The transcriptional foundation of pluripotency
I Chambers, SR Tomlinson - 2009 - journals.biologists.com
A fundamental goal in biology is to understand the molecular basis of cell identity.
Pluripotent embryonic stem (ES) cell identity is governed by a set of transcription factors …
Pluripotent embryonic stem (ES) cell identity is governed by a set of transcription factors …
Genome-wide approaches to studying chromatin modifications
DE Schones, K Zhao - Nature Reviews Genetics, 2008 - nature.com
Over two metres of DNA is packaged into each nucleus in the human body in a manner that
still allows for gene regulation. This remarkable feat is accomplished by the wrapping of …
still allows for gene regulation. This remarkable feat is accomplished by the wrapping of …
[HTML][HTML] H3K4me3 breadth is linked to cell identity and transcriptional consistency
Trimethylation of histone H3 at lysine 4 (H3K4me3) is a chromatin modification known to
mark the transcription start sites of active genes. Here, we show that H3K4me3 domains that …
mark the transcription start sites of active genes. Here, we show that H3K4me3 domains that …
Model-based analysis of ChIP-Seq (MACS)
Abstract We present Model-based Analysis of ChIP-Seq data, MACS, which analyzes data
generated by short read sequencers such as Solexa's Genome Analyzer. MACS empirically …
generated by short read sequencers such as Solexa's Genome Analyzer. MACS empirically …
Target analysis by integration of transcriptome and ChIP-seq data with BETA
The combination of ChIP-seq and transcriptome analysis is a compelling approach to
unravel the regulation of gene expression. Several recently published methods combine …
unravel the regulation of gene expression. Several recently published methods combine …
[HTML][HTML] Androgen receptor regulates a distinct transcription program in androgen-independent prostate cancer
The evolution of prostate cancer from an androgen-dependent state to one that is androgen-
independent marks its lethal progression. The androgen receptor (AR) is essential in both …
independent marks its lethal progression. The androgen receptor (AR) is essential in both …
[HTML][HTML] Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins
Members of transcription factor families typically have similar DNA binding specificities yet
execute unique functions in vivo. Transcription factors often bind DNA as multiprotein …
execute unique functions in vivo. Transcription factors often bind DNA as multiprotein …
[HTML][HTML] A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs
Summary c-Myc (Myc) is an important transcriptional regulator in embryonic stem (ES) cells,
somatic cell reprogramming, and cancer. Here, we identify a Myc-centered regulatory …
somatic cell reprogramming, and cancer. Here, we identify a Myc-centered regulatory …
Design and analysis of ChIP-seq experiments for DNA-binding proteins
Recent progress in massively parallel sequencing platforms has enabled genome-wide
characterization of DNA-associated proteins using the combination of chromatin …
characterization of DNA-associated proteins using the combination of chromatin …
EZH1 mediates methylation on histone H3 lysine 27 and complements EZH2 in maintaining stem cell identity and executing pluripotency
Summary Trimethylation on H3K27 (H3K27me3) mediated by Polycomb repressive complex
2 (PRC2) has been linked to embryonic stem cell (ESC) identity and pluripotency. EZH2, the …
2 (PRC2) has been linked to embryonic stem cell (ESC) identity and pluripotency. EZH2, the …