|
Status |
Public on Mar 05, 2024 |
Title |
day235_BCL2_rep3 |
Sample type |
SRA |
|
|
Source name |
Spleen
|
Organism |
Mus musculus |
Characteristics |
tissue: Spleen cell type: Germinal center B cell genotype: BCL2
|
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 |
B_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 |
SAMN40255163 |
SRA |
SRX23831489 |