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GenomicsRole of Polycomb group proteins in the DNA damage response – a reassessment
We have investigated whether components of Polycomb repressive complex 1 (PRC1) are recruited to double-strand breaks (DSBs) generated by inducible expression of the AsiSI restriction enzyme in normal human fibroblasts. Using chromatin immunoprecipitation and deep sequencing (ChIP-seq), which detec...
ORGANISM(S): Homo sapiens 
2014-07-06 | E-GEOD-55605 | biostudies-arrayexpress
TranscriptomicsDefinition of the fibroblast SRF-mediated immediate-early transcriptional response
To control transcription, SRF recruits signal-regulated co-activators, the Ternary Complex Factors (TCFs) and the Myocardin-related Transcription Factors (MRTFs), which compete for a common site on its DNA-binding domain. The TCFs - SAP-1, Elk-1 and Net - are Ets proteins that link SRF activity to R...
ORGANISM(S): Mus musculus 
2014-04-24 | E-GEOD-45888 | biostudies-arrayexpress
GenomicsTracking the genomic evolution of esophageal adenocarcinoma through neoadjuvant chemotherapy
Esophageal adenocarcinomas (EACs) are associated with dismal prognosis. Deciphering the evolutionary histories of this disease may shed light on therapeutically tractable targets and reveal changing mutational processes during the disease course and following neoadjuvant chemotherapy (NAC). We exome...
EGAS00001001254 | EGA
TranscriptomicsAnalysis of gene expression with the Hmga2 allelic series.
In this study, we introduced a series of expression constructs into a mouse lung cancer cell line (482N1): (1) a control short hairpin RNA (shluc) plus the empty expression vector (empty); (2) an shRNA targeting Hmga2 (shHmga2) plus empty; (3) shHmga2 plus an expression vector for the full-length Hm...
ORGANISM(S): Mus musculus 
2013-09-18 | E-GEOD-50932 | biostudies-arrayexpress
Genomicsena-DATASET-UCL-14-05-2015-18:11:37:007-120 - samples
This dataset contains whole exome data from 8 esophageal adenocarcinoma tumors, that has been subjected to multiregion sequencing, ranging from 3-8 regions per tumor. In total, 40 tumor samples and 8 normal blood samples have been sequenced on Illumina HiSeq 2500 at a median dept of 90x.
EGAD00001001364 | EGA
GenomicsTRACERx esophageal adenocarcinoma
Data Access Committee EGAC00001000340
EGAC00001000340 | EGA
GenomicsGenome wide co-localization of Polycomb orthologs and their effects on gene expression in human fibroblasts
We have identfied antibodies that support chromatin immunoprecipitation (ChIP) of 11 components of Polycomb repressive complex 1 (PRC1) and shown that multiple variants of PRC1 associate with the same DNA. By performing ChIP-seq with antibodies against CBX6, CBX7, CBX8, RING1 and RING2, in two stra...
ORGANISM(S): Homo sapiens 
2013-12-19 | E-GEOD-40740 | biostudies-arrayexpress
GenomicsTRACERx: TRAcking non-small cell lung Cancer Evolution through therapy (Rx). Pilot Study. Multi-region sequencing of early-stage NSCLCs.
Deciphering the complexity of non-small cell lung cancer (NSCLC) evolutionary histories may elucidate the basis for its dismal outcome. We performed multi-region sequencing of early-stage NSCLCs. Spatial dissection revealed branched tumor evolution, with driver mutations occurring before and after s...
EGAS00001000809 | EGA
GenomicsSpatial and temporal diversity in genomic instability processes define early stage lung cancer evolution.
Deciphering the complexity of non-small cell lung cancer (NSCLC) evolutionary histories may elucidate the basis for its dismal outcome. We performed multi-region sequencing on 25 regions from seven early-stage NSCLCs. Spatial dissection revealed branched tumor evolution, with driver mutations occurr...
EGAS00001000840 | EGA
Genomicsena-DATASET-CRUK-LRI-05-08-2014-14:10:54:243-46 - samples
Van Hippel-Lindau syndrome multi-region exome sequencing of two patients
EGAD00001000973 | EGA
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