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Series GSE229780 Query DataSets for GSE229780
Status Public on Dec 01, 2023
Title Combinatorial genetic strategy accelerates the discovery of cancer genotype-phenotype associations [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Available genetically-defined cancer models are limited in genotypic and phenotypic complexity and underrepresent the heterogeneity of human cancer. Herein, we describe a combinatorial genetic strategy applied to an organoid transformation assay to rapidly generate diverse, clinically relevant models of bladder and prostate cancer. Importantly, the clonal architecture of the resultant tumors can be resolved using single-cell or spatially resolved next-generation sequencing to uncover polygenic drivers of cancer phenotypes.
 
Overall design Bulk RNA-seq was performed on laser captured section of FFPF samples of bladder tumors with different histology generated by transducing the bladder urothelial cells with a pooled lentivirus containing candidate oncogenic events to profile the transcriptome of tumors with different phenotypes. Analysis was performed to compare transcriptome profile of the tumors from different histology group.
 
Contributor(s) Li S, Wong A, Sun H, Lee JK
Citation(s) 38424461
Submission date Apr 14, 2023
Last update date Mar 13, 2024
Contact name John K. Lee
E-mail(s) jklee5@fredhutch.org
Phone 2066673652
Organization name Fred Hutch Cancer Research Ctr
Street address 1100 Fairview Ave N Rm E2-430
City Seattle
State/province Washington
ZIP/Postal code 98101
Country USA
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (13)
GSM7177602 FHBT1a_B7_SARQ
GSM7177603 FHBT1b_B7_URO
GSM7177604 FHBT1c_B7_papillary
This SubSeries is part of SuperSeries:
GSE229783 Combinatorial genetic strategy accelerates the discovery of cancer genotype-phenotype associations
Relations
BioProject PRJNA955816

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
GSE229780_FHBT-FPKM-Matrix.txt.gz 501.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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