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'description' => '<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
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<h3>MBD-seq allows for detection of genomic regions with different CpG density</h3>
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
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<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<div class="small-12 medium-3 large-3 columns"><center><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank"><img src="https://www.diagenode.com/img/banners/banner-nature-publication-580.png" /></a></center></div>
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<h3>Sensitive tumour detection and classification using plasma cell-free DNA methylomes<br /><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank">Read the publication</a></h3>
<h3 class="c-article-title u-h1" data-test="article-title" itemprop="name headline">Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA<br /><a href="https://www.nature.com/articles/s41596-019-0202-2" target="_blank" title="cfMeDIP-seq Nature Method">Read the method</a></h3>
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<div class="large-12 columns"><span>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</span><br />
<h2></h2>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
<h2>Applications</h2>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-seq-package-V2-x10" class="center alert radius button"> NGS analysis </a></div>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
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<p>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</p>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
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<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> NGS analysis </a></div>
<h2>Advantages</h2>
<ul style="font-size: 19px;" class="nobullet">
<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>Robust</strong> & <strong>reproducible</strong> techniques</li>
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<p><strong>This manual concerns:</strong></p>
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<li><strong>MagMeDIP x48 batch #15 and before;</strong></li>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP). </span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</div>
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<p><strong>This manual concerns:</strong></p>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
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'authors' => 'Patil Vibha, Cuenin Cyrille, Chung Felicia, Aguilera Jesus R Rodriguez, Fernandez-Jimenez Nora, Romero-Garmendia Irati, Bilbao Jose Ramon, Cahais Vincent, Rothwell Joseph, Herceg Zdenko',
'description' => '<p>Mitochondrial dysfunction plays critical roles in cancer development and related therapeutic response; however, exact molecular mechanisms remain unclear. Recently, alongside the discovery of mitochondrial-specific DNA methyltransferases, global and site-specific methylation of the mitochondrial genome has been described. Investigation of any functional consequences however remains unclear and debated due to insufficient evidence of the quantitative degree and frequency of mitochondrial DNA (mtDNA) methylation. This study uses WGBS to provide the first quantitative report of mtDNA methylation at single base pair resolution. The data show that mitochondrial genomes are extensively methylated predominantly at non-CpG sites. Importantly, these methylation patterns display notable differences between normal and cancer cells. Furthermore, knockdown of DNA methyltransferase enzymes resulted in a marked global reduction of mtDNA methylation levels, indicating these enzymes may be associated with the establishment and/or maintenance of mtDNA methylation. DNMT3B knockdown cells displayed a comparatively pronounced global reduction in mtDNA methylation with concomitant increases in gene expression, suggesting a potential functional link between methylation and gene expression. Together these results demonstrate reproducible, non-random methylation patterns of mtDNA and challenge the notion that mtDNA is lowlymethylated. This study discusses key differences in methodology that suggest future investigations must allow for techniques that assess both CpG and non-CpG methylation.</p>',
'date' => '2019-08-23',
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'description' => '<p>This chapter describes methods related to the diagnosis of genetic dental diseases. Based on the present knowledge, clinical phenotyping and next-generation sequencing techniques are discussed. Methods necessary for Sanger sequencing, multiplex ligation-dependent probe amplification, and epigenetic modification methods are detailed. In addition, protocols for cell culture establishment and characterization from patients with inherited dental anomalies are described.</p>',
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'description' => '<p>The canine transmissible venereal tumor (CTVT) is a clonally transmissible cancer that regresses spontaneously or after treatment with vincristine, but we know little about the regression mechanisms. We performed global transcriptional, methylation, and functional pathway analyses on serial biopsies of vincristine-treated CTVTs and found that regression occurs in sequential steps; activation of the innate immune system and host epithelial tissue remodeling followed by immune infiltration of the tumor, arrest in the cell cycle, and repair of tissue damage. We identified CCL5 as a possible driver of CTVT regression. Changes in gene expression are associated with methylation changes at specific intragenic sites. Our results underscore the critical role of host innate immunity in triggering cancer regression.</p>',
'date' => '2018-04-09',
'pmid' => 'http://www.pubmed.gov/29634949',
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'authors' => 'Staunstrup N.H. et al.',
'description' => '<p><b></b>Background: Interrogation of DNA methylation profiles hold promise for improved diagnostics, as well as the delineation of the aetiology for common human diseases. However, as the primary tissue of the disease is often inaccessible without complicated and inconvenient interventions, there is an increasing interest in peripheral surrogate tissues. Whereas most work has been conducted on blood, saliva is now becoming recognized as an interesting alternative due to the simple and non-invasive manner of collection allowing for self-sampling. Results: In this study we have evaluated if saliva samples are suitable for DNA methylation studies using methylated DNA immunoprecipitation coupled to next-generation sequencing (MeDIP-seq). This was done by comparing the DNA methylation profile in saliva against the benchmark profile of peripheral blood from three individuals. We show that the output, quality, and depth of paired-end 50 bp sequencing reads are comparable between saliva and peripheral blood and, moreover, that the distribution of reads along genomic regions are similar and follow canonical methylation patterns. Conclusion: In summary, we show that high-quality MeDIP-seq data can be generated using saliva, thus supporting the future use of saliva in the generation of DNA methylation information at annotated genes, non-RefSeq genes, and repetitive elements relevant to human disease.</p>',
