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Sample GSM5667862 Query DataSets for GSM5667862
Status Public on Nov 04, 2021
Title ChIA-PET from activated B cell (ENCLB638WKR)
Sample type SRA
 
Source name Homo sapiens male adult (22 years) activated B primary cell treated with 0.5 uM CpG ODN for 24 hours
Organism Homo sapiens
Characteristics antibody: POLR2A
cell_type: activated B cell
biomaterial_type: primary cell
biosample encode accession: ENCBS773GSB (SAMN22819006)
Sex: male
dev stage: adult
age: 22 year
donor_id: ENCDO383AQS
lab: Yijun Ruan, JAX
source: AllCells
treatments: treatment_term_name: CpG ODN; treatment_type: chemical; duration: 24; duration_units: hour;
link: ENCBS773GSB at ENCODE; https://www.encodeproject.org/ENCBS773GSB/
link: Derived from ENCODE donor ENCDO383AQS; https://www.encodeproject.org/ENCDO383AQS/
Extracted molecule genomic DNA
Extraction protocol general protocol: https://www.encodeproject.org/documents/f7779792-9403-4396-9ff6-8e859edd608c/@@download/attachment/In-situ%20chiapet_Ruan%20Lab_final.pdf
 
Library strategy ChIA-PET
Library source genomic
Library selection ChIP
Instrument model Illumina NovaSeq 6000
 
Description https://www.encodeproject.org/experiments/ENCSR096ZPB/
***************
biological replicate number: 1
technical replicate number: 1
description: RNAPII ChIA-PET in B_Cell_Activated
experiment encode accession: ENCSR096ZPB
assay title: ChIA-PET
assembly: GRCh38
encode release date: 2021-10-06
lab: Yijun Ruan, JAX
library encode accession: ENCLB638WKR
fragmentation methods: sonication (Branson Sonifier 250)
size range: 350-600
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Nov 03, 2021
Last update date Nov 10, 2021
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)
GSE187320 ChIA-PET from activated B cell (ENCSR096ZPB)
Relations
BioSample SAMN22819006
SRA SRX13007188
Named Annotation GSM5667862_ENCFF919LNC_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM5667862_ENCFF405WEO_chromatin_interactions_GRCh38.hic.gz 242.9 Mb (ftp)(http) HIC
GSM5667862_ENCFF429VZJ_signal_of_unique_reads_GRCh38.bed.gz 718.9 Mb (ftp)(http) BED
GSM5667862_ENCFF753NMZ_peaks_GRCh38.bigBed 10.4 Mb (ftp)(http) BIGBED
GSM5667862_ENCFF798RVS_long_range_chromatin_interactions_GRCh38.bedpe.gz 6.1 Mb (ftp)(http) BEDPE
GSM5667862_ENCFF913WLB_peaks_GRCh38.bed.gz 5.6 Mb (ftp)(http) BED
GSM5667862_ENCFF919LNC_signal_of_unique_reads_GRCh38.bigWig 659.6 Mb (ftp)(http) BIGWIG
GSM5667862_ENCFF930AFA_long_range_chromatin_interactions_GRCh38.bigInteract 9.9 Mb (ftp)(http) BIGINTERACT
GSM5667862_ENCLB638WKR_README.txt.gz 937 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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