Dataset features

Specifications


Application: aCGH data analysis
Number of samples: 36
Release date: Jun 19 2009
Last update date: Mar 21 2012
Access: Public
Diseases: Carcinoma, Non-Small-Cell Lung
Dataset link Identification of novel candidate target genes at 3q26.2-q29 in squamous cell carcinoma of the lung

Experimental Protocol


Array-CGH was performed to compare the different patterns of genetic alterations. DNA from NSCLC patients (n=36) and human reference DNA (Promega) were differentially labeled and cohybridized on the array. The Fisher exact test utilized two categories, normal and abnormal (loss and gain), with the null hypothesis that the relative proportions of each of the two imbalance categories would be expected to be the same in the groups. The counts of abnormal versus normal were summarized by subtype of NSCLC for each BAC, providing 2x2 tables for analysis. A multiple testing correction (Benjamini-Hochberg false discovery rate (FDR)) was applied to correct for the high number of false positive calls.

Repositories


GEO

GSE16597

ArrayExpress

E-GEOD-16597

BioProject

PRJNA116165

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Contact


Jiun Kang

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