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'description' => '<p>We here characterize the usability of archival formalin-fixed paraffin-embedded (FFPE) brain tissue as a resource for genetic and DNA methylation analyses with potential relevance for brain-manifested diseases. We analyzed FFPE samples from The Brain Collection, Aarhus University Hospital Risskov, Denmark (AUBC), constituting 9479 formalin-fixated brains making it one of the largest collections worldwide. DNA extracted from brain FFPE tissue blocks was interrogated for quality and usability in genetic and DNA methylation analyses by different molecular techniques. Overall, we found that DNA quality was inversely correlated with storage time and DNA quality was insufficient for Illumina methylation arrays; data from methylated DNA immunoprecipitation, clonal bisulfite sequencing, and pyrosequencing of BDNF and ST6GALNAC1 suggested that the original methylation pattern is indeed preserved. Proof-of-principle experiments predicting sex based on the methylation status of the X-inactivated SLC9A7 gene, or genotype differences of the Y and X chromosomes, showed consistency between predicted and actual sex for a subset of FFPE samples. In conclusion, even though DNA from FFPE samples is of low quality and technically challenging, it is likely that a subset of samples can provide reliable data given that the methodology used is designed for small DNA fragments. We propose that simple PCR-based quality control experiments at the genetic and DNA methylation level, carried out at the beginning of any given project, can be used to enrich for the best-performing FFPE samples. The apparent preservation of genetic and DNA methylation patterns in archival FFPE samples may bring along new perspectives for the identification of genetic and epigenetic changes associated with brain-manifested diseases.</p>',
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'description' => '<p>A mammalian cell utilizes DNA methylation to modulate gene expression in response to environmental changes during development and differentiation. Aberrant DNA methylation changes as a correlate to diseased states like cancer, neurodegenerative conditions and cardiovascular diseases have been documented. Here we show genome-wide DNA methylation changes in macrophages infected with the pathogen <i>M. tuberculosis</i>. Majority of the affected genomic loci were hypermethylated in <i>M. tuberculosis</i> infected THP1 macrophages. Hotspots of differential DNA methylation were enriched in genes involved in immune response and chromatin reorganization. Importantly, DNA methylation changes were observed predominantly for cytosines present in non-CpG dinucleotide context. This observation was consistent with our previous finding that the mycobacterial DNA methyltransferase, Rv2966c, targets non-CpG dinucleotides in the host DNA during <i>M. tuberculosis</i> infection and reiterates the hypothesis that pathogenic bacteria use non-canonical epigenetic strategies during infection.</p>',
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'description' => '<p><span></span>The reference C02010014 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns">C02010021</a><span>. </span> </p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
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<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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'name' => 'Auto MagMeDIP qPCR Kit - ordering reference: C02010020 ',
'description' => '<p><span>The reference C02010013 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x10-10-rxns">C02010020</a>.</span></p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto hMeDIP kit x16 (monoclonal mouse antibody)</h6>
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<li>
<div class="row">
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<a href="/cn/p/auto-methylcap-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02020011</span>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto MethylCap kit</h6>
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<div class="small-12 columns">
<a href="/cn/p/auto-premium-bisulfite-kit-40-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02030031</span>
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<button class="alert small button expand" onclick="$(this).addToCart('Auto Premium Bisulfite kit',
'C02030031',
'240',
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<h6 style="height:60px">Auto Premium Bisulfite kit</h6>
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<li>
<div class="row">
<div class="small-12 columns">
<a href="/cn/p/auto-magmedip-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<h6 style="height:60px">Auto MagMeDIP qPCR Kit</h6>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><strong>This manual concerns:</strong></p>
<ul>
<li><strong>MagMeDIP x48 batch #16 and after;</strong></li>
<li><strong>MagMeDIP x10 batch #7A and after.</strong></li>
</ul>
<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
<p><span></span></p>
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'date' => '2016-04-26',
'pmid' => 'http://www.nature.com/articles/srep25006',
'doi' => '10.1038/srep25006',
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'description' => '<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
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<h3>MBD-seq allows for detection of genomic regions with different CpG density</h3>
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
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<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<div class="small-12 medium-3 large-3 columns"><center><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank"><img src="https://www.diagenode.com/img/banners/banner-nature-publication-580.png" /></a></center></div>
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<h3>Sensitive tumour detection and classification using plasma cell-free DNA methylomes<br /><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank">Read the publication</a></h3>
<h3 class="c-article-title u-h1" data-test="article-title" itemprop="name headline">Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA<br /><a href="https://www.nature.com/articles/s41596-019-0202-2" target="_blank" title="cfMeDIP-seq Nature Method">Read the method</a></h3>
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<div class="large-12 columns"><span>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</span><br />
<h2></h2>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
