Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 68
Release date: Oct 27 2015
Last update date: Aug 9 2018
Access: Public
Diseases: Colonic Neoplasms, Colorectal Neoplasms
Chemicals: Formaldehyde, Paraffin
Dataset link Comparison of Nanostring nCounter data on FFPE colon cancer samples and Affymetrix microarray data on matched frozen tissues

Experimental Protocol


For microarray studies, representative sections of fresh tissue specimens were flash frozen in liquid nitrogen and stored at −80°C until RNA isolation. RNA was purified from tissue sections containing >80% epithelial tumor tissue using RNeasy (QIAGEN, Valencia, CA) according to manufacturer’s instructions. Samples were hybridized to Affymetrix arrays Human Genome U133 Plus 2.0 GeneChip Expression Arrays, Santa Clara, CA). The samples included four healthy control patient tissues, 12 stage I, 17 stage II, 20 stage III and 15 stage IV CRC patient tissues. Please note that only the *matched.csv files containing matched 414 genes' microarray and nanostring data are provided without the nanostring experimental descriptions. The matching samples between GSE62932 and the Nanostring study are indicated in the matching_samples.txt.

Repositories


GEO

GSE62932

ArrayExpress

E-GEOD-62932

BioProject

PRJNA266226

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Contact


Pengcheng Lu

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