample.</p>
<p><img src="https://www.diagenode.com/img/product/kits/workflow-atac-seq.png" alt="ATAC-seq kit workflow" width="600px" caption="false" /></p>',
'label2' => 'Example of results',
'info2' => '<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig1.png" alt="library prepared with the Diagenode ATAC-seq kit " width="500px" caption="false" /></p>
<p><strong>Figure 1.</strong>Representative Bioanalyzer profile of an ATAC-seq library prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig2.png" alt="Diagenode ATAC-seq kit " caption="false" width="951" height="148" /></p>
<p><strong>Figure 2.</strong> Main ATAC-seq alignment and peak calling statistics of 3 replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells. (Mapping efficiency: Percentage of non-mitochondrial reads that mapped to the reference genome. Uniquely mapped ratio: Proportion of mapped reads that map to only one location on the reference genome (hg19). Peaks: Number of peaks (open chromatin regions) identified by MACS2 for each sample. FRiP - Fraction of reads in peaks: Percentage of reads in peaks, with respect to the number of uniquely mapped reads. Sequencing was realized in paired-end mode 50 base pairs (PE50) on an Illumina NovaSeq6000.)</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3a.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3b.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><strong>Figure 3</strong> Sequencing profiles of ATAC-seq library (3 replicates) prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig4.png" alt=" open chromatin regions" caption="false" width="383" height="739" /></p>
<p><strong>Figure 4. </strong><br /> Heatmap around TSS of three ATAC-seq replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>',
'label3' => 'Additional solutions for ATAC-seq kit',
'info3' => '<p><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></p>
<p>Magnetic rack:<span> </span><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag</a><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit"><span> </span>0.2 ml – Cat. No. B04000001</a></p>
<p>Additional supplies (included in the kit and available separately):</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">Tagmentase</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30"><span> </span>(Tn5 transposase)<span> </span></a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">loaded</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">, Cat. No. C01070012</a></li>
<li><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x">Tagmentation</a><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x"><span> </span>Buffer (2x), Cat. No. C01019043</a></li>
<li><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">MicroChIP</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">DiaPure</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">columns</a><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">, Cat. No. C03040001</a></li>
</ul>',
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'meta_title' => 'ATAC-seq kit for open chromatin assessment C01080001 | Diagenode ',
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'meta_description' => 'Diagenode’s ATAC-seq kit provides a robust protocol for assessing genome-wide chromatin accessibility',
'modified' => '2024-10-21 10:11:12',
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'name' => 'iDeal CUT&Tag kit for Histones <br /> Compatible with histones and some non-histone proteins',
'description' => '<p><a href="https://www.diagenode.com/files/application_notes/AN-iDealCUTandTag.pdf"><img src="https://www.diagenode.com/img/banners/cutandtag-appnote.png" /></a></p>
<div class="row">
<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>CUT&Tag-sequencing</strong> (<strong>C</strong>leavage <strong>U</strong>nder <strong>T</strong>argets and <strong>Tag</strong>mentation) is a new alternative method to ChIP-seq combining antibody-targeted controlled cleavage by a protein A-Tn5 fusion with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins.</p>
<p><a href="https://www.diagenode.com/files/products/kits/iDeal-CUTandTag-kit-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
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<p>The Diagenode’s <strong>iDeal CUT&Tag kit for Histones</strong> provides an optimized protocol for a rapid chromatin profiling on <strong>histone marks</strong> and some <strong>non-histone proteins</strong>. The protocol is optimized for native cells (<strong>10,000-300,000</strong> cells per reaction) and can be completed within 1.5 days. The kit includes all reagents for cell processing, including CoA beads, pA-Tn5 and the DNA purification module. The antibodies (secondary antibodies, control antibodies) as well as primer indexes for multiplexing must be purchased separately.</p>
<p><strong>For a complete CUT&Tag protocol the following items must be purchased:</strong></p>
<ul>
<li><strong>iDeal CUT&Tag kit for Histones</strong> – including all reagents for CUT&Tag workflow (buffers, pA-Tn5, CoA beads, DNA purification)</li>
<li><strong>Antibody package for CUT&Tag: <a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antirabbit-24">anti-rabbit</a></strong> or <strong><a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antimouse-24">anti-mouse</a></strong> - including the secondary antibody, positive and negative control antibodies and primers</li>
<li><strong><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></strong> – for multiplexing up to 72 samples</li>
</ul>
<h3>iDeal CUT&Tag Kit features:</h3>
<ul>
<li><strong>Rapid</strong> and <strong>easy </strong>chromatin profiling assay for <strong>histones </strong>and<strong> some non-histone proteins</strong></li>
<ul style="margin-bottom: 0;">
<li>No chromatin preparation</li>
<li>Easy sample handling due to ConA magnetic beads</li>
<li>Integrated library prep</li>
</ul>
<li><strong>Low cell number</strong>: 10,000-300,000 cells</li>
<li><strong>Accurate amplification</strong> due to intermediate quantification step</li>
<li><strong>High resolution</strong> and <strong>sensitivity</strong></li>
<li><strong>Lower sequencing depth</strong></li>
</ul>
<p>The quality of antibody used in CUT&Tag is one of the crucial factors for assay success. The antibodies with confirmed high specificity will target only the protein of interest, enabling real results. Check out our selection of <strong><a href="https://www.diagenode.com/en/categories/cut-and-tag-antibodies">antibodies validated in CUT&Tag</a>.</strong></p>
<p>Looking for a standalone pA-Tn5? <a href="https://www.diagenode.com/en/products/view/3064">Read more</a>.</p>
<script src="chrome-extension://hhojmcideegachlhfgfdhailpfhgknjm/web_accessible_resources/index.js"></script>',
'label1' => 'Method overview',
'info1' => '<p>The iDeal CUT&Tag protocol involves the binding of cells on a solid phase ConA magnetic beads, allowing magnetic handling of the cells for the major steps of the protocol. Bead-bound cells are permeabilized, incubated with primary antibody against a target of interest and secondary antibody. Then, Diagenode’s protein pA-Tn5 Transposase - loaded is bound to the complex. Protein A guides Tn5 transposase on chromatin to the antibody attached to its target. Tn5 transposase is activated by Mg+2 ions to insert the sequencing adaptors into genomic regions of interest. DNA is then purified and the tagmented genomic regions of interest are amplified by PCR using Diagenode’s Primer Indexes for tagmented libraries.</p>
<p></p>
<p><img alt=" pA-Tn5 Antibody package for CUT & Tag" src="https://www.diagenode.com/img/product/kits/workflow-cutandtag.jpg" /></p>',
