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| Status |
Public on Feb 15, 2022 |
| Title |
Elf CNTL EB-Flag+Dox |
| Sample type |
SRA |
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| Source name |
Elf1
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| Organism |
Homo sapiens |
| Characteristics |
cell type: hESC Elf1
treatment: Dox for 3 days
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Protocol used for ATAC-seq is described in Corces et al., 2017. Briefly frozen cell pellets were thawed and permeabilized on ice. Tagmentation occurred in the same tube followed by quenching and phenol:chloroform:isoamyl alcohol DNA purification and PCR. Exact temperatures, times, buffer composition were identical to Corces et al., 2017.
PMID: 28846090
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| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
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| Data processing |
Reads were trimmed and aligned to hg19 using bowtie2, and bigWig coverage files were generated using UCSC tools.
Genome_build: hg19
Supplementary_files_format_and_content: bigwig
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| Submission date |
Feb 13, 2022 |
| Last update date |
Feb 16, 2022 |
| Contact name |
Hannele Ruohola-Baker |
| E-mail(s) |
hannele@u.washington.edu
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| Organization name |
Institute for Stem Cell and Regenerative Medicine
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| Street address |
850 Republican Street
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
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| Platform ID |
GPL16791 |
| Series (2) |
| GSE195555 |
dCas9 Fusion to Computer Designed PRC2 Inhibitor Reveals Functional TATA Box in Distal Promoter Region |
| GSE195699 |
dCas9 Fusion to Computer Designed PRC2 Inhibitor Reveals Functional TATA Box in Distal Promoter Region [ATAC-seq] |
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| Relations |
| BioSample |
SAMN25894903 |
| SRA |
SRX14165869 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5897799_CV303.bw |
159.8 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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