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Series GSE152631 Query DataSets for GSE152631
Status Public on Sep 04, 2020
Title Dynamics of the cell-free DNA methylome of metastatic prostate cancer during androgen-targeting treatment
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary Aim: We examined methylation changes in cell-free DNA (cfDNA) in metastatic castration resistant prostate cancer (mCRPC) during treatment. Patients and Methods: Genome-wide methylation analysis of sequentially collected cfDNA samples derived from mCRPC patients undergoing androgen-targeting therapy was performed. Results: Alterations in methylation states of genes previously implicated in prostate cancer progression were observed, and patients that maintained methylation changes throughout therapy tended to have a longer time to clinical progression (TTP). Importantly, we also report that markers associated with a highly aggressive form of the disease, Neuroendocrine-CRPC, were associated with a faster TTP. Conclusion: Our findings highlight the potential of monitoring the cfDNA methylome during therapy in mCRPC, which may serve as predictive markers of response to androgen-targeting agents.
Overall design We performed methylated DNA immunoprecipitation followed by high-throughput sequencing (cfMeDIP-seq) of cfDNA derived from 16 patients with mCRPC at various stages of treatment with androgen-targerting agents. Visit A = Baseline/pre-treatment visit; Visit B = Week-12 (+/- 2 weeks) during treatment; Visit C = Clinical progression/change of treatment. Each cfDNA sample has a methylated DNA enriched sequencing file and an input control file.
Contributor(s) Bapat B, Peter M, Bilenky M
Citation(s) 32867540
Submission date Jun 16, 2020
Last update date Sep 07, 2020
Contact name Bharati Bapat
Organization name Sinai Health System
Department Lunenfeld-Tanenbaum Research Institute
Street address 60 Murray Street, Rm L6-304B
City Toronto
State/province Ontario
ZIP/Postal code M5T3L9
Country Canada
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (90)
GSM4618936 ID1_VisitA_MeDIP-seq
GSM4618937 ID1_VisitA_Input_Control
GSM4618938 ID1_VisitB_MeDIP-seq
BioProject PRJNA639869
SRA SRP267582

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
GSE152631_RAW.tar 104.1 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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