'label2' => 'Examples of results - histone marks',
'info2' => '<p>Successful CUT&Tag results showing a low background with high region-specific enrichment are presented below. Chromatin profiling has been performed on 50,000 K562 cells, using the Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020), the Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022), the 24 UDI for Tagmented Libraries (Cat.No. C01011034) and H3K4me3 (Cat. No. C15410003), H3K27me3 (Cat. No. C15410069) or H3H9me3 antibodies (Cat. No., C15410193) as indicated. The libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</p>
<p><br /> <img alt="CUT&Tag-sequencing" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1a.png" /> <img alt="CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1b.png" /> <img alt="Cleavage Under Targets and Tagmentation" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1c.png" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (Agilent Fragment traces) generated by the iDeal CUT&Tag protocol using 50,000 K562 cells and H3K27me3 (top), H3K4me4 (middle) primary antibodies and IgG control (bottom). Sharp peak at around 40 bp is an excess of <strong>free oligonucleotide used for pA-Tn5 loading</strong>.</p>
<p></p>
<p><br /><br /></p>
<div class="row">
<div class="small-4 columns">
<p><img alt="iDeal CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig2.png" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 2.</strong> Enrichments at TSS of the CUT&Tag libraries. The heatmap shows the enrichment around 3kb upstream and downstream of the TSS for H3K4me3. H3K4me3 as an active chromatin mark is associated with active promoters shows a narrow enrichment pattern.</p>
</div>
</div>
<p><br /><br /></p>
<p><br /> <img alt="iDeal CUT&Tag experiments of K562 cells " src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig3.png" /></p>
<p><strong>Figure 3.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 of K562 cells and H3K4me3 (blue), H3K27me3 (red) or H3K9me3 (green).</p>
<p><br /><br /></p>
<p><br /> <img alt="CUT&Tag experiments using 10,000 K562 cells" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig4.png" /></p>
<p><strong>Figure 4.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 (blue) or 10,000 (red)) of K562 cells and H3K27me3 antibody.</p>',
'label3' => 'Examples of results - transcription factors',
'info3' => '<p>Diagenode's<strong><span> iDeal CUT&Tag Kit for Histones</span></strong><span>, </span>developed for an efficient chromatin profiling on histone marks, can be used for profiling of <span>some transcription factors and co-factors using a mild fixation as described in the manual. </span></p>
<p><strong><span>Successful CUT&Tag results using CTCF and Suz12 antibodies and iDeal CUT&Tag Kit for Histones. </span></strong></p>
<p></p>
<p><span>Chromatin profiling of <strong>Suz12</strong> has been performed on 50,000 of fixed Mouse ES-E14TG2a cells (kindly provided by Luciano Di Croce, CRG, Spain) accordingly to the protocol of Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020). Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022) and the 24 UDI for Tagmented Libraries (Cat. No. C01011034) were used. The libraries were sized using Fragment Analyzer (Agilent) (triplicates, Figure 1, top). Relative enrichment has been confirmed by qPCR using know positive (T_Bra) and negative (Actb) loci (Figure 1, bottom). Libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</span></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1a.jpg" /><br /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1b.jpg" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (top) and relative enrichment (bottom) generated by the iDeal CUT&Tag protocol using 50,000 ES-E14TG2a cells and Suz12 Antibody and IgG control (bottom). Sharp peak at around 40 bp is an excess of free oligonucleotide used for pA-Tn5 loading which does not interfere with the sequencing.</p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for CTCF demonstrating the presence of high signal at promoter regions.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2a.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2b.jpg" /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2c.jpg" /></p>
<p></p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for SUZ12 and H3K27me3 triplicate samples, showing an overlap between the signal from both proteins, as part of the Polycomb Repressive Complex.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci1.jpg" width="100%" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci2.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci3.jpg" /></p>
<p><strong>Figure 2. IGV snapshots</strong></p>
<p></p>
<p></p>
<div class="row">
<div class="small-4 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig3.jpg" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 3. Heatmap around the TSS</strong><br /> Heatmap of the CTCF signal around the transcription start sites (TSS) of each gene present in the murine mm10 reference genome.</p>
</div>
</div>
<p></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig4.jpg" /></p>
<p><strong>Figure 4. CTCF motif</strong><br /> Presence of specific transcription factor binding motifs in the regions identified as CTCF peaks. The top3 motifs are corresponding to the CTCF binding motif.</p>
<p></p>
<p></p>
<div class="row">
<div class="small-6 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig5.jpg" /></p>
</div>
<div class="small-6 columns">
<p><strong>Figure 5. CTCF motif density</strong><br /> Location and density of the CTCF binding motif with respect to the center of the identified CTCF peaks.</p>
</div>
</div>
<p>
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'slug' => 'ideal-cut-and-tag-kit-for-histones-24',
'meta_title' => 'iDeal CUT&Tag Kit for Histones for chromatin profiling | Diagenode',
'meta_keywords' => 'iDeal CUT&Tag Kit for Histones',
'meta_description' => 'Rapid chromatin profiling assay, optimized protocol, all reagents provided. Easy sample handling due to ConA magnetic beads. Highly specific CUT&Tag grade antibodies available. ',
'modified' => '2024-03-07 17:16:19',
'created' => '2022-06-29 11:47:09',
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(int) 4 => array(
'id' => '3184',
'antibody_id' => null,
'name' => 'ChIPmentation Kit for Histones',
'description' => '<p><a href="https://www.diagenode.com/files/products/kits/chipmentation-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
</ul>
<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
'label1' => 'Validation',
'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
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<div class="small-4 medium-4 large-4 columns"><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-2.png" /></div>
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
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<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
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<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
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<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
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<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
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<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
</ul>
<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
<div class="row">
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
'label2' => 'Additional solutions compatible with ChIPmentation Kit for Histones ',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
