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Series GSE76351 Query DataSets for GSE76351
Status Public on Dec 28, 2015
Title Genomic and transcriptomic data integration and its automated analysis in clear-cell renal cell carcinoma suggests population heterogeneity of causes and mechanism of the disease
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Renal cell carcinoma (RCC) is one of the most widespread solid kidney tumors – it represents 90% of all malignant kidney tumors. Clear-cell RCC is the most widespread type of RCC. It is characterized by 3-rd chromosome rearrangements, VHL inactivation due to mutations or promoter hypermethylation, 5p amplification, and mutations in KDM6A/UTX, SETD2, KDM5C/JARID1C and MLL2 genes. Molecular profile of ccRCC was characterized in a number of research papers using high-throughput platforms (microarray SNP-profiling, RNA-seq, whole exome and whole genome sequencing). Nevertheless, differences of observed mutations and gene expression levels among different populations suggest that causes and mechanism of the disease can also vary. In order to obtain such information about Western Russian population we have performed DNA resequencing and microarray expression profiling, and then integrated this data in a single dataset. We then analyzed DNA mutations and gene expression level simultaneously using standard molecular data analysis pipelines (gene set enrichment analysis, casual gene network generation, principle component analysis).
 
Overall design Gene expression was analyzed in tumor and normal kidney tissues of patients 50 to 75 years old using Affymetrix Human Gene 1.1 ST arrays.
 
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Submission date Dec 27, 2015
Last update date Nov 08, 2016
Contact name Sergey Solodskikh
E-mail(s) s.solodskih@gmail.com
Organization name Voronezh State University
Department Genetics, Cytology and Bioengineering
Street address Universitetskaya sq, 1
City Voronezh
ZIP/Postal code 394006
Country Russia
 
Platforms (1)
GPL11532 [HuGene-1_1-st] Affymetrix Human Gene 1.1 ST Array [transcript (gene) version]
Samples (24)
GSM1982001 Kidney-Normal-01
GSM1982002 Kidney-Normal-02
GSM1982003 Kidney-Normal-03
Relations
BioProject PRJNA307068

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
GSE76351_RAW.tar 107.9 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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