<h2>Applications</h2>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-seq-package-V2-x10" class="center alert radius button"> NGS analysis </a></div>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
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<p>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</p>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
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<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> NGS analysis </a></div>
<h2>Advantages</h2>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>Robust</strong> & <strong>reproducible</strong> techniques</li>
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<p><strong>This manual concerns:</strong></p>
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<li><strong>MagMeDIP x48 batch #15 and before;</strong></li>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP). </span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</div>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
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'authors' => 'Patil Vibha, Cuenin Cyrille, Chung Felicia, Aguilera Jesus R Rodriguez, Fernandez-Jimenez Nora, Romero-Garmendia Irati, Bilbao Jose Ramon, Cahais Vincent, Rothwell Joseph, Herceg Zdenko',
'description' => '<p>Mitochondrial dysfunction plays critical roles in cancer development and related therapeutic response; however, exact molecular mechanisms remain unclear. Recently, alongside the discovery of mitochondrial-specific DNA methyltransferases, global and site-specific methylation of the mitochondrial genome has been described. Investigation of any functional consequences however remains unclear and debated due to insufficient evidence of the quantitative degree and frequency of mitochondrial DNA (mtDNA) methylation. This study uses WGBS to provide the first quantitative report of mtDNA methylation at single base pair resolution. The data show that mitochondrial genomes are extensively methylated predominantly at non-CpG sites. Importantly, these methylation patterns display notable differences between normal and cancer cells. Furthermore, knockdown of DNA methyltransferase enzymes resulted in a marked global reduction of mtDNA methylation levels, indicating these enzymes may be associated with the establishment and/or maintenance of mtDNA methylation. DNMT3B knockdown cells displayed a comparatively pronounced global reduction in mtDNA methylation with concomitant increases in gene expression, suggesting a potential functional link between methylation and gene expression. Together these results demonstrate reproducible, non-random methylation patterns of mtDNA and challenge the notion that mtDNA is lowlymethylated. This study discusses key differences in methodology that suggest future investigations must allow for techniques that assess both CpG and non-CpG methylation.</p>',
'date' => '2019-08-23',
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'description' => '<p>This chapter describes methods related to the diagnosis of genetic dental diseases. Based on the present knowledge, clinical phenotyping and next-generation sequencing techniques are discussed. Methods necessary for Sanger sequencing, multiplex ligation-dependent probe amplification, and epigenetic modification methods are detailed. In addition, protocols for cell culture establishment and characterization from patients with inherited dental anomalies are described.</p>',
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'description' => '<p>The canine transmissible venereal tumor (CTVT) is a clonally transmissible cancer that regresses spontaneously or after treatment with vincristine, but we know little about the regression mechanisms. We performed global transcriptional, methylation, and functional pathway analyses on serial biopsies of vincristine-treated CTVTs and found that regression occurs in sequential steps; activation of the innate immune system and host epithelial tissue remodeling followed by immune infiltration of the tumor, arrest in the cell cycle, and repair of tissue damage. We identified CCL5 as a possible driver of CTVT regression. Changes in gene expression are associated with methylation changes at specific intragenic sites. Our results underscore the critical role of host innate immunity in triggering cancer regression.</p>',
'date' => '2018-04-09',
'pmid' => 'http://www.pubmed.gov/29634949',
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'authors' => 'Staunstrup N.H. et al.',
'description' => '<p><b></b>Background: Interrogation of DNA methylation profiles hold promise for improved diagnostics, as well as the delineation of the aetiology for common human diseases. However, as the primary tissue of the disease is often inaccessible without complicated and inconvenient interventions, there is an increasing interest in peripheral surrogate tissues. Whereas most work has been conducted on blood, saliva is now becoming recognized as an interesting alternative due to the simple and non-invasive manner of collection allowing for self-sampling. Results: In this study we have evaluated if saliva samples are suitable for DNA methylation studies using methylated DNA immunoprecipitation coupled to next-generation sequencing (MeDIP-seq). This was done by comparing the DNA methylation profile in saliva against the benchmark profile of peripheral blood from three individuals. We show that the output, quality, and depth of paired-end 50 bp sequencing reads are comparable between saliva and peripheral blood and, moreover, that the distribution of reads along genomic regions are similar and follow canonical methylation patterns. Conclusion: In summary, we show that high-quality MeDIP-seq data can be generated using saliva, thus supporting the future use of saliva in the generation of DNA methylation information at annotated genes, non-RefSeq genes, and repetitive elements relevant to human disease.</p>',
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'description' => '<p>We here characterize the usability of archival formalin-fixed paraffin-embedded (FFPE) brain tissue as a resource for genetic and DNA methylation analyses with potential relevance for brain-manifested diseases. We analyzed FFPE samples from The Brain Collection, Aarhus University Hospital Risskov, Denmark (AUBC), constituting 9479 formalin-fixated brains making it one of the largest collections worldwide. DNA extracted from brain FFPE tissue blocks was interrogated for quality and usability in genetic and DNA methylation analyses by different molecular techniques. Overall, we found that DNA quality was inversely correlated with storage time and DNA quality was insufficient for Illumina methylation arrays; data from methylated DNA immunoprecipitation, clonal bisulfite sequencing, and pyrosequencing of BDNF and ST6GALNAC1 suggested that the original methylation pattern is indeed preserved. Proof-of-principle experiments predicting sex based on the methylation status of the X-inactivated SLC9A7 gene, or genotype differences of the Y and X chromosomes, showed consistency between predicted and actual sex for a subset of FFPE samples. In conclusion, even though DNA from FFPE samples is of low quality and technically challenging, it is likely that a subset of samples can provide reliable data given that the methodology used is designed for small DNA fragments. We propose that simple PCR-based quality control experiments at the genetic and DNA methylation level, carried out at the beginning of any given project, can be used to enrich for the best-performing FFPE samples. The apparent preservation of genetic and DNA methylation patterns in archival FFPE samples may bring along new perspectives for the identification of genetic and epigenetic changes associated with brain-manifested diseases.</p>',