<li>Validated for various <strong>histone marks</strong></li>
<li><strong>High quality</strong> sequencing data</li>
</ul>
</div>',
'label1' => 'Characteristics',
'info1' => '<p>ChIPmentation is based on tagmentation that allows library preparation to be integrated during the ChIP itself using transposase and sequencing-compatible adaptors. Our new improved µChIPmentation protocol combines 3 features for guaranteeing high quality sequencing data on small sample inputs 1) optimized chromatin shearing preparation protocol, 2) reduced number of steps, 3) reduced number of sample transfer from tube to tube - only 3 tubes per sample for the whole process, from cell fixation to purified libraries.</p>
<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
</div>
</li>
</ul>
<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
</div>
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<div class="extra-spaced">
<div class="row">
<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig2.png" /></div>
</div>
<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
</div>
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<div class="extra-spaced">
<div class="row">
<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig3.png" /></div>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
</div>
</div>
</div>',
'label2' => 'Additional solutions for µChIPmentation Kit for Histones',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries" target="_blank">24 SI for Tagmented libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
<li></li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
</ul>
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'info1' => '<p>The <b>24 UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries – Set I </b>is compatible with any <b>tagmentation</b><b>-based library preparation </b>protocols, such as <strong>ChIPmentation</strong>, <b>ATAC-seq</b> or <b>CUT&Tag</b> technologies.</p>
<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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'name' => 'ATAC-seq kit',
'description' => '<p><a href="https://www.diagenode.com/files/products/kits/atacseq-kit-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
<div class="row">
<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>ATAC-seq</strong>, Assay for<span> </span><strong>T</strong>ransposase-<strong>A</strong>ccessible<span> </span><strong>C</strong>hromatin, followed by next generation sequencing, is a key technology for genome-wide mapping of accessible chromatin. The technology is based on the use of the<span> </span><strong>transposase Tn5</strong><span> </span>which cuts exposed open chromatin and simultaneously ligates adapters for subsequent amplification and sequencing. ATAC-seq methods allow you to:</p>
<ul>
<li> Gain insight into gene regulation and understand open chromatin signatures</li>
<li> Determine nucleosome positions at single nucleotide resolution</li>
<li> Uncover transcription factor (TF) occupancy</li>
</ul>
</div>
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<p>Diagenode’s<span> </span><b>ATAC-</b><b>seq</b><b><span> </span>kit<span> </span></b>is based on a highly validated protocol optimized for<span> </span><b>50,000<span> </span></b><b>cells</b><b><span> </span>per<span> </span></b><b>reaction</b>. The kit includes the reagents for cell lysis and nuclei extraction, tagmentation and DNA purification as well as for library amplification. The <a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">primer indexes for multiplexing</a> are not included in the kit and must be purchased separately.</p>
<h4><span style="font-weight: 400;">ATAC-seq kit features:</span></h4>
<ul>
<li><b>Cell<span> </span></b><b>requirement</b><b>:<span> </span></b><b>50,000<span> </span></b><b>cells /<span> </span></b><b>rxn</b></li>
<li><b>Robust protocol<span> </span></b>with<span> </span><b>high reproducibility<span> </span></b>between replicates and repetitive experiments</li>
<li><strong>Easy</strong><span> </span>and<span> </span><b>efficient DNA capture<span> </span></b>after the tagmentation reaction using Diagenode`s MicroChIP DiaPure columns (included)</li>
<li>Additional qPCR step to determine the number of cycles needed for library amplification: </li>
<ul type="”square”">
<li><b>Avoids<span> </span></b><b>over-amplification</b></li>
<li>Allows adaptation/flexibility for<span> </span><b>more challenging samples<span> </span></b>to succeed with library prep.</li>
<li>Gives<span> </span><strong>early indication</strong><span> </span>if the experiment does not work (no qPCR amplification)</li>
</ul>
</ul>
<p>Looking for ATAC-seq on tissue? Please, go to: <a href="https://www.diagenode.com/en/p/ATAC-seq-package-tissue-C01080006">ATAC-seq package for tissue</a></p>',
'label1' => 'Method overview',
'info1' => '<p><strong>ATAC-seq</strong>, <strong>A</strong>ssay for <strong>T</strong>ransposase-<strong>A</strong>ccessible <strong>C</strong>hromatin, followed by next generation sequencing, is a key technology to easily identify the <strong>open regions of the chromatin.</strong> The protocol consists of <strong>3 steps</strong>: <strong>nuclei preparation</strong>, <strong>tagmentation</strong> and <strong>library amplification</strong>. First, the cells undergo the lysis, ending with the crude nuclei. Then, the nuclei are incubated with a tagmentase (Tn5 transposase), which cuts the genomic regions associated with open chromatin and inserts the sequencing adaptors. Finally, the generated libraries are amplified and can be used for sequencing. High-throughput sequencing will then detect peaks, in open regions of the chromatin only, giving a map of the chromatin status in the whole genome of the sample.</p>
<p><img src="https://www.diagenode.com/img/product/kits/workflow-atac-seq.png" alt="ATAC-seq kit workflow" width="600px" caption="false" /></p>',
'label2' => 'Example of results',
'info2' => '<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig1.png" alt="library prepared with the Diagenode ATAC-seq kit " width="500px" caption="false" /></p>
<p><strong>Figure 1.</strong>Representative Bioanalyzer profile of an ATAC-seq library prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig2.png" alt="Diagenode ATAC-seq kit " caption="false" width="951" height="148" /></p>
<p><strong>Figure 2.</strong> Main ATAC-seq alignment and peak calling statistics of 3 replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells. (Mapping efficiency: Percentage of non-mitochondrial reads that mapped to the reference genome. Uniquely mapped ratio: Proportion of mapped reads that map to only one location on the reference genome (hg19). Peaks: Number of peaks (open chromatin regions) identified by MACS2 for each sample. FRiP - Fraction of reads in peaks: Percentage of reads in peaks, with respect to the number of uniquely mapped reads. Sequencing was realized in paired-end mode 50 base pairs (PE50) on an Illumina NovaSeq6000.)</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3a.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3b.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><strong>Figure 3</strong> Sequencing profiles of ATAC-seq library (3 replicates) prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig4.png" alt=" open chromatin regions" caption="false" width="383" height="739" /></p>
<p><strong>Figure 4. </strong><br /> Heatmap around TSS of three ATAC-seq replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>',
'label3' => 'Additional solutions for ATAC-seq kit',
