|
| Status |
Public on Apr 30, 2022 |
| Title |
ChIP-seq, input, iPSC-induced RPE, biol rep2 |
| Sample type |
SRA |
| |
|
| Source name |
WTB
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: WTB
cell type: iPSC-induced RPE
genotype: wild-type
chip antibody: none
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were washed with PBS and crosslinked with 1% formaldehyde prior to library construction
Libraries were prepared using Tru-seq adapters and size-selected using SPRIselect beads
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Reads were trimmed to 50 bp and mapped using bowtie2
Picard Tools was used to remove blacklisted regions and duplicate reads
MACS2 was used to call peaks on merged replicates
Assembly: hg38
Supplementary files format and content: Peaks from merged replicates in narrowPeak format
Supplementary files format and content: Signal tracks in bigwig format
|
| |
|
| Submission date |
Apr 27, 2022 |
| Last update date |
Apr 30, 2022 |
| Contact name |
Kirsty Jamieson |
| E-mail(s) |
kirstyjamieson@gmail.com
|
| Organization name |
University of California
|
| Street address |
400 Parnassus Ave
|
| City |
San Francisco |
| ZIP/Postal code |
94143 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE201679 |
Dissecting genetic components associated with eye disease using integrative genomic analysis [ChIP-seq] |
| GSE201681 |
Dissecting genetic components associated with eye disease using integrative genomic analysis |
|
| Relations |
| BioSample |
SAMN27914665 |
| SRA |
SRX15014541 |
