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GenomicsNCoR1, SMRT, Polymerase II and input ChIP-Seq
ChIP-seq of mouse embryonic fibroblast-adipose like cell line 3T3-L1 to identify binding sites of NCoR1 and SMRT following induction of differentiation, and RNA Pol-II after SMRT knock down
ORGANISM(S): Mus musculus 
2012-04-23 | E-MTAB-1031 | biostudies-arrayexpress
Proteomicsrs143348853 in vitro DNA pulldown
Non-coding variants coordinate transcription factor (TF) binding and chromatin mark enrichment changes over regions spanning >100 kb. We named these molecularly coordinated regions “variable chromatin modules” (VCMs), providing a conceptual framework of how regulatory variation might shape complex t...
ORGANISM(S): Homo sapiens (Human) 
2022-04-21 | PXD029313 | Pride
Indel Rs143348853 Dna pulldown Genetic variant 
GenomicsZEB1 in 3T3-L1 differentiation (ChIP-seq)
We aimed to characterise genome-wide ZEB1 binding pattern in 3T3-L1 cells at distinct timepoints of adipogenic differentiation (days -2, 0, 2 and 4). We performed replicate experiments at days -2 and 0 and single experiments at days 2 and 4.
ORGANISM(S): Mus musculus 
2014-09-17 | E-MTAB-2537 | biostudies-arrayexpress
GenomicsGenome-wide profiles of RNA polymerase II (Pol 2) DNA occupancy and the histone modifications H3K4me3 and H3K36me3 around the circadian cycle
To understand the transcriptional basis of circadian rhythms in mouse liver, we generated genome-wide profiles of RNA polymerase II (Pol 2) DNA occupancy and the histone modifications H3K4me3 and H3K36me3 around the circadian cycle. We found that Pol 2 occupancy at promoters and in gene bodies cycle...
ORGANISM(S): Mus musculus 
2012-12-06 | E-GEOD-35788 | biostudies-arrayexpress
TranscriptomicsWing disc transcriptomic variation from 32 Drosophila genetic reference panel (DGRP) lines selected for a broad range of wing sizes
We performed RNA sequencing of wing discs at the wandering L3 larval stage from 32 inbred lines of Drosophila genetic reference panel (DGRP) that consists of 16 big and 16 small wing lines. We aimed to understand system-wide gene regulatory mechanisms that attain the observed natural variation in wi...
ORGANISM(S): Drosophila melanogaster 
2019-02-18 | E-MTAB-7662 | biostudies-arrayexpress
TranscriptomicsChromosome-biased binding and gene reguation by the C. elegans DRM complex [ChIP-chip]
DRM is a conserved transcription factor complex that includes E2F/DP and pRB family proteins and plays important roles in development and cancer. Here we analyze genome-wide binding and function of the C. elegans DRM subunit LIN-54. We demonstrate that LIN-54 DNA-binding activity is required for th...
ORGANISM(S): Caenorhabditis elegans 
2011-04-27 | E-GEOD-28852 | biostudies-arrayexpress
TranscriptomicsscRNA-seq of Mus musculus subcutaneous Lin- cells derived from the subcutaneous adipose stromal vascular fraction
We used the resolving power of single-cell transcriptional profiling to molecularly characterize the mouse adipose stem and progenitor cell-enriched, subcutaneous adipose stromal vascular fraction. We molecularly assessed CD45- CD31- SVF cells using the 10x Genomics Chromium (10x) platform.
ORGANISM(S): Mus musculus 
2019-05-24 | E-MTAB-6677 | biostudies-arrayexpress
TranscriptomicsZEB1 in 3T3-L1 differentiation (RNA-seq)
We aimed to characterise genome-wide gene expression changes upon ZEB1 knockdown in 3T3-L1 cells at distinct timepoints of adipogenic differentiation (days 0 and 2), performing replicate experiments.
ORGANISM(S): Mus musculus 
2014-09-17 | E-MTAB-2538 | biostudies-arrayexpress
TranscriptomicsRNA-seq on DGRP lines and F1 crosses
We performed mRNA sequencing of reciprocal F1 female hybrids from two crosses (362/765 and 517/765) and the parental DGRP lines (362, 517 and 765). Specifically, we aimed to identify whether transcripts predicted to be regulated by cis-eQTLs exhibit a significant allele-specific bias in gene expres...
ORGANISM(S): Drosophila melanogaster 
2012-08-28 | E-MTAB-1266 | biostudies-arrayexpress
GenomicsSMiLE-seq sequencing data (illumina) of human transcription factors profiled in the Codebook/GRECO-BiT collaboration
We assayed 284 human transcription factors (TFs) for DNA binding using selective microfluidics-based ligand enrichment followed by sequencing (SMiLE-seq). These experiments were part of the Codebook/GRECO-BiT collaboration aiming to identify the DNA binding sites of yet-uncharacterized TFs. All data...
ORGANISM(S): synthetic construct 
2024-11-11 | E-MTAB-14598 | biostudies-arrayexpress
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