'info3' => '<p><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></p>
<p>Magnetic rack:<span> </span><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag</a><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit"><span> </span>0.2 ml – Cat. No. B04000001</a></p>
<p>Additional supplies (included in the kit and available separately):</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">Tagmentase</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30"><span> </span>(Tn5 transposase)<span> </span></a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">loaded</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">, Cat. No. C01070012</a></li>
<li><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x">Tagmentation</a><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x"><span> </span>Buffer (2x), Cat. No. C01019043</a></li>
<li><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">MicroChIP</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">DiaPure</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">columns</a><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">, Cat. No. C03040001</a></li>
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'name' => 'iDeal CUT&Tag kit for Histones <br /> Compatible with histones and some non-histone proteins',
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<p><strong>CUT&Tag-sequencing</strong> (<strong>C</strong>leavage <strong>U</strong>nder <strong>T</strong>argets and <strong>Tag</strong>mentation) is a new alternative method to ChIP-seq combining antibody-targeted controlled cleavage by a protein A-Tn5 fusion with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins.</p>
<p><a href="https://www.diagenode.com/files/products/kits/iDeal-CUTandTag-kit-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
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<p>The Diagenode’s <strong>iDeal CUT&Tag kit for Histones</strong> provides an optimized protocol for a rapid chromatin profiling on <strong>histone marks</strong> and some <strong>non-histone proteins</strong>. The protocol is optimized for native cells (<strong>10,000-300,000</strong> cells per reaction) and can be completed within 1.5 days. The kit includes all reagents for cell processing, including CoA beads, pA-Tn5 and the DNA purification module. The antibodies (secondary antibodies, control antibodies) as well as primer indexes for multiplexing must be purchased separately.</p>
<p><strong>For a complete CUT&Tag protocol the following items must be purchased:</strong></p>
<ul>
<li><strong>iDeal CUT&Tag kit for Histones</strong> – including all reagents for CUT&Tag workflow (buffers, pA-Tn5, CoA beads, DNA purification)</li>
<li><strong>Antibody package for CUT&Tag: <a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antirabbit-24">anti-rabbit</a></strong> or <strong><a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antimouse-24">anti-mouse</a></strong> - including the secondary antibody, positive and negative control antibodies and primers</li>
<li><strong><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></strong> – for multiplexing up to 72 samples</li>
</ul>
<h3>iDeal CUT&Tag Kit features:</h3>
<ul>
<li><strong>Rapid</strong> and <strong>easy </strong>chromatin profiling assay for <strong>histones </strong>and<strong> some non-histone proteins</strong></li>
<ul style="margin-bottom: 0;">
<li>No chromatin preparation</li>
<li>Easy sample handling due to ConA magnetic beads</li>
<li>Integrated library prep</li>
</ul>
<li><strong>Low cell number</strong>: 10,000-300,000 cells</li>
<li><strong>Accurate amplification</strong> due to intermediate quantification step</li>
<li><strong>High resolution</strong> and <strong>sensitivity</strong></li>
<li><strong>Lower sequencing depth</strong></li>
</ul>
<p>The quality of antibody used in CUT&Tag is one of the crucial factors for assay success. The antibodies with confirmed high specificity will target only the protein of interest, enabling real results. Check out our selection of <strong><a href="https://www.diagenode.com/en/categories/cut-and-tag-antibodies">antibodies validated in CUT&Tag</a>.</strong></p>
<p>Looking for a standalone pA-Tn5? <a href="https://www.diagenode.com/en/products/view/3064">Read more</a>.</p>
<script src="chrome-extension://hhojmcideegachlhfgfdhailpfhgknjm/web_accessible_resources/index.js"></script>',
'label1' => 'Method overview',
'info1' => '<p>The iDeal CUT&Tag protocol involves the binding of cells on a solid phase ConA magnetic beads, allowing magnetic handling of the cells for the major steps of the protocol. Bead-bound cells are permeabilized, incubated with primary antibody against a target of interest and secondary antibody. Then, Diagenode’s protein pA-Tn5 Transposase - loaded is bound to the complex. Protein A guides Tn5 transposase on chromatin to the antibody attached to its target. Tn5 transposase is activated by Mg+2 ions to insert the sequencing adaptors into genomic regions of interest. DNA is then purified and the tagmented genomic regions of interest are amplified by PCR using Diagenode’s Primer Indexes for tagmented libraries.</p>
<p></p>
<p><img alt=" pA-Tn5 Antibody package for CUT & Tag" src="https://www.diagenode.com/img/product/kits/workflow-cutandtag.jpg" /></p>',
'label2' => 'Examples of results - histone marks',
'info2' => '<p>Successful CUT&Tag results showing a low background with high region-specific enrichment are presented below. Chromatin profiling has been performed on 50,000 K562 cells, using the Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020), the Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022), the 24 UDI for Tagmented Libraries (Cat.No. C01011034) and H3K4me3 (Cat. No. C15410003), H3K27me3 (Cat. No. C15410069) or H3H9me3 antibodies (Cat. No., C15410193) as indicated. The libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</p>
<p><br /> <img alt="CUT&Tag-sequencing" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1a.png" /> <img alt="CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1b.png" /> <img alt="Cleavage Under Targets and Tagmentation" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1c.png" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (Agilent Fragment traces) generated by the iDeal CUT&Tag protocol using 50,000 K562 cells and H3K27me3 (top), H3K4me4 (middle) primary antibodies and IgG control (bottom). Sharp peak at around 40 bp is an excess of <strong>free oligonucleotide used for pA-Tn5 loading</strong>.</p>
<p></p>
<p><br /><br /></p>
<div class="row">
<div class="small-4 columns">
<p><img alt="iDeal CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig2.png" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 2.</strong> Enrichments at TSS of the CUT&Tag libraries. The heatmap shows the enrichment around 3kb upstream and downstream of the TSS for H3K4me3. H3K4me3 as an active chromatin mark is associated with active promoters shows a narrow enrichment pattern.</p>
</div>
</div>
<p><br /><br /></p>
<p><br /> <img alt="iDeal CUT&Tag experiments of K562 cells " src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig3.png" /></p>
<p><strong>Figure 3.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 of K562 cells and H3K4me3 (blue), H3K27me3 (red) or H3K9me3 (green).</p>
<p><br /><br /></p>
<p><br /> <img alt="CUT&Tag experiments using 10,000 K562 cells" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig4.png" /></p>
<p><strong>Figure 4.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 (blue) or 10,000 (red)) of K562 cells and H3K27me3 antibody.</p>',
'label3' => 'Examples of results - transcription factors',