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'description' => '<p>A mammalian cell utilizes DNA methylation to modulate gene expression in response to environmental changes during development and differentiation. Aberrant DNA methylation changes as a correlate to diseased states like cancer, neurodegenerative conditions and cardiovascular diseases have been documented. Here we show genome-wide DNA methylation changes in macrophages infected with the pathogen <i>M. tuberculosis</i>. Majority of the affected genomic loci were hypermethylated in <i>M. tuberculosis</i> infected THP1 macrophages. Hotspots of differential DNA methylation were enriched in genes involved in immune response and chromatin reorganization. Importantly, DNA methylation changes were observed predominantly for cytosines present in non-CpG dinucleotide context. This observation was consistent with our previous finding that the mycobacterial DNA methyltransferase, Rv2966c, targets non-CpG dinucleotides in the host DNA during <i>M. tuberculosis</i> infection and reiterates the hypothesis that pathogenic bacteria use non-canonical epigenetic strategies during infection.</p>',
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'description' => '<p><span></span>The reference C02010014 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns">C02010021</a><span>. </span> </p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
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<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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'name' => 'Auto MagMeDIP qPCR Kit - ordering reference: C02010020 ',
'description' => '<p><span>The reference C02010013 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x10-10-rxns">C02010020</a>.</span></p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<span class="success label" style="">C02010034</span>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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</div>
<div class="small-12 columns" >
<h6 style="height:60px">Auto hMeDIP kit x16 (monoclonal mouse antibody)</h6>
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</div>
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<li>
<div class="row">
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<a href="/cn/p/auto-methylcap-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02020011</span>
</div>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto MethylCap kit</h6>
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<div class="small-12 columns">
<a href="/cn/p/auto-premium-bisulfite-kit-40-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02030031</span>
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<div class="small-6 columns text-right" style="padding-left:0px;padding-right:0px;margin-top:-6px">
<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<p>将 <input name="data[Cart][quantity]" placeholder="1" value="1" min="1" style="width:60px;display:inline" type="number" id="CartQuantity" required="required"/> <strong> Auto Premium Bisulfite kit</strong> 添加至我的购物车。</p>
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'240',
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<button class="alert small button expand" onclick="$(this).addToCart('Auto Premium Bisulfite kit',
'C02030031',
'240',
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<div class="small-12 columns" >
<h6 style="height:60px">Auto Premium Bisulfite kit</h6>
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<li>
<div class="row">
<div class="small-12 columns">
<a href="/cn/p/auto-magmedip-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<div class="small-12 columns" >
<h6 style="height:60px">Auto MagMeDIP qPCR Kit</h6>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><strong>This manual concerns:</strong></p>
<ul>
<li><strong>MagMeDIP x48 batch #16 and after;</strong></li>
<li><strong>MagMeDIP x10 batch #7A and after.</strong></li>
</ul>
<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
<p><span></span></p>
<p><span></span></p>
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'date' => '2016-04-26',
'pmid' => 'http://www.nature.com/articles/srep25006',
'doi' => '10.1038/srep25006',
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'description' => '<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
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<h3>MBD-seq allows for detection of genomic regions with different CpG density</h3>
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<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<div class="small-12 medium-3 large-3 columns"><center><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank"><img src="https://www.diagenode.com/img/banners/banner-nature-publication-580.png" /></a></center></div>
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<h3>Sensitive tumour detection and classification using plasma cell-free DNA methylomes<br /><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank">Read the publication</a></h3>
<h3 class="c-article-title u-h1" data-test="article-title" itemprop="name headline">Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA<br /><a href="https://www.nature.com/articles/s41596-019-0202-2" target="_blank" title="cfMeDIP-seq Nature Method">Read the method</a></h3>
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<div class="large-12 columns"><span>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</span><br />
<h2></h2>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
<h2>Applications</h2>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-seq-package-V2-x10" class="center alert radius button"> NGS analysis </a></div>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
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<p>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</p>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
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<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> NGS analysis </a></div>
<h2>Advantages</h2>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>Robust</strong> & <strong>reproducible</strong> techniques</li>
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<p><strong>This manual concerns:</strong></p>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP). </span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</div>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
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'authors' => 'Patil Vibha, Cuenin Cyrille, Chung Felicia, Aguilera Jesus R Rodriguez, Fernandez-Jimenez Nora, Romero-Garmendia Irati, Bilbao Jose Ramon, Cahais Vincent, Rothwell Joseph, Herceg Zdenko',
'description' => '<p>Mitochondrial dysfunction plays critical roles in cancer development and related therapeutic response; however, exact molecular mechanisms remain unclear. Recently, alongside the discovery of mitochondrial-specific DNA methyltransferases, global and site-specific methylation of the mitochondrial genome has been described. Investigation of any functional consequences however remains unclear and debated due to insufficient evidence of the quantitative degree and frequency of mitochondrial DNA (mtDNA) methylation. This study uses WGBS to provide the first quantitative report of mtDNA methylation at single base pair resolution. The data show that mitochondrial genomes are extensively methylated predominantly at non-CpG sites. Importantly, these methylation patterns display notable differences between normal and cancer cells. Furthermore, knockdown of DNA methyltransferase enzymes resulted in a marked global reduction of mtDNA methylation levels, indicating these enzymes may be associated with the establishment and/or maintenance of mtDNA methylation. DNMT3B knockdown cells displayed a comparatively pronounced global reduction in mtDNA methylation with concomitant increases in gene expression, suggesting a potential functional link between methylation and gene expression. Together these results demonstrate reproducible, non-random methylation patterns of mtDNA and challenge the notion that mtDNA is lowlymethylated. This study discusses key differences in methodology that suggest future investigations must allow for techniques that assess both CpG and non-CpG methylation.</p>',
'date' => '2019-08-23',
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'description' => '<p>This chapter describes methods related to the diagnosis of genetic dental diseases. Based on the present knowledge, clinical phenotyping and next-generation sequencing techniques are discussed. Methods necessary for Sanger sequencing, multiplex ligation-dependent probe amplification, and epigenetic modification methods are detailed. In addition, protocols for cell culture establishment and characterization from patients with inherited dental anomalies are described.</p>',
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'description' => '<p>The canine transmissible venereal tumor (CTVT) is a clonally transmissible cancer that regresses spontaneously or after treatment with vincristine, but we know little about the regression mechanisms. We performed global transcriptional, methylation, and functional pathway analyses on serial biopsies of vincristine-treated CTVTs and found that regression occurs in sequential steps; activation of the innate immune system and host epithelial tissue remodeling followed by immune infiltration of the tumor, arrest in the cell cycle, and repair of tissue damage. We identified CCL5 as a possible driver of CTVT regression. Changes in gene expression are associated with methylation changes at specific intragenic sites. Our results underscore the critical role of host innate immunity in triggering cancer regression.</p>',
'date' => '2018-04-09',
'pmid' => 'http://www.pubmed.gov/29634949',
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'authors' => 'Staunstrup N.H. et al.',
'description' => '<p><b></b>Background: Interrogation of DNA methylation profiles hold promise for improved diagnostics, as well as the delineation of the aetiology for common human diseases. However, as the primary tissue of the disease is often inaccessible without complicated and inconvenient interventions, there is an increasing interest in peripheral surrogate tissues. Whereas most work has been conducted on blood, saliva is now becoming recognized as an interesting alternative due to the simple and non-invasive manner of collection allowing for self-sampling. Results: In this study we have evaluated if saliva samples are suitable for DNA methylation studies using methylated DNA immunoprecipitation coupled to next-generation sequencing (MeDIP-seq). This was done by comparing the DNA methylation profile in saliva against the benchmark profile of peripheral blood from three individuals. We show that the output, quality, and depth of paired-end 50 bp sequencing reads are comparable between saliva and peripheral blood and, moreover, that the distribution of reads along genomic regions are similar and follow canonical methylation patterns. Conclusion: In summary, we show that high-quality MeDIP-seq data can be generated using saliva, thus supporting the future use of saliva in the generation of DNA methylation information at annotated genes, non-RefSeq genes, and repetitive elements relevant to human disease.</p>',
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'description' => '<p>We here characterize the usability of archival formalin-fixed paraffin-embedded (FFPE) brain tissue as a resource for genetic and DNA methylation analyses with potential relevance for brain-manifested diseases. We analyzed FFPE samples from The Brain Collection, Aarhus University Hospital Risskov, Denmark (AUBC), constituting 9479 formalin-fixated brains making it one of the largest collections worldwide. DNA extracted from brain FFPE tissue blocks was interrogated for quality and usability in genetic and DNA methylation analyses by different molecular techniques. Overall, we found that DNA quality was inversely correlated with storage time and DNA quality was insufficient for Illumina methylation arrays; data from methylated DNA immunoprecipitation, clonal bisulfite sequencing, and pyrosequencing of BDNF and ST6GALNAC1 suggested that the original methylation pattern is indeed preserved. Proof-of-principle experiments predicting sex based on the methylation status of the X-inactivated SLC9A7 gene, or genotype differences of the Y and X chromosomes, showed consistency between predicted and actual sex for a subset of FFPE samples. In conclusion, even though DNA from FFPE samples is of low quality and technically challenging, it is likely that a subset of samples can provide reliable data given that the methodology used is designed for small DNA fragments. We propose that simple PCR-based quality control experiments at the genetic and DNA methylation level, carried out at the beginning of any given project, can be used to enrich for the best-performing FFPE samples. The apparent preservation of genetic and DNA methylation patterns in archival FFPE samples may bring along new perspectives for the identification of genetic and epigenetic changes associated with brain-manifested diseases.</p>',
