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GEO accession:
Sample GSM2423961
Query DataSets for GSM2423961
Status
Public on Jan 04, 2017
Title
eCLIP from HepG2 (ENCLB664POM)
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: 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/ENCSR777PDA/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on HepG2 against BUD13
experiment encode accession: ENCSR777PDA
assay title: eCLIP
assembly: GRCh38, hg19
encode release date: 2015-12-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB664POM
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)
GSE92049
eCLIP from HepG2 (ENCSR777PDA)
Relations
BioSample
SAMN06121857
SRA
SRX2424417
Named Annotation
GSM2423961_ENCFF705VUW_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation
GSM2423961_ENCFF599CTL_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Supplementary file
Size
Download
File type/resource
GSM2423961_ENCFF475DWO_minus_strand_signal_of_unique_reads_hg19.bigWig
43.3 Mb
(ftp)
(http)
BIGWIG
GSM2423961_ENCFF492HFL_plus_strand_signal_of_unique_reads_hg19.bigWig
44.4 Mb
(ftp)
(http)
BIGWIG
GSM2423961_ENCFF599CTL_minus_strand_signal_of_unique_reads_GRCh38.bigWig
44.1 Mb
(ftp)
(http)
BIGWIG
GSM2423961_ENCFF705VUW_plus_strand_signal_of_unique_reads_GRCh38.bigWig
45.2 Mb
(ftp)
(http)
BIGWIG
GSM2423961_ENCLB664POM_README.txt.gz
605 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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