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| Status |
Public on Feb 11, 2022 |
| Title |
WTC NCdCas9 TBX18/g6 |
| Sample type |
SRA |
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| Source name |
hiPSC WTC #11
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| Organism |
Homo sapiens |
| Characteristics |
cell type: WTC NCdCas9
transfection: TBX18 g6 RNA
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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 |
ChIP-seq reads were trimmed and aligned to hg19 using bowtie2, and bigWig coverage files were generated using UCSC tools.
Genome_build: hg19
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| Submission date |
Jan 29, 2022 |
| Last update date |
Feb 13, 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 |
SAMN25407991 |
| SRA |
SRX13980479 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5848543_omniATAC_TBX18.bw |
128.5 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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