NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2423642 Query DataSets for GSM2423642
Status Public on Jan 04, 2017
Title eCLIP from HepG2 (ENCLB683HLU)
Sample type SRA
 
Source name Homo sapiens HepG2 immortalized cell line
Organism Homo sapiens
Characteristics antibody: AGGF1
line: HepG2
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS881CIF (SAMN06122477)
dev stage: child
age: 15 year
Sex: male
passage number: 4
lab: Gene Yeo, UCSD
health state: hepatocellular carcinoma
link: ENCBS881CIF at ENCODE; https://www.encodeproject.org/ENCBS881CIF/
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/ENCSR543TPH/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against AGGF1
experiment encode accession: ENCSR543TPH
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR182AEG
encode release date: 2016-04-26
lab: Gene Yeo, UCSD
library encode accession: ENCLB683HLU
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)
GSE91856 eCLIP from HepG2 (ENCSR543TPH)
Relations
BioSample SAMN06122477
SRA SRX2424105
Named Annotation GSM2423642_ENCFF657LSN_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2423642_ENCFF936QKU_peaks_GRCh38.bed.gz
Named Annotation GSM2423642_ENCFF082GTJ_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2423642_ENCFF031POH_peaks_GRCh38.bigBed 3.7 Mb (ftp)(http) BIGBED
GSM2423642_ENCFF082GTJ_minus_strand_signal_of_unique_reads_GRCh38.bigWig 22.4 Mb (ftp)(http) BIGWIG
GSM2423642_ENCFF273EAT_peaks_hg19.bigBed 3.8 Mb (ftp)(http) BIGBED
GSM2423642_ENCFF283MCJ_peaks_hg19.bed.gz 1.9 Mb (ftp)(http) BED
GSM2423642_ENCFF657LSN_plus_strand_signal_of_unique_reads_GRCh38.bigWig 22.9 Mb (ftp)(http) BIGWIG
GSM2423642_ENCFF738HMR_minus_strand_signal_of_unique_reads_hg19.bigWig 23.6 Mb (ftp)(http) BIGWIG
GSM2423642_ENCFF936QKU_peaks_GRCh38.bed.gz 1.8 Mb (ftp)(http) BED
GSM2423642_ENCFF995SUK_plus_strand_signal_of_unique_reads_hg19.bigWig 24.1 Mb (ftp)(http) BIGWIG
GSM2423642_ENCLB683HLU_README.txt.gz 882 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap