Standardizing chromatin research: a simple and universal method for ChIP-seq Published: December, 2015 Abstract:
Here we demonstrate that harmonization of ChIP-seq workflows across cell types and conditions is possible when obtaining chromatin from properly isolated nuclei. We established an ultrasound-based nuclei extraction method (Nuclei Extraction b... Read more »
A cohesin-OCT4 complex mediates Sox enhancers to prime an early embryonic lineage. Published: April, 2015 Abstract:
Short- and long-scales intra- and inter-chromosomal interactions are linked to gene transcription, but the molecular events underlying these structures and how they affect cell fate decision during embryonic development are poorly understood. One ... Read more »
Embryonic stem cell differentiation requires full length Chd1. Published: January, 2015 Abstract:
The modulation of chromatin dynamics by ATP-dependent chromatin remodeling factors has been recognized as an important mechanism to regulate the balancing of self-renewal and pluripotency in embryonic stem cells (ESCs). Here we have studied the ef... Read more »
A Kinase-Independent Function of CDK6 Links the Cell Cycle to Tumor Angiogenesis. Published: August, 2013 Abstract:
In contrast to its close homolog CDK4, the cell cycle kinase CDK6 is expressed at high levels in lymphoid malignancies. In a model for p185(BCR-ABL+) B-acute lymphoid leukemia, we show that CDK6 is part of a transcription complex that induces the ... Read more »
Limitations and possibilities of low cell number ChIP-seq. Published: November, 2012 Abstract:
ABSTRACT: BACKGROUND: Chromatin immunoprecipitation coupled with high-throughput DNA sequencing (ChIP-seq) offers high resolution, genome-wide analysis of DNA-protein interactions. However, current standard methods require abundant starting materi... Read more »
Intronic RNAs mediate EZH2 regulation of epigenetic targets. Published: June, 2012 Abstract:
Epigenetic deregulation at a number of genomic loci is one of the hallmarks of cancer. A role for some RNA molecules in guiding repressive polycomb complex PRC2 to specific chromatin regions has been proposed. Here we use an in vivo cross-linking ... Read more »
The transcriptional and epigenomic foundations of ground state pluripotency. Published: April, 2012 Abstract:
Mouse embryonic stem (ES) cells grown in serum exhibit greater heterogeneity in morphology and expression of pluripotency factors than ES cells cultured in defined medium with inhibitors of two kinases (Mek and GSK3), a condition known as "2i" pos... Read more »
Control of ground-state pluripotency by allelic regulation of Nanog. Published: February, 2012 Abstract:
Pluripotency is established through genome-wide reprogramming during mammalian pre-implantation development, resulting in the formation of the naive epiblast. Reprogramming involves both the resetting of epigenetic marks and the activation of plur... Read more »
Epigenetic Regulation of Glucose Transporters in Non-Small Cell Lung Cancer Published: March, 2011 Abstract:
Due to their inherently hypoxic environment, cancer cells often resort to glycolysis, or the anaerobic breakdown of glucose to form ATP to provide for their energy needs, known as the Warburg effect. At the same time, overexpression of the insulin... Read more »
Characterisation of genome-wide PLZF/RARA target genes. Published: January, 2011 Abstract:
The PLZF/RARA fusion protein generated by the t(11;17)(q23;q21) translocation in acute promyelocytic leukaemia (APL) is believed to act as an oncogenic transcriptional regulator recruiting epigenetic factors to genes important for its transforming... Read more »
Autonomous silencing of the imprinted Cdkn1c gene in stem cells Published: April, 2010 Abstract:
Parent-of-origin specific expression of imprinted genes relies on the differential DNA methylation of specific genomic regions. Differentially methylated regions (DMRs) acquire DNA methylation either during gametogenesis (primary DMR) or after fer... Read more »
The histone variant macroH2A is an epigenetic regulator of key developmental genes. Published: October, 2009 Abstract:
The histone variants macroH2A1 and macroH2A2 are associated with X chromosome inactivation in female mammals. However, the physiological function of macroH2A proteins on autosomes is poorly understood. Microarray-based analysis in human male pluri... Read more »
High-resolution analysis of epigenetic changes associated with X inactivation. Published: August, 2009 Abstract:
Differentiation of female murine ES cells triggers silencing of one X chromosome through X-chromosome inactivation (XCI). Immunofluorescence studies showed that soon after Xist RNA coating the inactive X (Xi) undergoes many heterochromatic changes... Read more »
Epigenetic-Mediated Downregulation of μ-Protocadherin in Colorectal Tumours Abstract:
Carcinogenesis involves altered cellular interaction and tissue morphology that partly arise from aberrant expression of cadherins. Mucin-like protocadherin is implicated in intercellular adhesion and its expression was found decreased in colorect... Read more »