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'description' => '<p>A mammalian cell utilizes DNA methylation to modulate gene expression in response to environmental changes during development and differentiation. Aberrant DNA methylation changes as a correlate to diseased states like cancer, neurodegenerative conditions and cardiovascular diseases have been documented. Here we show genome-wide DNA methylation changes in macrophages infected with the pathogen <i>M. tuberculosis</i>. Majority of the affected genomic loci were hypermethylated in <i>M. tuberculosis</i> infected THP1 macrophages. Hotspots of differential DNA methylation were enriched in genes involved in immune response and chromatin reorganization. Importantly, DNA methylation changes were observed predominantly for cytosines present in non-CpG dinucleotide context. This observation was consistent with our previous finding that the mycobacterial DNA methyltransferase, Rv2966c, targets non-CpG dinucleotides in the host DNA during <i>M. tuberculosis</i> infection and reiterates the hypothesis that pathogenic bacteria use non-canonical epigenetic strategies during infection.</p>',
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'description' => '<p><span></span>The reference C02010014 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns">C02010021</a><span>. </span> </p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
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<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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'name' => 'Auto MagMeDIP qPCR Kit - ordering reference: C02010020 ',
'description' => '<p><span>The reference C02010013 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x10-10-rxns">C02010020</a>.</span></p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto hMeDIP kit x16 (monoclonal mouse antibody)</h6>
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<li>
<div class="row">
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<a href="/cn/p/auto-methylcap-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto MethylCap kit</h6>
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<a href="/cn/p/auto-premium-bisulfite-kit-40-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
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<span class="success label" style="">C02030031</span>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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'240',
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<button class="alert small button expand" onclick="$(this).addToCart('Auto Premium Bisulfite kit',
'C02030031',
'240',
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<h6 style="height:60px">Auto Premium Bisulfite kit</h6>
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<li>
<div class="row">
<div class="small-12 columns">
<a href="/cn/p/auto-magmedip-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<h6 style="height:60px">Auto MagMeDIP qPCR Kit</h6>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><strong>This manual concerns:</strong></p>
<ul>
<li><strong>MagMeDIP x48 batch #16 and after;</strong></li>
<li><strong>MagMeDIP x10 batch #7A and after.</strong></li>
</ul>
<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
<p><span></span></p>
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'date' => '2016-04-26',
'pmid' => 'http://www.nature.com/articles/srep25006',
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'description' => '<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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'description' => '<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<h3>MBD-seq allows for detection of genomic regions with different CpG density</h3>
<p><img src="https://www.diagenode.com/img/product/kits/mbd_results1.png" alt="MBD-sequencing results have been validated by bisulfite sequencing" style="display: block; margin-left: auto; margin-right: auto;" /></p>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<div class="small-12 medium-3 large-3 columns"><center><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank"><img src="https://www.diagenode.com/img/banners/banner-nature-publication-580.png" /></a></center></div>
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<h3>Sensitive tumour detection and classification using plasma cell-free DNA methylomes<br /><a href="https://www.ncbi.nlm.nih.gov/pubmed/30429608" target="_blank">Read the publication</a></h3>
<h3 class="c-article-title u-h1" data-test="article-title" itemprop="name headline">Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA<br /><a href="https://www.nature.com/articles/s41596-019-0202-2" target="_blank" title="cfMeDIP-seq Nature Method">Read the method</a></h3>
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<div class="large-12 columns"><span>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</span><br />
<h2></h2>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
<h2>Applications</h2>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-seq-package-V2-x10" class="center alert radius button"> NGS analysis </a></div>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
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<p>The Methylated DNA Immunoprecipitation is based on the affinity purification of methylated and hydroxymethylated DNA using, respectively, an antibody directed against 5-methylcytosine (5-mC) in the case of MeDIP or 5-hydroxymethylcytosine (5-hmC) in the case of hMeDIP.</p>
<h2>How it works</h2>
<p>In brief, Methyl DNA IP is performed as follows: Genomic DNA from cultured cells or tissues is prepared, sheared, and then denatured. Then, immunoselection and immunoprecipitation can take place using the antibody directed against 5 methylcytosine and antibody binding beads. After isolation and purification is performed, the IP’d methylated DNA is ready for any subsequent analysis as qPCR, amplification, hybridization on microarrays or next generation sequencing.</p>
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<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> qPCR analysis</a></div>
<div align="center"><a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns" class="center alert radius button"> NGS analysis </a></div>
<h2>Advantages</h2>
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<li><i class="fa fa-arrow-circle-right"></i> <strong>Unaffected</strong> DNA</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>High enrichment</strong> yield</li>
<li><i class="fa fa-arrow-circle-right"></i> <strong>Robust</strong> & <strong>reproducible</strong> techniques</li>
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<p><strong>This manual concerns:</strong></p>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP). </span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</div>
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<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
