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Sample GSM7092104 Query DataSets for GSM7092104
Status Public on Apr 29, 2024
Title MAFF_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: MAFF
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 SAMN33716673
SRA SRX19636173

Supplementary file Size Download File type/resource
GSM7092104_cn111.mm10.csaw.narrowPeaks.bw 117.7 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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