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GenomicsControl of VEGF-A trancriptional programs by pausing and genomic compartmentalization
Vascular endothelial growth factor A (VEGF-A) is a master regulator of vascular development and function. Consequently, VEGF-A regulated gene expression programs have been under heavy research. In this study we study the transcriptional regulation of VEGF-A-responsive genes in primary aortic endothe...
ORGANISM(S): Homo sapiens 
2014-10-27 | E-GEOD-52642 | biostudies-arrayexpress
TranscriptomicsSubclone of resistant CT26 murine tumor shows high sensitivity to VA7 virotherapy: A novel system to study innate immunity and antigen dominance in oncolytic immuno-virotherapy
Recently, attenuated Semliki Forest virus vector VA7 completely eliminated type I interferon (IFN) unresponsive human U87 glioma xenografts while IFN responsive mouse GL261 and CT-2A gliomas proved refractory to the oncolytic virotherapy. Here we describe in two clones of a well established Balb/c m...
ORGANISM(S): Mus musculus 
2014-09-05 | E-GEOD-53001 | biostudies-arrayexpress
GenomicsNCoR Repression of LXRs Restricts Macrophage Biosynthesis of Insulin-Sensitizing Omega 3 Fatty Acids
Macrophage-mediated inflammation is a major contributor to obesity-associated insulin resistance. The corepressor NCoR interacts with inflammatory pathway genes in macrophages, suggesting that its removal would result in increased activity of inflammatory responses. Surprisingly, we find that macrop...
ORGANISM(S): Mus musculus 
2013-10-09 | E-GEOD-50944 | biostudies-arrayexpress
TranscriptomicsReprogramming Transcriptional Responses through Functionally-Distinct Classes of Enhancers in Prostate Cancer Cells [ChIP-Seq, Gro-Seq]
Mammalian genomes are populated with thousands of transcriptional enhancers that orchestrate cell type-specific gene expression programs; however, the potential that there are pre-established enhancers in different functional classes that permit alternative signal-dependent transcriptional responses...
ORGANISM(S): Homo sapiens 
2011-05-15 | E-GEOD-27823 | biostudies-arrayexpress
GenomicsRemodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription
Recent studies suggest a hierarchical model in which lineage-determining factors act in a collaborative manner to select and prime cell-specific enhancers, thereby enabling signal-dependent transcription factors to bind and function in a cell type-specific manner. Consistent with this model, TLR4 si...
ORGANISM(S): Mus musculus 
2013-08-09 | E-GEOD-48759 | biostudies-arrayexpress
TranscriptomicsSlit2 modifies VEGF-induced angiogenic responses in rabbit skeletal muscle by inducing capillary sprouting and decreasing vascular permeability via reduced eNOS activity
Rationale: Slit2 is a possible modulator of vascular endothelial growth factor (VEGF) - induced angiogenesis, but its effects have not been tested in large animal models. Objective: We studied the effect of Slit2 on therapeutic angiogenesis induced by VEGF receptor 2 (VEGFR2) ligands Vammin and VEGF...
ORGANISM(S): Homo sapiens 
2015-05-26 | E-GEOD-63283 | biostudies-arrayexpress
GenomicsRNA polymerase in pre-B-ALL cell lines
[Gro-seq] Precursor B acute leukemia cells measured using global nuclear run-on sequencing [ChIP-Seq] The genome-wide occupancy of ser2 and ser5 phosphorylated RNA pol2 and H3K4me3 was measured in precursor B acute leukemia cells measured using chip-seq. [Gro-seq] Nascent RNA expression profiles wer...
ORGANISM(S): Homo sapiens 
2016-07-05 | E-GEOD-67540 | biostudies-arrayexpress
TranscriptomicsMechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes (Illumina sequencing data)
Precise control of the innate immune response is required for resistance to microbial infections and maintenance of normal tissue homeostasis. Because this response involves coordinate regulation of hundreds of genes, it provides a powerful biological system to elucidate the molecular strategies tha...
ORGANISM(S): Mus musculus 
2011-01-01 | E-GEOD-23619 | biostudies-arrayexpress
TranscriptomicsRev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription
Rev-Erba and Rev-Erbb are nuclear receptors that regulate the expression of genes involved in the control of circadian rhythm, metabolism, and inflammatory responses. Rev-Erbs function as transcriptional repressors by recruiting NCoR/HDAC3 co-repressor complexes to Rev-Erb response elements in enha...
ORGANISM(S): Mus musculus 
2013-06-05 | E-GEOD-45914 | biostudies-arrayexpress
TranscriptomicsMechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes (Agilent expression data)
Precise control of the innate immune response is required for resistance to microbial infections and maintenance of normal tissue homeostasis. Because this response involves coordinate regulation of hundreds of genes, it provides a powerful biological system to elucidate the molecular strategies tha...
ORGANISM(S): Mus musculus 
2011-01-01 | E-GEOD-23620 | biostudies-arrayexpress
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