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Series GSE19034 Query DataSets for GSE19034
Status Public on Feb 25, 2014
Title EYA4 is a non-small cell lung cancer tumor suppressor located in the susceptibility locus on chromosome 6q
Organism Homo sapiens
Experiment type Methylation profiling by array
Genome variation profiling by genome tiling array
Summary This study was undertaken to identify novel tumour suppressor genes in lung adenocarcinoma. EYA4, located at 6q23.2 was identified as a frequently lost and hypermethylated gene in the analyzed samples. EYA4 is underexpressed in addition to being deleted and hypermethylated. Control of EYA4 expression by DNA methylation was assessed using 5'-azacytidine. The role of EYA4 in apoptosis was assessed using a stable knock down of the gene which was assessed for apoptotis using FACS and qPCR.
 
Overall design Methylation profiling: 30 adenocarcinoma samples and 30 patient-matched non-malignant lung samples are included. Non-malignant samples were used as references to identify hypermethylated probes. For each normal/tumor pair, the sample numbers are paired but offset by one with the tumor being the lower of the two numbers. For example, 85040001 is the adenocarcinoma tumor profile that pairs with non-malignant 85040002.
Genome variation (aCGH) profiling: 30 adenocarcinoma gene dosage profiles are included. Values presented are log2 ratios of Cy3(sample)/Cy5(diploid reference)
 
Contributor(s) Wilson IM, Vucic EA, Char R, Zhang YA, Starczynowski DT, Buys TP, Karsan A, Yee J, MacAulay C, Lam SL, Gazdar AF, Lam WL
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Submission date Nov 16, 2009
Last update date Jan 02, 2015
Contact name Ian Michael Wilson
E-mail(s) iwilson@bccrc.ca
Phone 6046758000x7703
URL http://www.bccrc.ca/cg/people_iwilson.html
Organization name British Columbia Cancer Research Centre
Department Cancer Genetics
Lab Wan Lam Lab
Street address 675 West 10th Avenue
City Vancouver
State/province BC
ZIP/Postal code V5Z1L3
Country Canada
 
Platforms (2)
GPL2616 BCCRC Lam SMRTr array
GPL8490 Illumina HumanMethylation27 BeadChip (HumanMethylation27_270596_v.1.2)
Samples (90)
GSM471087 lung_adenocarcinoma_DNA (85040001): MP
GSM471088 lung_non-malignant_DNA (85040002): MP
GSM471089 lung_adenocarcinoma_DNA (85040031): MP
Relations
BioProject PRJNA120637

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
GSE19034_RAW.tar 384.1 Mb (http)(custom) TAR (of IDAT, TXT)
Processed data included within Sample table
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