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22 months ago
UGUR
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0
Hello Guys,
I need a metastatic cancer line data (if it is possible WGS) that is obtained from the one-patient's purified biopsy results derived from different regions (like lung, bladder). I need this data to investigate cancer evolution to apply some popgenome analyses. I guess I've found the samples of Cancer Cell Line Encyclopedia (CCLE) on the SRA however I cannot download them through prefetch command on bash terminal I'm getting an error on attached file, I guess it stems from my access permission.
Any guys can help me to suggest me any database I need or say any alternative way to download of CCLE data from SRA ? Thanks
Have you tried SRA Explorer available at https://sra-explorer.info/ . ?
Cross-posted: https://support.bioconductor.org/p/9144932/
Cancer evolution based on a (single) cellline? I feel like these questions need a) large n and b) primary material. Cells in a petri dish do all kinds of secondary adaptations to the culture condition. Be sure to review the literature whether your strategy has been basically used before.
Yes, I'm searching literature but If I watch the cancer evolution in the natural conditions (in one patient), I need sequenced biopsy results obtained from the metastatic regions. Actually, ı was wondering about the genomic response of the subclones under the selection pressure of the body therefore ex vivo studies and data wouldn't meet my requirement. I'm new blood in cancer genomics topics, I don't have any idea on databases what are composed of, then I'm asking and searching.