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'authors' => 'Patil Vibha, Cuenin Cyrille, Chung Felicia, Aguilera Jesus R Rodriguez, Fernandez-Jimenez Nora, Romero-Garmendia Irati, Bilbao Jose Ramon, Cahais Vincent, Rothwell Joseph, Herceg Zdenko',
'description' => '<p>Mitochondrial dysfunction plays critical roles in cancer development and related therapeutic response; however, exact molecular mechanisms remain unclear. Recently, alongside the discovery of mitochondrial-specific DNA methyltransferases, global and site-specific methylation of the mitochondrial genome has been described. Investigation of any functional consequences however remains unclear and debated due to insufficient evidence of the quantitative degree and frequency of mitochondrial DNA (mtDNA) methylation. This study uses WGBS to provide the first quantitative report of mtDNA methylation at single base pair resolution. The data show that mitochondrial genomes are extensively methylated predominantly at non-CpG sites. Importantly, these methylation patterns display notable differences between normal and cancer cells. Furthermore, knockdown of DNA methyltransferase enzymes resulted in a marked global reduction of mtDNA methylation levels, indicating these enzymes may be associated with the establishment and/or maintenance of mtDNA methylation. DNMT3B knockdown cells displayed a comparatively pronounced global reduction in mtDNA methylation with concomitant increases in gene expression, suggesting a potential functional link between methylation and gene expression. Together these results demonstrate reproducible, non-random methylation patterns of mtDNA and challenge the notion that mtDNA is lowlymethylated. This study discusses key differences in methodology that suggest future investigations must allow for techniques that assess both CpG and non-CpG methylation.</p>',
'date' => '2019-08-23',
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'description' => '<p>This chapter describes methods related to the diagnosis of genetic dental diseases. Based on the present knowledge, clinical phenotyping and next-generation sequencing techniques are discussed. Methods necessary for Sanger sequencing, multiplex ligation-dependent probe amplification, and epigenetic modification methods are detailed. In addition, protocols for cell culture establishment and characterization from patients with inherited dental anomalies are described.</p>',
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'description' => '<p>The canine transmissible venereal tumor (CTVT) is a clonally transmissible cancer that regresses spontaneously or after treatment with vincristine, but we know little about the regression mechanisms. We performed global transcriptional, methylation, and functional pathway analyses on serial biopsies of vincristine-treated CTVTs and found that regression occurs in sequential steps; activation of the innate immune system and host epithelial tissue remodeling followed by immune infiltration of the tumor, arrest in the cell cycle, and repair of tissue damage. We identified CCL5 as a possible driver of CTVT regression. Changes in gene expression are associated with methylation changes at specific intragenic sites. Our results underscore the critical role of host innate immunity in triggering cancer regression.</p>',
'date' => '2018-04-09',
'pmid' => 'http://www.pubmed.gov/29634949',
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'authors' => 'Staunstrup N.H. et al.',
'description' => '<p><b></b>Background: Interrogation of DNA methylation profiles hold promise for improved diagnostics, as well as the delineation of the aetiology for common human diseases. However, as the primary tissue of the disease is often inaccessible without complicated and inconvenient interventions, there is an increasing interest in peripheral surrogate tissues. Whereas most work has been conducted on blood, saliva is now becoming recognized as an interesting alternative due to the simple and non-invasive manner of collection allowing for self-sampling. Results: In this study we have evaluated if saliva samples are suitable for DNA methylation studies using methylated DNA immunoprecipitation coupled to next-generation sequencing (MeDIP-seq). This was done by comparing the DNA methylation profile in saliva against the benchmark profile of peripheral blood from three individuals. We show that the output, quality, and depth of paired-end 50 bp sequencing reads are comparable between saliva and peripheral blood and, moreover, that the distribution of reads along genomic regions are similar and follow canonical methylation patterns. Conclusion: In summary, we show that high-quality MeDIP-seq data can be generated using saliva, thus supporting the future use of saliva in the generation of DNA methylation information at annotated genes, non-RefSeq genes, and repetitive elements relevant to human disease.</p>',
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'description' => '<p>We here characterize the usability of archival formalin-fixed paraffin-embedded (FFPE) brain tissue as a resource for genetic and DNA methylation analyses with potential relevance for brain-manifested diseases. We analyzed FFPE samples from The Brain Collection, Aarhus University Hospital Risskov, Denmark (AUBC), constituting 9479 formalin-fixated brains making it one of the largest collections worldwide. DNA extracted from brain FFPE tissue blocks was interrogated for quality and usability in genetic and DNA methylation analyses by different molecular techniques. Overall, we found that DNA quality was inversely correlated with storage time and DNA quality was insufficient for Illumina methylation arrays; data from methylated DNA immunoprecipitation, clonal bisulfite sequencing, and pyrosequencing of BDNF and ST6GALNAC1 suggested that the original methylation pattern is indeed preserved. Proof-of-principle experiments predicting sex based on the methylation status of the X-inactivated SLC9A7 gene, or genotype differences of the Y and X chromosomes, showed consistency between predicted and actual sex for a subset of FFPE samples. In conclusion, even though DNA from FFPE samples is of low quality and technically challenging, it is likely that a subset of samples can provide reliable data given that the methodology used is designed for small DNA fragments. We propose that simple PCR-based quality control experiments at the genetic and DNA methylation level, carried out at the beginning of any given project, can be used to enrich for the best-performing FFPE samples. The apparent preservation of genetic and DNA methylation patterns in archival FFPE samples may bring along new perspectives for the identification of genetic and epigenetic changes associated with brain-manifested diseases.</p>',
