Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
By Tarjei S. Mikkelsen, Manching Ku, David B. Jaffe, B. Issac, Erez Lieberman, G. Giannoukos, P. Alvarez, W. Brockman, Tae-Kyung Kim, Richard P. Koche and 12 more. Nature, 2007
4,315 citations recorded by the source corpus.
Subfields: Genetics, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/339635681c59c0acf2c529070058bfcbab940b1e
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In Genetics
- Yi Zhang
- Hao Wu
- Elaine R. Mardis
- Matthew Stephens
- C. Richards
- Cole Trapnell
- Alexander van Oudenaarden
- O. Bossdorf
In Molecular Biology
- Richard A. Young
- Howard Y. Chang
- David P. Bartel
- John S. Mattick
- Cole Trapnell
- A. Bird
- Johannes Rinn
- Yi Zhang
Citations in the corpus
- Candida albicans Infection Affords Protection against Reinfection via Functional Reprogramming of Monocytes (2012, background): “To confirm this hypothesis, we assessed the genome-wide binding pattern upon β-glucan training of H3K4me3 and H3K27me3, two histone modifications associated, among others, with the epigenetic regulation of immune-related genes (Barski et al., 2007; Buratowski and Kim, 2010; Foster et al., 2007; Ishi”
- The Ensembl Regulatory Build (2015, background): “Chromatin immunoprecipitation (ChIP) coupled with either genome-wide tiling microarrays (ChIP-chip [13]) or direct highthroughput sequencing (ChIP-Seq [14-16]) make it possible to perform genome-wide and protein-specific measurements of DNA binding, as well as detect a range of histone modifications”
- ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia (2012, background): “…-acting regulatory modules (CRM) are occupied by multiple factors (Ghisletti et al. 2010; Lin et al. 2010; Wilson et al. 2010; A He et al. 2011; Q He et al. 2011; Tijssen et al. 2011) and associated with multiple histone modifications (Barski et al. 2007; Mikkelsen et al. 2007; Wang et al. 2008).”
- Reconstructing and reprogramming the tumor propagating potential of glioblastoma stem-like cells (2014, positive): “ChIP-seq assays were carried out on approximately 1 × 10 6 cells per histone modification and 10 7 cells per transcription factor, following the procedures outlined in (Ku et al., 2008; Mikkelsen et al., 2007).”
- Epigenetics and gene expression (2010, background): “Chromatin immunoprecipitation (ChIP) using modification-specific antibodies has revolutionised the study of histone PTMs and, when combined with microarray analysis (ChIP on CHIP) or sequencing (ChIP-Seq) of immunoprecipitated DNA, has allowed for analysis of modifications on a global genome scale (”
- Genome regulation by long noncoding RNAs (2012, background): “This included a clear signature of Polymerase II transcribed genes occupied by histone H3 lysine 4 trimethylation (H3K4me3) at the promoters of genes followed by histone H3 lysine 36 trimethylation (H3K36me3) along the transcribed unit (K4–K36 domains) (42) (43, 44).”
- Pioneer transcription factors: establishing competence for gene expression. (2011, background): “…p300 at enhancers (Visel et al. 2009), and histone modifications, such as histone H3K4 methylation at active enhancers and promoters (Heintzman et al. 2007; Mikkelsen et al. 2007; He et al. 2010), can also help predict whether a transcription factor target sequence will be occupied.”