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Sample GSM4808907 Query DataSets for GSM4808907
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not provided for this record

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