|
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 |