|
| Status |
Public on Dec 19, 2023 |
| Title |
mT3-2D En1 H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
Pancreas
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Pancreas
cell line: mT3-2D
cell type: Epithelial cells
genotype: Kras +/LSL-G12D; Trp53 +/LSL-R172H; Pdx1-Cre
treatment: En1 cDNA
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Enriched chromatin were extracted using CUT&RUN assay kit (Cell Signaling Technology).
Library preparation and sequencing were performed by Novogene Co., LTD (Beijing, China) on a NovaSeq 6000 PE150 sequencing system.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Paired-end sequencing reads were aligned to mm9 reference genome using Bowtie2.
Aligned reads were filtered using SAMtools tollkit to filter the BAM file on the mapping quality (Minimum MAPQ quality score 20).
Bigwig file of fragment or read coverages were generated using bamCoverage (Bin size in bases 50).
Assembly: mm9
Supplementary files format and content: Bigwig
Library strategy: CUT&RUN-seq
|
| |
|
| Submission date |
Apr 03, 2023 |
| Last update date |
Aug 15, 2024 |
| Contact name |
Chang-il Hwang |
| E-mail(s) |
cihwang@ucdavis.edu
|
| Organization name |
University of California Davis
|
| Department |
Microbiology and Molecular Genetics
|
| Street address |
One Shields Ave
|
| City |
Davis |
| State/province |
CA |
| ZIP/Postal code |
95616 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE228802 |
Engrailed-1 Promotes Pancreatic Cancer Metastasis [CUT&RUN] |
| GSE228805 |
Engrailed-1 Promotes Pancreatic Cancer Metastasis |
|
| Relations |
| BioSample |
SAMN34050389 |
| SRA |
SRX19848755 |
