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Series GSE128695 Query DataSets for GSE128695
Status Public on Mar 22, 2022
Title An association study between somatic alterations and eQTL in immunity, DNA repair and inflammation pathways in esophageal squamous cell carcinoma (ESCC)
Organism Homo sapiens
Experiment type SNP genotyping by SNP array
Summary Since ESCC is a complex and heterogeneous disease, it is increasingly important that analyses combine the evaluation of alterations in DNA, including somatic copy number alterations (SCNA), which distinguished from germ line copy number variants, allelic imbalance and LOH, and RNA, including those that occur in both mRNA and miRNA on the same specimen. Thus, in order to better understand their potential interactions in the development of cancers, in the present study, we studied alterations at DNA level as well as expression of mRNA and target miRNA in tumors and their matched normal tissues from 56 ESCC cases on a candidate tumor suppressor gene CSMD1 to characterize there alterations in this gene for import insights into the cellular detect that cause the complex disease, ESCC.
Overall design Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted from esophageal squamous cell carcinoma diagnosed or peripheral blood samples.
Contributor(s) Yang H, Liu H, Hu N, Su H, Wang C, Giffen C, Taylor P, Goldstein AM, Lee MR
Citation(s) 35406404
Submission date Mar 21, 2019
Last update date Apr 20, 2022
Contact name Maxwell Lee
Phone 240-276-5239
Organization name National Cancer Institute, NIH
Department CCR
Lab Laboratory of Human Carcinogenesis
Street address Building 37, Room 5120
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platforms (1)
GPL6801 [GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array
Samples (40)
GSM3682815 ESCC E0379T
GSM3682816 ESCC E0842T
GSM3682817 ESCC E0848T
BioProject PRJNA528509

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
GSE128695_RAW.tar 1.1 Gb (http)(custom) TAR (of CEL)
GSE128695_SNP6_genotypecall.txt.gz 299.6 Mb (ftp)(http) TXT
Processed data are available on Series record

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