|
Status |
Public on Apr 29, 2024 |
Title |
BACH1_D4 |
Sample type |
SRA |
|
|
Source name |
Pancreas
|
Organism |
Mus musculus |
Characteristics |
tissue: Pancreas cell line: mT4 cell type: Murine PDAC cells genotype: KPC chip antibody: BACH1 treatment: GEM 4 days
|
Growth protocol |
DMEM, 15% fetal bovine serum, 2mM glutamine, 1x penicillin/streptomycin. Cells were cultured at 37C at 5% CO2.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Cut&Tag Operate through cell permiabilization with 0.05% Digitonin. Tn5 Transposase cleaves DNA and addition of 6.67 µL 0.5M EDTA, 2 µL 10% SDS and 1.67 µL 20 mg/mL Proteinase K, Incubation at 50C for 1hr and 37C overnight to extract DNA NEB High Fidelity PCR MasterMix
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Read trimming: CutAdapt Read Alignment: Bowtie2 Read filter: Samtools, MarkDuplicates Assembly: mm10 Supplementary files format and content: BigWig: Normalized aligned read counts Library strategy: Cut&Tag
|
|
|
Submission date |
Mar 10, 2023 |
Last update date |
Apr 29, 2024 |
Contact name |
Chan Dinh Khac Nguyen |
E-mail(s) |
cdn14@georgetown.edu
|
Phone |
2028204474
|
Organization name |
Lombardi Comprehensive Cancer Center
|
Department |
Oncology
|
Lab |
E301
|
Street address |
3970 Reservoir Rd
|
City |
Washington |
State/province |
DC |
ZIP/Postal code |
20057 |
Country |
USA |
|
|
Platform ID |
GPL24247 |
Series (1) |
GSE227129 |
PRMT1 Promotes Epigenetic Reprogramming Associated with Acquired Chemoresistance in Pancreatic Cancer |
|
Relations |
BioSample |
SAMN33716667 |
SRA |
SRX19636179 |