'info3' => '<p>Diagenode's<strong><span> iDeal CUT&Tag Kit for Histones</span></strong><span>, </span>developed for an efficient chromatin profiling on histone marks, can be used for profiling of <span>some transcription factors and co-factors using a mild fixation as described in the manual. </span></p>
<p><strong><span>Successful CUT&Tag results using CTCF and Suz12 antibodies and iDeal CUT&Tag Kit for Histones. </span></strong></p>
<p></p>
<p><span>Chromatin profiling of <strong>Suz12</strong> has been performed on 50,000 of fixed Mouse ES-E14TG2a cells (kindly provided by Luciano Di Croce, CRG, Spain) accordingly to the protocol of Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020). Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022) and the 24 UDI for Tagmented Libraries (Cat. No. C01011034) were used. The libraries were sized using Fragment Analyzer (Agilent) (triplicates, Figure 1, top). Relative enrichment has been confirmed by qPCR using know positive (T_Bra) and negative (Actb) loci (Figure 1, bottom). Libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</span></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1a.jpg" /><br /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1b.jpg" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (top) and relative enrichment (bottom) generated by the iDeal CUT&Tag protocol using 50,000 ES-E14TG2a cells and Suz12 Antibody and IgG control (bottom). Sharp peak at around 40 bp is an excess of free oligonucleotide used for pA-Tn5 loading which does not interfere with the sequencing.</p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for CTCF demonstrating the presence of high signal at promoter regions.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2a.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2b.jpg" /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2c.jpg" /></p>
<p></p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for SUZ12 and H3K27me3 triplicate samples, showing an overlap between the signal from both proteins, as part of the Polycomb Repressive Complex.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci1.jpg" width="100%" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci2.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci3.jpg" /></p>
<p><strong>Figure 2. IGV snapshots</strong></p>
<p></p>
<p></p>
<div class="row">
<div class="small-4 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig3.jpg" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 3. Heatmap around the TSS</strong><br /> Heatmap of the CTCF signal around the transcription start sites (TSS) of each gene present in the murine mm10 reference genome.</p>
</div>
</div>
<p></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig4.jpg" /></p>
<p><strong>Figure 4. CTCF motif</strong><br /> Presence of specific transcription factor binding motifs in the regions identified as CTCF peaks. The top3 motifs are corresponding to the CTCF binding motif.</p>
<p></p>
<p></p>
<div class="row">
<div class="small-6 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig5.jpg" /></p>
</div>
<div class="small-6 columns">
<p><strong>Figure 5. CTCF motif density</strong><br /> Location and density of the CTCF binding motif with respect to the center of the identified CTCF peaks.</p>
</div>
</div>
<p>
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'meta_description' => 'Rapid chromatin profiling assay, optimized protocol, all reagents provided. Easy sample handling due to ConA magnetic beads. Highly specific CUT&Tag grade antibodies available. ',
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'name' => 'ChIPmentation Kit for Histones',
'description' => '<p><a href="https://www.diagenode.com/files/products/kits/chipmentation-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
</ul>
<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
'label1' => 'Validation',
'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
<div class="row">
<div class="small-4 medium-4 large-4 columns"><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-2.png" /></div>
<div class="small-4 medium-4 large-4 columns"><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-3.png" /></div>
<div class="small-4 medium-4 large-4 columns"><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-4.png" /></div>
</div>
<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
'label2' => 'Additional solutions compatible with ChIPmentation Kit for Histones ',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
<ul>
<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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<p>Add <input name="data[Cart][quantity]" placeholder="1" value="1" min="1" style="width:60px;display:inline" type="number" id="CartQuantity" required="required"/> <strong> iDeal CUT&Tag kit for Histones <br /> Compatible with histones and some non-histone proteins</strong> to my shopping cart.</p>
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<p>Add <input name="data[Cart][quantity]" placeholder="1" value="1" min="1" style="width:60px;display:inline" type="number" id="CartQuantity" required="required"/> <strong> ChIPmentation Kit for Histones</strong> to my shopping cart.</p>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
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<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
<li>Validated for various <strong>histone marks</strong></li>
<li><strong>High quality</strong> sequencing data</li>
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'info1' => '<p>ChIPmentation is based on tagmentation that allows library preparation to be integrated during the ChIP itself using transposase and sequencing-compatible adaptors. Our new improved µChIPmentation protocol combines 3 features for guaranteeing high quality sequencing data on small sample inputs 1) optimized chromatin shearing preparation protocol, 2) reduced number of steps, 3) reduced number of sample transfer from tube to tube - only 3 tubes per sample for the whole process, from cell fixation to purified libraries.</p>
<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
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<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
</div>
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<div class="extra-spaced">
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="extra-spaced">
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<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
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<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
</ul>
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'info1' => '<p>The <b>24 UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries – Set I </b>is compatible with any <b>tagmentation</b><b>-based library preparation </b>protocols, such as <strong>ChIPmentation</strong>, <b>ATAC-seq</b> or <b>CUT&Tag</b> technologies.</p>
<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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'name' => 'ATAC-seq kit',
'description' => '<p><a href="https://www.diagenode.com/files/products/kits/atacseq-kit-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
<div class="row">
<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>ATAC-seq</strong>, Assay for<span> </span><strong>T</strong>ransposase-<strong>A</strong>ccessible<span> </span><strong>C</strong>hromatin, followed by next generation sequencing, is a key technology for genome-wide mapping of accessible chromatin. The technology is based on the use of the<span> </span><strong>transposase Tn5</strong><span> </span>which cuts exposed open chromatin and simultaneously ligates adapters for subsequent amplification and sequencing. ATAC-seq methods allow you to:</p>
