E-GEOD-58356 - Axiom® Exome 319 Array data to identify susceptible genetic variations of gastric cancer

Status
Released on 11 June 2014, last updated on 14 June 2014
Organism
Homo sapiens
Samples (1012)
Array (1)
Protocols (8)
Description
To efficiently identify genetic susceptibility variants for gastric cancer, including rare coding variants, we performed an exome chip-based array study. We found that a linkage disequilibrium (LD) block containing 2 significant variants in PSCA gene increased the risk and two blocks that included 15 suggested variants including TRIM31, TRIM 40, TRIM 10, and TRIM26 regions, and included one suggested variant and OR2H2 gene showed protective associations with gastric cancer susceptibility. In addition, the PLEC region (rs200893203), FBLN2 region (rs201192415), and EPHA2 region (rs3754334) were associated with increased susceptibility We performed an exome chip-based array study in 329 gastric cancer cases and 683 controls.
Experiment types
genotyping by array, comparative genomic hybridization by array 
Contacts
Boyoung Park <geo@ncbi.nlm.nih.gov>, Eun S Shin, Hae D Woo, Il J Choi, Jeonghee Lee, Jeongseon Kim, Jong E Lee, Seung H Jeong, Young A Cho, Young W Kim
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-58356.idf.txt
Sample and data relationshipE-GEOD-58356.sdrf.txt
Raw data (38)Click to browse raw data
Processed data (17)Click to browse processed data
Array designA-GEOD-18760.adf.txt
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