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Series GSE24550 Query DataSets for GSE24550
Status Public on May 19, 2011
Title Exon level expression profiling of colorectal cancer tissue samples (validation sample series).
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Colorectal cancer is a heterogeneous disease molecularly characterized by inherent genomic instabilities, chromosome instability and microsatellite instability. In the present study we propose transcriptome instability as an analogue to genomic instability on the transcriptome level. Exon microarray data from two independent series of altoghether 160 colorectal cancer tissue samples was used for global alternative splicing detection using the FIRMA algorithm (aroma.affymetrix). The sample-wise amounts of these alternative splicing scores exceeding a defined threshold (deviating exon usage amounts) were summarized to provide the basis for description of transcriptome instability. This characteristic was shown to be associated with splicing factor expression levels and patient survival in both independent sample series.
 
Overall design We analyzed genome-wide expression at the exon-level for two independent series of colorectal cancer tissue biopsies using the Affymetrix Human Exon 1.0 ST platform. This series of samples represents the validation series.
 
Contributor(s) Sveen A, Ågesen TH, Nesbakken A, Lothe RA, Skotheim RI
Citation(s) 21619627, 22213796, 22991413, 29900672, 31321083, 21909432
Submission date Oct 06, 2010
Last update date Oct 21, 2019
Contact name Anita Sveen
E-mail(s) anita.sveen@rr-research.no
Organization name Institute for Cancer Research, Oslo University Hospital
Department Department of Molecular Oncology
Street address P.O.Box 4953, Nydalen
City Oslo
ZIP/Postal code NO-0424
Country Norway
 
Platforms (2)
GPL5175 [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [transcript (gene) version]
GPL11028 [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [HuEx-1_0-st-v2,coreR3,A20071112,EP.cdf]
Samples (167)
GSM712398 colorectal cancer sample AUS2_003_p348 [gene-level]
GSM712399 colorectal cancer sample AUS2_010_p1622 [gene-level]
GSM712400 colorectal cancer sample AUS2_011_p423 [gene-level]
This SubSeries is part of SuperSeries:
GSE24551 Exon level expression profiling of colorectal cancer tissue samples
Relations
BioProject PRJNA133515

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24550_RAW.tar 3.6 Gb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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