<ul>
<li> Gain insight into gene regulation and understand open chromatin signatures</li>
<li> Determine nucleosome positions at single nucleotide resolution</li>
<li> Uncover transcription factor (TF) occupancy</li>
</ul>
</div>
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<p>Diagenode’s<span> </span><b>ATAC-</b><b>seq</b><b><span> </span>kit<span> </span></b>is based on a highly validated protocol optimized for<span> </span><b>50,000<span> </span></b><b>cells</b><b><span> </span>per<span> </span></b><b>reaction</b>. The kit includes the reagents for cell lysis and nuclei extraction, tagmentation and DNA purification as well as for library amplification. The <a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">primer indexes for multiplexing</a> are not included in the kit and must be purchased separately.</p>
<h4><span style="font-weight: 400;">ATAC-seq kit features:</span></h4>
<ul>
<li><b>Cell<span> </span></b><b>requirement</b><b>:<span> </span></b><b>50,000<span> </span></b><b>cells /<span> </span></b><b>rxn</b></li>
<li><b>Robust protocol<span> </span></b>with<span> </span><b>high reproducibility<span> </span></b>between replicates and repetitive experiments</li>
<li><strong>Easy</strong><span> </span>and<span> </span><b>efficient DNA capture<span> </span></b>after the tagmentation reaction using Diagenode`s MicroChIP DiaPure columns (included)</li>
<li>Additional qPCR step to determine the number of cycles needed for library amplification: </li>
<ul type="”square”">
<li><b>Avoids<span> </span></b><b>over-amplification</b></li>
<li>Allows adaptation/flexibility for<span> </span><b>more challenging samples<span> </span></b>to succeed with library prep.</li>
<li>Gives<span> </span><strong>early indication</strong><span> </span>if the experiment does not work (no qPCR amplification)</li>
</ul>
</ul>
<p>Looking for ATAC-seq on tissue? Please, go to: <a href="https://www.diagenode.com/en/p/ATAC-seq-package-tissue-C01080006">ATAC-seq package for tissue</a></p>',
'label1' => 'Method overview',
'info1' => '<p><strong>ATAC-seq</strong>, <strong>A</strong>ssay for <strong>T</strong>ransposase-<strong>A</strong>ccessible <strong>C</strong>hromatin, followed by next generation sequencing, is a key technology to easily identify the <strong>open regions of the chromatin.</strong> The protocol consists of <strong>3 steps</strong>: <strong>nuclei preparation</strong>, <strong>tagmentation</strong> and <strong>library amplification</strong>. First, the cells undergo the lysis, ending with the crude nuclei. Then, the nuclei are incubated with a tagmentase (Tn5 transposase), which cuts the genomic regions associated with open chromatin and inserts the sequencing adaptors. Finally, the generated libraries are amplified and can be used for sequencing. High-throughput sequencing will then detect peaks, in open regions of the chromatin only, giving a map of the chromatin status in the whole genome of the sample.</p>
<p><img src="https://www.diagenode.com/img/product/kits/workflow-atac-seq.png" alt="ATAC-seq kit workflow" width="600px" caption="false" /></p>',
'label2' => 'Example of results',
'info2' => '<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig1.png" alt="library prepared with the Diagenode ATAC-seq kit " width="500px" caption="false" /></p>
<p><strong>Figure 1.</strong>Representative Bioanalyzer profile of an ATAC-seq library prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig2.png" alt="Diagenode ATAC-seq kit " caption="false" width="951" height="148" /></p>
<p><strong>Figure 2.</strong> Main ATAC-seq alignment and peak calling statistics of 3 replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells. (Mapping efficiency: Percentage of non-mitochondrial reads that mapped to the reference genome. Uniquely mapped ratio: Proportion of mapped reads that map to only one location on the reference genome (hg19). Peaks: Number of peaks (open chromatin regions) identified by MACS2 for each sample. FRiP - Fraction of reads in peaks: Percentage of reads in peaks, with respect to the number of uniquely mapped reads. Sequencing was realized in paired-end mode 50 base pairs (PE50) on an Illumina NovaSeq6000.)</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3a.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig3b.png" alt="Assay for Transposase-Accessible Chromatin" width="500px" caption="false" /></p>
<p><strong>Figure 3</strong> Sequencing profiles of ATAC-seq library (3 replicates) prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>
<p><img src="https://www.diagenode.com/img/product/kits/atacseq-fig4.png" alt=" open chromatin regions" caption="false" width="383" height="739" /></p>
<p><strong>Figure 4. </strong><br /> Heatmap around TSS of three ATAC-seq replicates prepared with the Diagenode ATAC-seq kit and 24 UDI for tagmented libraries (Cat. No. C01011034) on 50,000 nuclei from K562 cells.</p>',
'label3' => 'Additional solutions for ATAC-seq kit',
'info3' => '<p><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></p>
<p>Magnetic rack:<span> </span><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag</a><a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit"><span> </span>0.2 ml – Cat. No. B04000001</a></p>
<p>Additional supplies (included in the kit and available separately):</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">Tagmentase</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30"><span> </span>(Tn5 transposase)<span> </span></a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">loaded</a><a href="https://www.diagenode.com/en/p/tagmentase-loaded-30">, Cat. No. C01070012</a></li>
<li><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x">Tagmentation</a><a href="https://www.diagenode.com/en/p/tagmentation-buffer-2x"><span> </span>Buffer (2x), Cat. No. C01019043</a></li>
<li><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">MicroChIP</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">DiaPure</a><span> </span><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">columns</a><a href="https://www.diagenode.com/en/p/microchip-diapure-columns-50-rxns">, Cat. No. C03040001</a></li>
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'name' => 'iDeal CUT&Tag kit for Histones <br /> Compatible with histones and some non-histone proteins',
'description' => '<p><a href="https://www.diagenode.com/files/application_notes/AN-iDealCUTandTag.pdf"><img src="https://www.diagenode.com/img/banners/cutandtag-appnote.png" /></a></p>
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<div class="small-12 medium-8 large-8 columns"><br />
<p><strong>CUT&Tag-sequencing</strong> (<strong>C</strong>leavage <strong>U</strong>nder <strong>T</strong>argets and <strong>Tag</strong>mentation) is a new alternative method to ChIP-seq combining antibody-targeted controlled cleavage by a protein A-Tn5 fusion with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins.</p>
<p><a href="https://www.diagenode.com/files/products/kits/iDeal-CUTandTag-kit-for-histones-manual.pdf"><img src="https://www.diagenode.com/img/buttons/bt-manual.png" /></a></p>
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<p>The Diagenode’s <strong>iDeal CUT&Tag kit for Histones</strong> provides an optimized protocol for a rapid chromatin profiling on <strong>histone marks</strong> and some <strong>non-histone proteins</strong>. The protocol is optimized for native cells (<strong>10,000-300,000</strong> cells per reaction) and can be completed within 1.5 days. The kit includes all reagents for cell processing, including CoA beads, pA-Tn5 and the DNA purification module. The antibodies (secondary antibodies, control antibodies) as well as primer indexes for multiplexing must be purchased separately.</p>
