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Sample GSM8124858 Query DataSets for GSM8124858
Status Public on Mar 05, 2024
Title day235_BCL2+K_rep3
Sample type SRA
 
Source name Spleen
Organism Mus musculus
Characteristics tissue: Spleen
cell type: Germinal center B cell
genotype: BCL2+K
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using the PureLink genomic DNA mini kit (Invitrogen, cat# K182002) following the manual.
Sequencing libraries were generated using the Agilent SureSelectXT Mouse All Exon kit (cat# 5190-4641) following the manual.
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina NovaSeq 6000
 
Description BK_3
Data processing BWA was utilized to map the paired-end clean reads to the mouse reference genome mm10. SNPs and InDels were detected and filtered (total counts ≥ 10) using GATK software.
Assembly: mm10
Supplementary files format and content: xlsx file summarizing variants called in each sample, the values represent VAF (variant allele frequency).
Library strategy: WES-seq (whole exome sequencing)
 
Submission date Mar 04, 2024
Last update date Mar 05, 2024
Contact name Christopher Russell Chin
E-mail(s) chc2077@med.cornell.edu
Phone 3393640514
Organization name Weill Cornell
Lab Melnick Lab
Street address 413 E 69th Street, Belfer Building, BB-1462
City New York City
State/province NY
ZIP/Postal code 10021
Country USA
 
Platform ID GPL24247
Series (2)
GSE224513 Cooperative super-enhancer inactivation caused by heterozygous loss of CREBBP and KMT2D skews B-cell fate decisions and accelerates development of T-cell depleted lymphomas.
GSE260809 Cooperative super-enhancer inactivation caused by heterozygous loss of CREBBP and KMT2D skews B-cell fate decisions and accelerates development of T-cell depleted lymphomas [WES]
Relations
BioSample SAMN40255155
SRA SRX23831497

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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