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'description' => '<p>A mammalian cell utilizes DNA methylation to modulate gene expression in response to environmental changes during development and differentiation. Aberrant DNA methylation changes as a correlate to diseased states like cancer, neurodegenerative conditions and cardiovascular diseases have been documented. Here we show genome-wide DNA methylation changes in macrophages infected with the pathogen <i>M. tuberculosis</i>. Majority of the affected genomic loci were hypermethylated in <i>M. tuberculosis</i> infected THP1 macrophages. Hotspots of differential DNA methylation were enriched in genes involved in immune response and chromatin reorganization. Importantly, DNA methylation changes were observed predominantly for cytosines present in non-CpG dinucleotide context. This observation was consistent with our previous finding that the mycobacterial DNA methyltransferase, Rv2966c, targets non-CpG dinucleotides in the host DNA during <i>M. tuberculosis</i> infection and reiterates the hypothesis that pathogenic bacteria use non-canonical epigenetic strategies during infection.</p>',
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'description' => '<p><span></span>The reference C02010014 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x48-48-rxns">C02010021</a><span>. </span> </p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
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<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
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<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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'name' => 'Auto MagMeDIP qPCR Kit - ordering reference: C02010020 ',
'description' => '<p><span>The reference C02010013 has been replaced by <a href="https://www.diagenode.com/en/p/magmedip-kit-x10-10-rxns">C02010020</a>.</span></p>
<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation)<span> </span><span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span></span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the<span> </span><a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a><span> </span>enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p><em><strong>Figure 2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>',
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto hMeDIP kit x16 (monoclonal mouse antibody)</h6>
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<a href="/cn/p/auto-methylcap-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02020011</span>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto MethylCap kit</h6>
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<div class="small-12 columns">
<a href="/cn/p/auto-premium-bisulfite-kit-40-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
<div class="small-12 columns">
<div class="small-6 columns" style="padding-left:0px;padding-right:0px;margin-top:-6px;margin-left:-1px">
<span class="success label" style="">C02030031</span>
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<!--a href="#" style="color:#B21329"><i class="fa fa-info-circle"></i></a-->
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<h6 style="height:60px">Auto Premium Bisulfite kit</h6>
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<div class="row">
<div class="small-12 columns">
<a href="/cn/p/auto-magmedip-kit-x48-48-rxns"><img src="/img/product/kits/methyl-kit-icon.png" alt="Methylation kit icon" class="th"/></a> </div>
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<h6 style="height:60px">Auto MagMeDIP qPCR Kit</h6>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><span>Perform </span><strong>MeDIP</strong><span><span> </span>(Methylated DNA Immunoprecipitation) <span>on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> </span>followed by<span> </span></span><strong>qPCR</strong><span><span> </span>to estimate DNA methylation status of your sample using </span><span>5-methylcytosine</span><span><span> </span>antibody. Our kit contains high quality reagents to get the h</span><span>ighest enrichment of methylated DNA with an optimized user-friendly protocol.</span></p>
<p>Diagenode’s Auto MagMeDIP qPCR is available in two formats (10 and 48 IPs) and has been optimized on the <a href="https://www.diagenode.com/en/p/sx-8g-ip-star-compact-automated-system-1-unit" target="_blank">SX-8G IP-Star® Automated System</a> enabling highly reproducible results and allowing for high throughput assays.</p>
<h3><span>Characteristics</span></h3>
<ul>
<li>Generate highly consistent results with internal controls in 24h</li>
<li>Minimize error with many reagents in 1 tube</li>
<li>Optimized purification (DIB - DNA isolation buffer)</li>
<li>Allows direct correlation between IP’d material & methylation status</li>
</ul>
<p style="text-align: center;"><img src="https://www.diagenode.com/img/product/kits/magmedip-kit-validated-using-bioruptor.jpg" alt="MagMeDIP kit validated using Bioruptor" /></p>
<p><strong><em>Figure 1.</em></strong><em><span> </span><strong>IP results obtained with Diagenode Auto MagMeDIP qPCR Kit.</strong><span> </span>MeDIP assays were performed manually using DNA from blood, Gm12878, Hela and U20S cells and the Auto MagMeDIP qPCR kit (Diagenode). The DNA was prepared with the XL GenDNA Extraction Module included. The IP was performed including the kit meDNA and unDNA spike-in controls, together with the human DNA sample controls. The DNA was isolated/purified using DIB. Afterwards, qPCR was performed using the primer pairs also included in this kit.</em></p>
<p style="text-align: center;"><em><img src="https://www.diagenode.com/img/product/kits/AutomatedMeDIP_9h.png" alt="" width="678" height="365" /></em></p>
<p style="text-align: justify;"><em><strong>Figure<span> </span>2. Automated MeDIP (9h). </strong>IP reaction was performed on the SX-8G IP-Star® Automated System with the anti-5-mC antibody. Methylated and unmethylated DNA were used as internal controls. Unmethylated DNA region of GADPH and a methylated DNA region of AlphaX1 were used to test DNA sample-IP efficiency. DNA has been isolated by using DNA Isolation Buffer (DIB).</em></p>
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<p><strong>This manual concerns:</strong></p>
<ul>
<li><strong>MagMeDIP x48 batch #16 and after;</strong></li>
<li><strong>MagMeDIP x10 batch #7A and after.</strong></li>
</ul>
<p><span>The Diagenode MagMeDIP kit is designed to immunoprecipitate methylated DNA (Methyl DNA IP).</span></p>
<p><span>In our Methyl DNA IP kits either MeDIP or MagMeDIP</span><span>, our antibody directed against 5-methylcytosine is provided as well as meDNA and unDNA internal IP controls. The IP has been optimized to specifically select and precipitate the methylated DNA: by the use of our antibody, buffers and protocol. The IP efficiency can indeed be double-checked with the use of our internal controls.</span></p>
<p><span><span>MagMeDIP kit is suitable for several downstream applications: qPCR and NGS. Please see our MagMeDIP-seq protocol in this manual before starting the MeDIP-seq workflow.</span></span></p>
<p><span></span></p>
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'pmid' => 'http://www.nature.com/articles/srep25006',
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[main] - APP/webroot/index.php, line 118
×