<p><strong>For a complete CUT&Tag protocol the following items must be purchased:</strong></p>
<ul>
<li><strong>iDeal CUT&Tag kit for Histones</strong> – including all reagents for CUT&Tag workflow (buffers, pA-Tn5, CoA beads, DNA purification)</li>
<li><strong>Antibody package for CUT&Tag: <a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antirabbit-24">anti-rabbit</a></strong> or <strong><a href="https://www.diagenode.com/en/p/antibody-package-cut-and-tag-antimouse-24">anti-mouse</a></strong> - including the secondary antibody, positive and negative control antibodies and primers</li>
<li><strong><a href="https://www.diagenode.com/en/categories/primer-indexes-for-tagmented-libraries">Primer indexes for tagmented libraries</a></strong> – for multiplexing up to 72 samples</li>
</ul>
<h3>iDeal CUT&Tag Kit features:</h3>
<ul>
<li><strong>Rapid</strong> and <strong>easy </strong>chromatin profiling assay for <strong>histones </strong>and<strong> some non-histone proteins</strong></li>
<ul style="margin-bottom: 0;">
<li>No chromatin preparation</li>
<li>Easy sample handling due to ConA magnetic beads</li>
<li>Integrated library prep</li>
</ul>
<li><strong>Low cell number</strong>: 10,000-300,000 cells</li>
<li><strong>Accurate amplification</strong> due to intermediate quantification step</li>
<li><strong>High resolution</strong> and <strong>sensitivity</strong></li>
<li><strong>Lower sequencing depth</strong></li>
</ul>
<p>The quality of antibody used in CUT&Tag is one of the crucial factors for assay success. The antibodies with confirmed high specificity will target only the protein of interest, enabling real results. Check out our selection of <strong><a href="https://www.diagenode.com/en/categories/cut-and-tag-antibodies">antibodies validated in CUT&Tag</a>.</strong></p>
<p>Looking for a standalone pA-Tn5? <a href="https://www.diagenode.com/en/products/view/3064">Read more</a>.</p>
<script src="chrome-extension://hhojmcideegachlhfgfdhailpfhgknjm/web_accessible_resources/index.js"></script>',
'label1' => 'Method overview',
'info1' => '<p>The iDeal CUT&Tag protocol involves the binding of cells on a solid phase ConA magnetic beads, allowing magnetic handling of the cells for the major steps of the protocol. Bead-bound cells are permeabilized, incubated with primary antibody against a target of interest and secondary antibody. Then, Diagenode’s protein pA-Tn5 Transposase - loaded is bound to the complex. Protein A guides Tn5 transposase on chromatin to the antibody attached to its target. Tn5 transposase is activated by Mg+2 ions to insert the sequencing adaptors into genomic regions of interest. DNA is then purified and the tagmented genomic regions of interest are amplified by PCR using Diagenode’s Primer Indexes for tagmented libraries.</p>
<p></p>
<p><img alt=" pA-Tn5 Antibody package for CUT & Tag" src="https://www.diagenode.com/img/product/kits/workflow-cutandtag.jpg" /></p>',
'label2' => 'Examples of results - histone marks',
'info2' => '<p>Successful CUT&Tag results showing a low background with high region-specific enrichment are presented below. Chromatin profiling has been performed on 50,000 K562 cells, using the Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020), the Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022), the 24 UDI for Tagmented Libraries (Cat.No. C01011034) and H3K4me3 (Cat. No. C15410003), H3K27me3 (Cat. No. C15410069) or H3H9me3 antibodies (Cat. No., C15410193) as indicated. The libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</p>
<p><br /> <img alt="CUT&Tag-sequencing" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1a.png" /> <img alt="CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1b.png" /> <img alt="Cleavage Under Targets and Tagmentation" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig1c.png" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (Agilent Fragment traces) generated by the iDeal CUT&Tag protocol using 50,000 K562 cells and H3K27me3 (top), H3K4me4 (middle) primary antibodies and IgG control (bottom). Sharp peak at around 40 bp is an excess of <strong>free oligonucleotide used for pA-Tn5 loading</strong>.</p>
<p></p>
<p><br /><br /></p>
<div class="row">
<div class="small-4 columns">
<p><img alt="iDeal CUT&Tag kit for Histones" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig2.png" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 2.</strong> Enrichments at TSS of the CUT&Tag libraries. The heatmap shows the enrichment around 3kb upstream and downstream of the TSS for H3K4me3. H3K4me3 as an active chromatin mark is associated with active promoters shows a narrow enrichment pattern.</p>
</div>
</div>
<p><br /><br /></p>
<p><br /> <img alt="iDeal CUT&Tag experiments of K562 cells " src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig3.png" /></p>
<p><strong>Figure 3.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 of K562 cells and H3K4me3 (blue), H3K27me3 (red) or H3K9me3 (green).</p>
<p><br /><br /></p>
<p><br /> <img alt="CUT&Tag experiments using 10,000 K562 cells" src="https://www.diagenode.com/img/product/cutandtag/C01070020-cuttag-fig4.png" /></p>
<p><strong>Figure 4.</strong> Sequencing profiles of the CUT&Tag libraries. Integrative genomics viewer (IGV) visualization of CUT&Tag experiments using 50,000 (blue) or 10,000 (red)) of K562 cells and H3K27me3 antibody.</p>',
'label3' => 'Examples of results - transcription factors',
'info3' => '<p>Diagenode's<strong><span> iDeal CUT&Tag Kit for Histones</span></strong><span>, </span>developed for an efficient chromatin profiling on histone marks, can be used for profiling of <span>some transcription factors and co-factors using a mild fixation as described in the manual. </span></p>
<p><strong><span>Successful CUT&Tag results using CTCF and Suz12 antibodies and iDeal CUT&Tag Kit for Histones. </span></strong></p>
<p></p>
<p><span>Chromatin profiling of <strong>Suz12</strong> has been performed on 50,000 of fixed Mouse ES-E14TG2a cells (kindly provided by Luciano Di Croce, CRG, Spain) accordingly to the protocol of Diagenode’s iDeal CUT&Tag kit for Histones (Cat. No. C01070020). Antibody Package for CUT&Tag anti rabbit (Cat. No. C01070022) and the 24 UDI for Tagmented Libraries (Cat. No. C01011034) were used. The libraries were sized using Fragment Analyzer (Agilent) (triplicates, Figure 1, top). Relative enrichment has been confirmed by qPCR using know positive (T_Bra) and negative (Actb) loci (Figure 1, bottom). Libraries were sequenced on Illumina’s NovaSeq6000 in 2x50 bp mode.</span></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1a.jpg" /><br /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig1b.jpg" /></p>
<p><strong>Figure 1.</strong> Typical library profiles (top) and relative enrichment (bottom) generated by the iDeal CUT&Tag protocol using 50,000 ES-E14TG2a cells and Suz12 Antibody and IgG control (bottom). Sharp peak at around 40 bp is an excess of free oligonucleotide used for pA-Tn5 loading which does not interfere with the sequencing.</p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for CTCF demonstrating the presence of high signal at promoter regions.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2a.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2b.jpg" /> <img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-Fig2c.jpg" /></p>
<p></p>
<p></p>
