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GenomicsAmplicon based single molecule footprinting in TC-1 DNMT TKO mESCs after RMCE
To quantify the contribution of specific transcription factor binding versus chromatin context in chromatin opening, we inserted libraries containing hundreds of CREs into a landing pad within a neutral chromatin environment, devoid of activating or repressive chromatin modifications, in mESCs using...
ORGANISM(S): Mus musculus 
2026-05-21 | E-MTAB-16658 | biostudies-arrayexpress
GenomicsAmplicon based single molecule footprinting in TC-1 DNMT TKO mESCs after RMCE - Mutant Libraries
To directly test how individual TFs combine their functions to open chromatin at specific loci, we used synthetic DNA sequences. We generated a library containing all combinations of TF-motif deletions for three CREs: a CTCF-bound region as a positive control (found in \"MutLib1\"), an enhancer with...
ORGANISM(S): Mus musculus 
2026-05-21 | E-MTAB-16657 | biostudies-arrayexpress
TranscriptomicsGenome-wide transcriptional analyses of islet-specific CD4+ T cells identify Idd9 genes controlling diabetogenic T cell function
Analysis of gene expression levels in ex-vivo and p79-stimulated splenic CD4+ T cells. Total RNA obtained from ex-vivo CD4+TCRVβ4+ T cells from BDC-Idd9 mice compared to BDC mice and p79-stimulated CD4+TCRVβ4+ T cells from BDC-Idd9 mice compared to BDC mice.
ORGANISM(S): Mus musculus 
2015-03-04 | E-GEOD-64674 | biostudies-arrayexpress
GenomicsAmplicon based single molecule footprinting in TC-1 DNMT TKO mESCs after RMCE and after 24h p300 inhibition
To quantify the contribution of specific transcription factor binding versus chromatin context in chromatin opening, we inserted libraries containing hundreds of CREs into a landing pad within a neutral chromatin environment, devoid of activating or repressive chromatin modifications, in mESCs using...
ORGANISM(S): Mus musculus 
2026-05-21 | E-MTAB-16659 | biostudies-arrayexpress
TranscriptomicsComparison of gene expression profiles of HIV-specific CD8 T cells from controllers and progressors
CD8+ T cells in chronic viral infections like HIV develop functional defects such as loss of IL-2 secretion and decreased proliferative potential that are collectively termed exhaustion1. Exhausted T cells express increased levels of multiple inhibitory receptors, such as Programmed Death 1 (PD-1)...
ORGANISM(S): Homo sapiens 
2010-10-03 | E-GEOD-24081 | biostudies-arrayexpress
TranscriptomicsComparison of gene expression profiles of Jurkat cells with or without PD-1 ligation
CD8+ T cells in chronic viral infections like HIV develop functional defects such as loss of IL-2 secretion and decreased proliferative potential that are collectively termed exhaustion1. Exhausted T cells express increased levels of multiple inhibitory receptors, such as Programmed Death 1 (PD-1)...
ORGANISM(S): Homo sapiens 
2010-10-03 | E-GEOD-24026 | biostudies-arrayexpress
UnknownCIB1: a small protein with big ambitions.
Not available
S-EPMC4970603 | biostudies-literature
TranscriptomicsTranscriptomic analysis of human skin Langerhans cell and dermal dendritic cells stimulated in vitro with TNF-alpha
Langerhans cells (LCs) are antigen presenting cells residing in the epidermis. Due to the difficulties with obtaining sufficient quantities of LCs for functional studies, many controversies exist about their origin and function. To gain insights into the molecular mechanisms underpinning LC biology ...
ORGANISM(S): Homo sapiens 
2013-12-08 | E-GEOD-49475 | biostudies-arrayexpress
TranscriptomicsRNA-seq of human cancer cell lines HCT116, T47D and A549 in 3D collagen I microenvironments compared to 2D cell culture
The behavior of cancer cells strongly relies on the properties of the extracellular microenvironment. The aim was to compare the whole transcriptome of three non-invasive cancer cell lines, HCT-116, A549 and T-47D, embedded in collagen I matrices in a time-dependent manner to standard two-dimensiona...
ORGANISM(S): Homo sapiens 
2026-07-31 | E-MTAB-16838 | biostudies-arrayexpress
TranscriptomicsA Gene Expression Atlas of the Domestic Pig
A Gene Expression Atlas of the Domestic Pig
ORGANISM(S): Sus scrofa 
2012-09-01 | E-MTAB-1183 | biostudies-arrayexpress
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