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TranscriptomicsHDAC Inhibitors induce tumor cell-selective pro-apoptotic transcriptional responses.
The identification of recurrent somatic mutations in genes encoding epigenetic enzymes, coupled with biochemical studies demonstrating aberrant recruitment of epigenetic enzymes such as histone deacetylases (HDACs) and histone methyltransferases (HMTs) to promoter regions through association with on...
ORGANISM(S): Homo sapiens 
2013-04-22 | E-GEOD-43010 | biostudies-arrayexpress
Genomicsena-DATASET-ICR-GM-05-05-2015-22:13:47:053-131 - samples
463 newly diagnosed patients from the UK Myeloma XI clinical trial (NCT01554852) underwent whole exome sequencing plus targeted capture of the IGH/K/L and MYC loci. 200 ng of DNA were processed using NEBNext DNA library prepartion kit and hybridised to the SureSelect Human All Exon V5 Plus. Four s...
EGAD00001001358 | EGA
Genomics463 newly diagnosed patients with Multiple Myeloma underwent whole exome sequencing of tumour and peripheral blood DNA.
463 newly diagnosed patients from the UK Myeloma XI clinical trial (NCT01554852) underwent whole exome sequencing plus targeted capture of the IGH/K/L and MYC loci. 200 ng of DNA were processed using NEBNext DNA library prepartion kit and hybridised to the SureSelect Human All Exon V5 Plus. Four s...
EGAS00001001147 | EGA
TranscriptomicsComparative genomic hybridization of forty clinical isolates from twelve common serovars within Salmonella enterica subspecies I (sspI) to identify the conserved gene pool present
We have performed microarray hybridization studies on forty clinical isolates from twelve common serovars within Salmonella enterica subspecies I (sspI) to identify the conserved gene pool present.
ORGANISM(S): Salmonella enterica subspecies I 
2005-12-06 | E-SGRP-1 | biostudies-arrayexpress
TranscriptomicsHistone H3 lysine 4 acetylation-methylation dynamics define breast cancer subtypes [RNA-seq]
The onset and progression of breast cancer are linked to genetic and epigenetic changes that alter the normal programming of cells. Epigenetic modifications of DNA and histones contribute to chromatin structure that results in the activation or repression of gene expression. Several epigenetic pathw...
ORGANISM(S): Homo sapiens 
2016-02-10 | E-GEOD-75168 | biostudies-arrayexpress
TranscriptomicsAtp4b-Cre;Cdh1(fl/fl);Kras(LSL-G12D/+);Trp53(fl/fl);Rosa26(LSL-YFP/LSL-YFP) mouse stomach vs. Atp4b-Cre;Cdh1(fl/+);Kras(LSL-G12D/+);Trp53(fl/fl);Rosa26(LSL-YFP/LSL-YFP) mouse stomach microarray
We wished to investigate the role of E-cadherin loss in our mouse parietal cell/pre-parietal cell E-cadherin knock-out, p53 knock-out, oncogenic Kras induced model of gastric cancer. As such, we isolated RNA from stomach tissue from our E-cadherin knock-out model (Atp4b-Cre;Cdh1(fl/fl);Kras(LSL-G12D...
ORGANISM(S): Mus musculus 
2018-05-01 | E-MTAB-5833 | biostudies-arrayexpress
TranscriptomicsRNA-Seq of six mammals
Homologous vertebrate tissues express a highly conserved set of transcribed genes; paradoxically, expression of tRNAs that are required to translate mRNAs into proteins have been reported to be divergent. To resolve this paradox, we mapped the genome-wide occupancy of pol III in primary tissues iso...
ORGANISM(S): Mus musculus 
2011-07-29 | E-MTAB-424 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human CD34+ stem/progenitor cell populations mobilized into the blood by granulocyte colony-stimulating factor
Mononuclear cells were isolated from granulocyte colony stimulating factor mobilised peripheral blood. CD34+ cells were selected and separated into adherent and non-adherent cells. Adherent and non-adherent samples were amplified and labelled using two IVT cycles, and gene expression profiling was p...
ORGANISM(S): Homo sapiens 
2008-08-01 | E-MIMR-861 | biostudies-arrayexpress
TranscriptomicsThe mental retardation gene PHF8 mediates histone H4K20/H3K9 demethylation and regulates zebrafish brain apoptosis and craniofacial development: expression analysis
PHF8 (PHD Finger 8) mutations have been found in patients with X-linked mental retardation (XLMR) and craniofacial deformities. Here we identify PHF8 as the first enzyme that mediates demethylation of mono-methylated histone H4 lysine (K) 20 (H4K20me1), with additional activities towards H3K9me2/1 a...
ORGANISM(S): Homo sapiens 
2010-07-14 | E-GEOD-21555 | biostudies-arrayexpress
TranscriptomicsTargeting the MTOR-AKT pathway in DLBCL
The mTOR (mammalian Target of Rapamycin) pathway is constitutively activated in Diffuse Large B-Cell Lymphoma (DLBCL). mTOR inhibition has been shown to have clinical activity in patients with DLBCL, although overall response rates remain low. We therefore evaluated differences in the transcriptome...
ORGANISM(S): Homo sapiens 
2012-04-29 | E-GEOD-27255 | biostudies-arrayexpress
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