Human Gene Set: AGUIRRE_PANCREATIC_CANCER_COPY_NUMBER_DN


Standard name AGUIRRE_PANCREATIC_CANCER_COPY_NUMBER_DN
Systematic name M8897
Brief description Down-regulated genes whose expression correlates with copy number losses in pancreatic adenocarcinoma cell lines and primary tumor specimens.
Full description or abstract The pancreatic adenocarcinoma genome harbors multiple amplifications and deletions, pointing to the existence of numerous oncogenes and tumor suppressor genes driving the genesis and progression of this lethal cancer. Here, array comparative genomic hybridization on a cDNA microarray platform and informatics tools have been used to define the copy number alterations in a panel of 24 pancreatic adenocarcinoma cell lines and 13 primary tumor specimens. This high-resolution genomic analysis has identified all known regional gains and losses as well as many previously uncharacterized highly recurrent copy number alterations. A systematic prioritization scheme has selected 64 focal minimal common regions (MCRs) of recurrent copy number change. These MCRs possess a median size of 2.7 megabases (Mb), with 21 (33%) MCRs spanning 1 Mb or less (median of 0.33 Mb) and possessing an average of 15 annotated genes. Furthermore, complementary expression profile analysis of a significant fraction of the genes residing within these 64 prioritized MCRs has enabled the identification of a subset of candidates with statistically significant association between gene dosage and mRNA expression. Thus, the integration of DNA and RNA profiles provides a highly productive entry point for the discovery of genes involved in the pathogenesis of pancreatic adenocarcinoma.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 15199222   Authors: Aguirre AJ,Brennan C,Bailey G,Sinha R,Feng B,Leo C,Zhang Y,Zhang J,Gans JD,Bardeesy N,Cauwels C,Cordon-Cardo C,Redston MS,DePinho RA,Chin L
Exact source Table 5S: gene weight < 0
Related gene sets (show 1 additional gene sets from the source publication)

(show 218 gene sets from the same authors)
External links
Filtered by similarity ?
Source species Homo sapiens
Contributed by Arthur Liberzon (MSigDB Team)
Source platform or
identifier namespace		 AFFY_HG_U133
Dataset references  
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 237 genes
Gene families ? Categorize these 237 genes by gene family
Show members (show 359 source identifiers mapped to 237 genes)
Version history  

See MSigDB license terms here. Please note that certain gene sets have special access terms.