|
| Status |
Public on Apr 19, 2022 |
| Title |
p53.1: p53 gain of function mutation tongue sample 1 |
| Sample type |
SRA |
| |
|
| Source name |
Heterozygous LSL-p53+/R172H squamous epithelium from mouse tongue
|
| Organism |
Mus musculus |
| Characteristics |
tissue: squamous epithelium
genotype/variation: Heterozygous LSL-p53+/R172H
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TruSeq Stranded mRNA LT Sample Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Bases were called with RTA (Illumina).
Adaptors were trimmed and reads were converted from BCL to Fasta format with bcl2fastq (version 1.8.4).
Fastq files were trimmed of low quality bases and adapters with Trimmomatic
Reads were mapped to the genome with Rubread.
Reads were assigned to genes and counted with featurecounts
Genome_build: mm10
Supplementary_files_format_and_content: text file with raw counts for each gene
|
| |
|
| Submission date |
Jan 15, 2020 |
| Last update date |
Apr 19, 2022 |
| Contact name |
Richard A Friedman |
| Organization name |
Columbia University Irving Medical Center
|
| Department |
Medicine
|
| Lab |
Cancer Center
|
| Street address |
1130 St. Nicholas Av
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE143716 |
PIK3CA and p53 mutations promote 4NQO-initated head and neck tumor progression and metastasis in mice |
|
| Relations |
| BioSample |
SAMN13867125 |
| SRA |
SRX7567688 |
