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TranscriptomicsLieb AB3594_H3K79ME2346021_N2_L3
modENCODE_submission_3321 This submission comes from a modENCODE project of Jason Lieb. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: The focus of our analysis will be elements that specify nucleosome positioning and occupancy, control domains of gene expressi...
ORGANISM(S): Caenorhabditis elegans 
2011-01-17 | E-GEOD-26182 | biostudies-arrayexpress
TranscriptomicsLieb AB2621_H3K79ME3_361576_N2_L3
modENCODE_submission_3322 This submission comes from a modENCODE project of Jason Lieb. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: The focus of our analysis will be elements that specify nucleosome positioning and occupancy, control domains of gene expressi...
ORGANISM(S): Caenorhabditis elegans 
2011-01-17 | E-GEOD-26183 | biostudies-arrayexpress
TranscriptomicsA map of open chromatin in human pancreatic islets
High-throughput sequencing of genomic regions isolated using FAIRE (Formaldehyde-assisted isolation of regulatory elements) from three purified pancreatic islet samples For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCO...
ORGANISM(S): Homo sapiens 
2010-01-31 | E-GEOD-17616 | biostudies-arrayexpress
GenomicsCTCF binding patterns in mouse trophoblast stem cells
This Series reports data from a CTCF ChIP-Seq experiment performed in F1-hybrid mouse trophoblast stem cells (TSCs). The data are part of a larger study examining inactive X gene expression and chromatin states, reported as GEO Series GSE39406. Included for this dataset are FASTQ files, BED alignmen...
ORGANISM(S): Mus musculus 
2012-09-08 | E-GEOD-40667 | biostudies-arrayexpress
GenomicsSite-specific silencing of regulatory elements as a mechanism of X-inactivation
The inactive X chromosome’s (Xi) physical territory is microscopically devoid of transcriptional hallmarks and enriched in silencing-associated modifications. How these microscopic signatures relate to specific Xi sequence is unknown. This study reports the profiling of Xi gene expression and chroma...
ORGANISM(S): Mus musculus 
2012-11-21 | E-GEOD-39406 | biostudies-arrayexpress
GenomicsmodENCODE_Lieb and White Lab: unltra-deep sequencing data of genomic DNA, chromatin input, and ChIP of Su(Hw) and H3K36me3 from S2 cells on Illumina Genome Analyzer.
This is a dataset generated by the modENCODE Project. It contains both the pair-end and single-end sequencing data of genomic DNA, chromatin input and the ChIP of the factors Su(Hw) and H3K36me3 from Drosophila S2 cells and it was generated on Illumina Genome Analyzer. The goal was to sequence ~120M...
ORGANISM(S): Drosophila melanogaster 
2011-03-04 | E-GEOD-27679 | biostudies-arrayexpress
TranscriptomicsDIP-chip from Cbf1, Leu3, Pho2, Pho4, Rap1, Rox1, and Swi5
DNA Immunoprecipitation was performed using purified, naked, genomic DNA and purified recombinant DNA binding domains for S. cerevisiae transcription factors (Cbf1, Leu3, Pho2, Pho4, Rap1, Rox1, and Swi5) and then competitively hybridized against input DNA on NimbleGen 385k whole-genome, 32bp, tilin...
ORGANISM(S): Saccharomyces cerevisiae 
2010-05-15 | E-GEOD-13751 | biostudies-arrayexpress
TranscriptomicsThe S. cerevisiae histone demethylase Jhd1 fine-tunes the distribution of H3K36me2
Histone methylation plays important roles in the regulation of chromatin dynamics and transcription. Steady state levels of histone lysine methylation are regulated by a balance between enzymes that catalyze either the addition or removal of methyl groups. Using an activity-based biochemical approac...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-11 | E-GEOD-7627 | biostudies-arrayexpress
GenomicsGenome-wide nucleosome occupancy profiling by high throughput sequencing, and microarray analysis of RNA abundance
We profiled nucleosome occupancy of different developmental stages in C. elegans. Mononucleosomal DNA was sequenced by Illumina paired-end sequencing. We used embryos, germlineless adults, germ line containing adults, and XO hermaphrodites at L3 larval stage. RNA abundance is determined by microarra...
ORGANISM(S): Caenorhabditis elegans 
2010-03-02 | E-GEOD-20136 | biostudies-arrayexpress
UnknownGenome-wide kinetics of DNA excision repair in relation to chromatin state and mutagenesis.
Not available
S-EPMC4839430 | biostudies-literature
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