GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE4045 Query DataSets for GSE4045
Status Public on Jul 28, 2006
Title Classification of serrated colorectal tumors
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Serrated adenocarcinomas are morphologically different from conventional adenocarcinomas. The serrated pathway has recently been proposed to represent a novel mechanism of colorectal cancer (CRC) formation. However, whether they are biologically different and truly form a distinct subclass of CRC, is not known. This study shows that the gene expression profile of serrated and conventional CRCs differs from each others and that serrated CRCs are not only morphologically novel, but also biologically distinct subclass of CRC.
Keywords: molecular classification
Overall design Total RNA was extracted from fresh frozen tumors with Trizol (GibcoBRL) and purified using RNeasy spin columns (Qiagen). The RNA quality was analyzed using a spectrophotometer and a Agilent 2100 Bioanalyzer (Agilent Technologies). Biotin labeled and fragmented cRNA was prepared from 8 micrograms of total RNA with procedures recommended for the HG-U133 GeneChip expression analysis (Affymetrix). The HG-U133A chips were hybridized, scanned and analyzed with Microarray Suite 5.0 software according to the manufacturer’s instructions (Affymetrix).
Contributor(s) Laiho P, Kokko A, Vanharanta S, Salovaara R, Sammalkorpi H, Järvinen H, Mecklin J, Karttunen TJ, Tuppurainen K, Davalos V, Schwartz S Jr, Arango D, Mäkinen MJ, Aaltonen LA
Citation(s) 16819509
Submission date Jan 16, 2006
Last update date Aug 10, 2018
Contact name Antti Kokko
Organization name University of Helsinki
Department Dept of Medical Genetics
Lab Tumorigenesis group
Street address POBOX 63 (Haartmaninkatu 8)
City Helsinki
ZIP/Postal code 00014 University of Helsinki
Country Finland
Platforms (1)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
Samples (37)
GSM92240 colorectal tumor c381
GSM92241 colorectal tumor c476
GSM92242 colorectal tumor c537
BioProject PRJNA95181

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
GSE4045_RAW.tar 125.5 Mb (http)(custom) TAR (of CEL, EXP, RPT)

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap