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TranscriptomicsThe insulator protein SU(HW) modulates nuclear lamina interactions of the Drosophila genome: DamID
Specific interactions of the genome with the nuclear lamina (NL) are thought to assist chromosome folding inside the nucleus and to contribute to the regulation of gene expression. High-resolution mapping has recently identified hundreds of large, sharply defined lamina-associated domains (LADs) in ...
ORGANISM(S): Drosophila melanogaster 
2011-01-24 | E-GEOD-20311 | biostudies-arrayexpress
TranscriptomicsThe insulator protein SU(HW) modulates nuclear lamina interactions of the Drosophila genome: expression
Specific interactions of the genome with the nuclear lamina (NL) are thought to assist chromosome folding inside the nucleus and to contribute to the regulation of gene expression. High-resolution mapping has recently identified hundreds of large, sharply defined lamina-associated domains (LADs) in ...
ORGANISM(S): Drosophila melanogaster 
2011-01-24 | E-GEOD-20312 | biostudies-arrayexpress
TranscriptomicsRNA-seq of tumor-educated platelets enables blood-based pan-cancer, multiclass and molecular pathway cancer diagnostics
We report RNA-sequencing data of 283 blood platelet samples, including 228 tumor-educated platelet (TEP) samples collected from patients with six different malignant tumors (non-small cell lung cancer, colorectal cancer, pancreatic cancer, glioblastoma, breast cancer and hepatobiliary carcinomas). I...
ORGANISM(S): Homo sapiens 
2015-10-30 | E-GEOD-68086 | biostudies-arrayexpress
TranscriptomicsGene expression profiling of histone deacetylase inhibition in epithelioid sarcoma
Epithelioid Sarcoma (ES) is a rare neoplasm uniquely comprised of cells exhibiting both mesenchymal and epithelial features. Having propensity for local and distant recurrence, it can pose a diagnostic dilemma secondary to pathologic complexity. Patients have dismal prognosis due to lack of effectiv...
ORGANISM(S): Homo sapiens 
2015-11-03 | E-GEOD-66800 | biostudies-arrayexpress
GenomicsTissue- and Stage-specific ChIP for H3K27ac, CTCF, Beaf and Su(Hw) in D. melanogaster embryos
This study contains a series of ChIP-seq experiments performed on nuclear material similar to what was used in Tissue- and Stage-specific Capture-C for selected TSS and CRM (BioStudies/ArrayExpress collection E-MTAB-9310). ChIP-seq with chromatin isolated from nuclei isolated from 2-3h whole embryos...
ORGANISM(S): Drosophila melanogaster 
2023-06-30 | E-MTAB-12639 | biostudies-arrayexpress
TranscriptomicsMethanobrevibacter smithii expression profiling
This SuperSeries is composed of the following subset Series: GSE25408: The pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii GSE25535: Expression data from an in vitro growth of Methanobrevibacter smithii PS Refer to individual Series
ORGANISM(S): Methanobrevibacter smithii ATCC 35061 
2011-11-07 | E-GEOD-25537 | biostudies-arrayexpress
TranscriptomicsMYCN and HDAC2 cooperate to repress miR-183 signaling in neuroblastoma.
MYCN is a master regulator controlling many processes necessary for tumor cell survival. Here, we unravel a microRNA network that causes tumor suppressive effects in MYCN-amplified neuroblastoma cells. In profiling studies, histone deacetylase (HDAC) inhibitor treatment most strongly induced miR-183...
ORGANISM(S): Homo sapiens 
2013-05-01 | E-GEOD-44538 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by array of the effect of S78454, a pan histone deacetylase inhibitor, on megakaryopoiesis derived from human CD34+ cells
S78454 (Abexinostat, PCI-24781) is a pan histone deacetylase inhibitor (HDACi) that demonstrates efficacy in malignancy treatment. Like other HDACi, this drug induces a profound thrombocytopenia, whose mechanism is partially understood. We have tested its effect at doses reached in patients plasma o...
ORGANISM(S): Homo sapiens 
2013-06-30 | E-MTAB-1180 | biostudies-arrayexpress
TranscriptomicsGenome-wide binding profiles of Drosophila melanogaster insulator proteins in Kc and Mbn2 cells
ChIP-chip experiments with NimbleGen whole-genome tiling arrays to compare Su(Hw), dCTCF, BEAF, and CP190 localization on DNA in Kc and Mbn2 cells revealed that BEAF is a third subclass of CP190-containing insulators. The DNA binding proteins, Su(Hw), dCTCF, and BEAF show unique distribution patter...
ORGANISM(S): Drosophila melanogaster 
2010-05-19 | E-GEOD-15661 | biostudies-arrayexpress
TranscriptomicsDepletion of Erk1 and Erk2 MAP kinases in primary human keratinocytes
We assessed the effect of RNAi-mediated MAP kinase cascade signaling blockade in primary human keratinocytes. Two sets of siRNA targeting different regions of the Erk1/2 genes were used, enabling identification of off-target siRNA effects. Primary human keratinocytes were electroporated with scra...
ORGANISM(S): Homo sapiens 
2009-05-03 | E-GEOD-15417 | biostudies-arrayexpress
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