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Sample GSM7177615 Query DataSets for GSM7177615
Status Public on Dec 01, 2023
Title FHBT2_B1
Sample type SRA
 
Source name primary mouse bladder urothelial cells
Organism Mus musculus
Characteristics cell line: primary mouse bladder urothelial cells
cell type: bladder tumor cells
histology: Sarcomatoid
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using a GeneRead DNA FFPE Kit (Qiagen)
Two-step PCR for amplification and sequencing library adaptor ligation was performed using of 2x KAPA HiFi HotStart ReadyMix
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina NextSeq 500
 
Data processing Sequencing reads were trimmed by cutadapt and aligned to reference using Bowtie2
Samtools were used to extract read counts for each sample.
Assembly: customized barcode reference sequences.
Supplementary files format and content: tab-delimited text files include raw count values for each Sample
Library strategy: DNA-seq
 
Submission date Apr 14, 2023
Last update date Dec 01, 2023
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
 
Platform ID GPL19057
Series (2)
GSE229781 Combinatorial genetic strategy accelerates the discovery of cancer genotype-phenotype associations [bulk DNA-Seq]
GSE229783 Combinatorial genetic strategy accelerates the discovery of cancer genotype-phenotype associations
Relations
BioSample SAMN34192917
SRA SRX19976464

Supplementary file Size Download File type/resource
GSM7177615_B1_results_aln_counts.txt.gz 228 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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