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Genetic Landscape of Copy Number Alterations in Gastric Cancer

ABSTRACT: Genome-wide DNA copy number profiling of gastric tumors and matched non-maligant samples. The affymetrix SNP6 array was used to obtain DNA copy number profiles in 193 gastric tumors and 98 matched gastric non-malignant samples.

ORGANISM(S): Homo sapiens

PROVIDER: GSE31168 | GEO | 2012/02/10

SECONDARY ACCESSION(S): PRJNA144797

REPOSITORIES: GEO

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Genetic Landscape of Copy Number Alterations in Gastric Cancer

Project description:Genome-wide DNA copy number profiling of gastric tumors and matched non-maligant samples. The affymetrix SNP6 array was used to obtain DNA copy number profiles in 193 gastric tumors and 98 matched gastric non-malignant samples. Genomic DNA extracted from 193 gastric tumors and 98 matched gastric non-malignant (normal) tissues was hybridized on Affymetrix SNP6 genotyping arrays.

2012-02-10 | E-GEOD-31168 | biostudies-arrayexpress

Patterns of Copy-Number Loss in Gastric Adenocarcinoma

Project description:Genome-wide DNA copy number profiling of gastric tumors and matched non-maligant samples to determine patterns of copy-number loss. Other samples included in this study can be found under accession number GSE31168.

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Project description:Type II Enteropathy-associated T-cell lymphoma (Type II EATL) is an aggressive intestinal T-cell lymphoma with poor prognosis and has not been molecularly profiled. Through targeted amplicon sequencing, we identified a large portion of Type II EATL samples that harbor mutations in the STAT5B, JAK3 and GNAI2 genes. Genome-wide DNA copy number profiling of Type II EATL tumors and matched normal samples was performed to determine copy-number changes in this disease. Affymetrix SNP6 arrays were performed according to the manufacturer's directions on gDNA extracted from 4 tumors and 4 matched whole blood samples.

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Project description:Genome-wide DNA methylation profiling of gastric tumors and matched gastric non-malignant samples. The Illumina HumanMethylation27 BeadChip was used to obtain DNA methylation profiles across 27,578 CpGs in 203 gastric tumors and 94 matched non-malignant gastric samples. Bisulphite-converted DNA from the 203 gastric tumors and 94 matched gastric non-malignant samples was hybridized to the Illumina HumanMethylation27 BeadChip.

2012-10-24 | E-GEOD-30601 | biostudies-arrayexpress

Homo sapiens

Project description:Copy number variation profiling of gastric tissues: Cancer Samples vs. Matched Adjacent Noncancerous Samples

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Cancer Samples vs. Matched Adjacent Noncancerous Samples

Project description:This SuperSeries is composed of the following subset Series: GSE33335: Expression data from gastric tissues: Cancer Samples vs. Matched Adjacent Noncancerous Samples GSE33428: Copy number variation profiling of gastric tissues: Cancer Samples vs. Matched Adjacent Noncancerous Samples Refer to individual Series

2012-05-22 | E-GEOD-33429 | biostudies-arrayexpress

Expression data from gastric tissues: Cancer Samples vs. Matched Adjacent Noncancerous Samples

Project description:To elucidate gene expression associated with copy number changes, we performed a genome-wide copy number and expression microarray analysis of 25 pairs of gastric tissues. 25 pairs of gastric tissues: gastric cancer tissues vs. matched adjacent noncancerous tissues.

2012-05-22 | E-GEOD-33335 | biostudies-arrayexpress

Copy number variation profiling of gastric tissues: Cancer Samples vs. Matched Adjacent Noncancerous Samples

Project description:Copy number variation profiling of gastric tissues comparing gastric cancer tissues with matched adjacent noncancerous tissues. Goal was to determine the effects of chromosomal imbalances on gene expression and carcinogenesis or progression.

2012-05-23 | GSE33428 | GEO

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