<p>Pictures of representative loci were taken on Integrative Genome Viewer (IGV) for SUZ12 and H3K27me3 triplicate samples, showing an overlap between the signal from both proteins, as part of the Polycomb Repressive Complex.</p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci1.jpg" width="100%" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci2.jpg" /><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig2-loci3.jpg" /></p>
<p><strong>Figure 2. IGV snapshots</strong></p>
<p></p>
<p></p>
<div class="row">
<div class="small-4 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig3.jpg" /></p>
</div>
<div class="small-8 columns">
<p><strong>Figure 3. Heatmap around the TSS</strong><br /> Heatmap of the CTCF signal around the transcription start sites (TSS) of each gene present in the murine mm10 reference genome.</p>
</div>
</div>
<p></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig4.jpg" /></p>
<p><strong>Figure 4. CTCF motif</strong><br /> Presence of specific transcription factor binding motifs in the regions identified as CTCF peaks. The top3 motifs are corresponding to the CTCF binding motif.</p>
<p></p>
<p></p>
<div class="row">
<div class="small-6 columns">
<p><img src="https://www.diagenode.com/img/product/cutandtag/C01070020-TF-fig5.jpg" /></p>
</div>
<div class="small-6 columns">
<p><strong>Figure 5. CTCF motif density</strong><br /> Location and density of the CTCF binding motif with respect to the center of the identified CTCF peaks.</p>
</div>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
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<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
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<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
<p>Features:</p>
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<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><b>ChIPmentation</b> is a method that combines <b>chromatin </b><b>immunoprecipiation</b> and <b>tagmentation</b><b>-based library preparation </b>using a fast and robust ChIP-seq protocol for studying <b>protein/DNA interactions</b>. In this method, following chromatin immunoprecipitation, the sequencing libraries are created directly on the chromatin-antibody-beads complex by the Tagmentase (Tn5 transposase) loaded with sequencing adapters. </p>
<p>The <b>ChIPmentation</b><b> Kit for Histones </b>includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The <b>primer indexes </b>for multiplexing are <b>not included</b> in the kit and have to be purchase separately:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">libraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
</ul>
<p><b>Benefits of the </b><b>ChIPmentation</b><b> system for histone </b><b>ChIP</b><b>-seq</b></p>
<ul>
<li>Easier and faster than classical ChIP-seq</li>
<li>Validated for various histone marks for a standard amount of cells</li>
<li>Generate high quality sequencing data</li>
</ul>
<p>For low input samples (10,000 cells) we recommend the <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">µChIPmentation kit for Histones</a>.</p>
<p>For ChIP-seq on transcription factors we recommend the <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">iDeal</a> <a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">ChIP-seq</a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns"> for transcription </a><a href="https://www.diagenode.com/en/p/ideal-chip-seq-kit-for-transcription-factors-x24-24-rxns">factors</a> + <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG kit for </a><a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">ChIPmentation</a></p>',
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'info1' => '<p>The Diagenode ChIPmentation technology has been tested on histone marks and compared to available datasets from the ENCODE project (Figure 1). ChIPmentation generated high quality data with low background. In addition, more than 99% of the top 40% peaks obtained with auto-ChIPmentation overlap with ENCODE datasets, which shows that ChIP-seq data obtained with ChIPmentation are highly reliable.</p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-1.png" /></p>
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<p><small><b>Figure 1: </b><b>ChIPmentation</b> <b>sequencing</b> <b>results</b> <b>obtained</b> <b>from</b> <b>decreasing</b> <b>starting</b> <b>amounts</b><b> of </b><b>cells</b><b>.<br /> </b><br /> Chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. no. C01011009) and 24 SI for ChIPmentation (Cat. No. C01011031). Diluted chromatin from 100.000, 10.000 and 5.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003). A. Distribution of the ChIPmentation readsets in a representative region of the genome. B., C. and D. Comparison of the top 40% peaks from 100.000 (B.), 10,000 (C.) and 5.000 (D.) cells with ENCODE dataset.</small></p>
<p></p>
<p><img src="https://www.diagenode.com/img/product/kits/ChIPmentation-for-histone-5.png" /></p>
<p><small><b>Figure 2: </b><b>ChIPmentation</b><b> sequencing results.</b></small></p>
<p>Chromatin preparation has been performed on 7 M HeLa cells using the ChIPmentation Kit for Histones and 24 SI for ChIPmentation. Diluted chromatin from 100.000 cells was used for the immunoprecipitation with the Diagenode antibody targeting H3K4me3 (Cat. no. C15410003) and H3K27me3 (Cat. no. C15410195) and IgG (Cat. no. C15410206).</p>',
'label2' => 'Additional solutions compatible with ChIPmentation Kit for Histones ',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">Chromatin shearing optimization kit - Low SDS (</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells">iDeal</a><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-low-sds-100-million-cells"> Kit for Histones)</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">ChIP</a><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies">-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for tagmenteted libraries:</p>
<ul>
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">24 SI for </a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries"> libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">8 SI for </a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries">Tagmented</a><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries"> libraries Cat. No. C01011033</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for </a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">Tagmented</a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1"> libraries, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for </a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">Tagmented</a> <a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">lilbraries</a><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">, Cat. No. C0101135</a></li>
</ul>
<p>The kit ChIPmentation for Histones is validated on the <a href="https://www.diagenode.com/en/categories/ip-star">IP-Star Compact System </a>and the corresponding protocol is included in the manual.</p>',
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
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<li>Allow for <b>identification of index hopping</b></li>
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'info1' => '<p>The <b>24 UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries – Set I </b>is compatible with any <b>tagmentation</b><b>-based library preparation </b>protocols, such as <strong>ChIPmentation</strong>, <b>ATAC-seq</b> or <b>CUT&Tag</b> technologies.</p>
<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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