|
Status |
Public on Sep 30, 2020 |
Title |
18X8 [wgs] |
Sample type |
SRA |
|
|
Source name |
muscle
|
Organism |
Mus musculus |
Characteristics |
genotype: WT
|
Treatment protocol |
no pharmacological treatments
|
Growth protocol |
genetically induced tumors
|
Extracted molecule |
genomic DNA |
Extraction protocol |
harvested and snap frozen at primary tumor morbidity nextera dna flex library prep with udi
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
low-read-depth whole genome sequencing
|
Data processing |
Library strategy: whole genome sequencing BWA mem mm10 alignments, GATK recalibration/realignment, unique observation read coverage estimation and comprehensive data quality control CNVkit with the CBS method and a bin size of 100 kb Genome_build: mm10 Supplementary_files_format_and_content: vcf
|
|
|
Submission date |
Sep 29, 2020 |
Last update date |
Sep 30, 2020 |
Contact name |
Jinxiu Li |
Organization name |
China Agricutural University
|
Department |
College of biological sciences
|
Lab |
State key laboratories of Agrobiotechnology
|
Street address |
Yuanmingyuan west road 2#
|
City |
Beijing |
State/province |
Beijing |
ZIP/Postal code |
100193 |
Country |
China |
|
|
Platform ID |
GPL24247 |
Series (2) |
GSE158719 |
Low read depth whole genome sequencing of mouse Cre-loxP-induced Ewsr1-Atf1 translocation tumors |
GSE158726 |
Cre-loxP-induced Ewsr1-Atf1 translocation tumors |
|
Relations |
BioSample |
SAMN16288598 |
SRA |
SRX9212169 |