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GEO accession:
Sample GSM2423482
Query DataSets for GSM2423482
Status
Public on Jan 04, 2017
Title
eCLIP from HepG2 (ENCLB234DPJ)
Sample type
SRA
Source name
Homo sapiens HepG2 immortalized cell line
Organism
Homo sapiens
Characteristics
antibody: Control
line: HepG2
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS074YUC (SAMN06121534)
dev stage: child
Sex: male
age: 15 year
health state: hepatocellular carcinoma
passage number: 4
lab: Gene Yeo, UCSD
link: ENCBS074YUC at ENCODE;
https://www.encodeproject.org/ENCBS074YUC/
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
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/ENCSR438NCK/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on HepG2 against PTBP1
experiment encode accession: ENCSR438NCK
assay title: eCLIP
assembly: GRCh38, hg19
encode release date: 2016-09-21
lab: Gene Yeo, UCSD
library encode accession: ENCLB234DPJ
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)
GSE91761
eCLIP from HepG2 (ENCSR438NCK)
Relations
BioSample
SAMN06121534
SRA
SRX2423930
Named Annotation
GSM2423482_ENCFF476HFB_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation
GSM2423482_ENCFF556EQK_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Supplementary file
Size
Download
File type/resource
GSM2423482_ENCFF136NZL_minus_strand_signal_of_unique_reads_hg19.bigWig
21.5 Mb
(ftp)
(http)
BIGWIG
GSM2423482_ENCFF302OCV_plus_strand_signal_of_unique_reads_hg19.bigWig
21.8 Mb
(ftp)
(http)
BIGWIG
GSM2423482_ENCFF476HFB_minus_strand_signal_of_unique_reads_GRCh38.bigWig
22.0 Mb
(ftp)
(http)
BIGWIG
GSM2423482_ENCFF556EQK_plus_strand_signal_of_unique_reads_GRCh38.bigWig
22.3 Mb
(ftp)
(http)
BIGWIG
GSM2423482_ENCLB234DPJ_README.txt.gz
561 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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