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GEO accession:
Sample GSM7256331
Query DataSets for GSM7256331
Status
Public on Apr 30, 2023
Title
TF ChIP-seq from K562 (ENCLB423DLT)
Sample type
SRA
Source name
Homo sapiens K562 cell line genetically modified (insertion) using CRISPR targeting H. sapiens NR3C1
Organism
Homo sapiens
Characteristics
antibody: NR3C1
line: K562
biomaterial_type: cell line
biosample encode accession: ENCBS582DDR (SAMN34251750)
Sex: female
health state: chronic myelogenous leukemia (CML)
dev stage: adult
age: 53 year
donor_id: ENCDO000AAD
lab: Richard Myers, HAIB
source: Richard Myers
link: ENCBS582DDR at ENCODE;
https://www.encodeproject.org/ENCBS582DDR/
link: derived from ENCODE donor ENCDO000AAD;
https://www.encodeproject.org/ENCDO000AAD/
Extracted molecule
genomic DNA
Extraction protocol
pipeline protocol:
https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf
pipeline protocol:
https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf
extraction protocol:
https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf
pipeline protocol:
https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf,
pipeline protocol:
https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf,
extraction protocol:
https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf
Library strategy
ChIP-Seq
Library source
genomic
Library selection
ChIP
Instrument model
Illumina NovaSeq 6000
Description
https://www.encodeproject.org/experiments/ENCSR980ZWE/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-Seq on K562
experiment encode accession: ENCSR980ZWE
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR144DXT
encode release date: 2022-09-13
lab: Richard Myers, HAIB
library encode accession: ENCLB423DLT
fragmentation methods: sonication (generic)
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Apr 28, 2023
Last update date
Jul 07, 2023
Contact name
ENCODE DCC
E-mail(s)
encode-help@lists.stanford.edu
Organization name
ENCODE DCC
Street address
300 Pasteur Dr
City
Stanford
State/province
CA
ZIP/Postal code
94305-5120
Country
USA
Platform ID
GPL24676
Series (1)
GSE231294
TF ChIP-seq from K562 (ENCSR980ZWE)
Relations
BioSample
SAMN34251750
SRA
SRX20151084
Named Annotation
GSM7256331_ENCFF905PLL_fold_change_over_control_GRCh38.bigWig
Named Annotation
GSM7256331_ENCFF785YDU_signal_p-value_GRCh38.bigWig
Supplementary file
Size
Download
File type/resource
GSM7256331_ENCFF686HYB_IDR_ranked_peaks_GRCh38.bed.gz
3.2 Mb
(ftp)
(http)
BED
GSM7256331_ENCFF743VPX_IDR_thresholded_peaks_GRCh38.bed.gz
47.9 Kb
(ftp)
(http)
BED
GSM7256331_ENCFF785YDU_signal_p-value_GRCh38.bigWig
593.2 Mb
(ftp)
(http)
BIGWIG
GSM7256331_ENCFF904JYR_IDR_thresholded_peaks_GRCh38.bigBed
145.2 Kb
(ftp)
(http)
BIGBED
GSM7256331_ENCFF905PLL_fold_change_over_control_GRCh38.bigWig
419.1 Mb
(ftp)
(http)
BIGWIG
GSM7256331_ENCLB423DLT_README.txt.gz
1.2 Kb
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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