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Sample GSM2423002 Query DataSets for GSM2423002
Status Public on Jan 03, 2017
Title eCLIP from HepG2 (ENCLB238HOU)
Sample type SRA
 
Source name Homo sapiens HepG2 immortalized cell line
Organism Homo sapiens
Characteristics antibody: PPIG
line: HepG2
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS362ASG (SAMN06121857)
dev stage: child
age: 15 year
Sex: male
passage number: 5
lab: Gene Yeo, UCSD
health state: hepatocellular carcinoma
link: ENCBS362ASG at ENCODE; https://www.encodeproject.org/ENCBS362ASG/
link: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/
link: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027
link: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx
Extracted molecule total RNA
Extraction protocol pipeline protocol: https://www.encodeproject.org/documents/dde0b669-0909-4f8b-946d-3cb9f35a6c52/@@download/attachment/eCLIP_analysisSOP_v1.P.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/fa2a3246-6039-46ba-b960-17fe06e7876a/@@download/attachment/CLIP_SOP_v1.0.pdf
 
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina HiSeq 4000
 
Description https://www.encodeproject.org/experiments/ENCSR097NEE/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against PPIG
experiment encode accession: ENCSR097NEE
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR445LJH
encode release date: 2016-04-26
lab: Gene Yeo, UCSD
library encode accession: ENCLB238HOU
size range: 175-300
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Dec 11, 2016
Last update date May 15, 2019
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 GPL20301
Series (1)
GSE91478 eCLIP from HepG2 (ENCSR097NEE)
Relations
BioSample SAMN06121857
SRA SRX2423480
Named Annotation GSM2423002_ENCFF933GYG_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2423002_ENCFF112OJJ_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2423002_ENCFF065ZXM_peaks_GRCh38.bed.gz

Supplementary file Size Download File type/resource
GSM2423002_ENCFF065ZXM_peaks_GRCh38.bed.gz 2.4 Mb (ftp)(http) BED
GSM2423002_ENCFF112OJJ_plus_strand_signal_of_unique_reads_GRCh38.bigWig 23.8 Mb (ftp)(http) BIGWIG
GSM2423002_ENCFF236RNG_peaks_GRCh38.bigBed 4.6 Mb (ftp)(http) BIGBED
GSM2423002_ENCFF253RQY_minus_strand_signal_of_unique_reads_hg19.bigWig 23.5 Mb (ftp)(http) BIGWIG
GSM2423002_ENCFF406VBM_peaks_hg19.bigBed 4.6 Mb (ftp)(http) BIGBED
GSM2423002_ENCFF597JSM_peaks_hg19.bed.gz 2.3 Mb (ftp)(http) BED
GSM2423002_ENCFF892PSC_plus_strand_signal_of_unique_reads_hg19.bigWig 24.2 Mb (ftp)(http) BIGWIG
GSM2423002_ENCFF933GYG_minus_strand_signal_of_unique_reads_GRCh38.bigWig 23.1 Mb (ftp)(http) BIGWIG
GSM2423002_ENCLB238HOU_README.txt.gz 874 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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