|
| Status |
Public on Feb 02, 2018 |
| Title |
PRMT1_ChIPseq_D4476_rbmab |
| Sample type |
SRA |
| |
|
| Source name |
human keratinoctyes expressing HA-PRMT1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: primary human neonatal keratinocytes
antibody: HA (cell signaling C29F4)
|
| Treatment protocol |
HA-PRMT1 were expressed using pBABE retroviral vector at near endogenous level. D4476 were added to 60uM final concentration for 48 hours before crosslinking
|
| Growth protocol |
neonatal keratinocyte were isolated from discarded foreskin, cultured in KSF and 154 keratinocyte medium
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For ChIP-seq, HA-PRMT1 expressing primary keratinocytes were crosslinked with 1% formaldehyde and DSG, sonicated, and immunoprecipiated with antibodies recognizing the HA tag.
For ChIP-seq, NEBNext® ChIP-Seq Library Prep Master Mix Set for Illumina was used for library construction.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
ChIP-seq in undifferentiated keratinocytes with D4476
|
| Data processing |
Reads were mapped to UCSC hg19 using bowtie,
ChIPseq peaks were called using MACS14.
Genome_build: hg19
Supplementary_files_format_and_content: Peak files are in standard bed/whole bed format
|
| |
|
| Submission date |
Feb 02, 2018 |
| Last update date |
Oct 11, 2022 |
| Contact name |
Douglas Porter |
| Organization name |
Stanford
|
| Department |
Dermatology
|
| Lab |
Khavari
|
| Street address |
269 Campus Drive
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE81942 |
PRMT1 and CSNK1a1 control epidermal progenitor maintenance |
| GSE110050 |
PRMT1 and CSNK1a1 control epidermal progenitor maintanence (PRMT1 ChIP-seq data set) |
|
| Relations |
| BioSample |
SAMN08456673 |
| SRA |
SRX3642949 |
