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Series GSE269180 Query DataSets for GSE269180
Status Public on Jun 07, 2024
Title Understanding the biological processes of clear cell renal carcinoma carcinogenesis: an integrative multi-omics approach.
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Multi-Omics analysis to gain novel insights into clear cell renal carcinoma aetiology and progression. The DNA methylation data of 121 clear clear renal carcinoma (ccRCC) were integrated with WGS and transcriptomic data using Multi-Omics Factor Analysis (MOFA) to detect the inter-patient variations related to aetiological and disease progression related factors.
 
Overall design At the discovery phase, MOFA analysis integrated the DNA methylation (The Infinium MethylationEPIC BeadChip v1), transcriptomic, and WGS data of overlapping tumor samples to explore the major sources of ccRCC inter-patient variation captured by MOFA latent factors. At the validation phase, we used LASSO models to build signatures of MOFA factors in other datasets.
 
Contributor(s) Cortez Cardoso Penha R, Mckay J
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Jun 05, 2024
Last update date Jun 07, 2024
Contact name James Mckay
E-mail(s) mckay@iarc.fr
Organization name IARC - International Agency for Research on Cancer
Street address 25 Av. Tony Garnier
City Lyon
ZIP/Postal code 69007
Country France
 
Platforms (1)
GPL21145 Infinium MethylationEPIC
Samples (121)
GSM8307505 DNA methylation data of ccRCC tumor 1
GSM8307506 DNA methylation data of ccRCC tumor 2
GSM8307507 DNA methylation data of ccRCC tumor 3
Relations
BioProject PRJNA1120468

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
GSE269180_MatrixProcessed.tsv.gz 746.4 Mb (ftp)(http) TSV
GSE269180_RAW.tar 1.8 Gb (http)(custom) TAR (of IDAT)
GSE269180_betas2Geo.tsv.gz 975.1 Mb (ftp)(http) TSV
GSE269180_rawdata2Geo.tsv.gz 635.9 Mb (ftp)(http) TSV

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