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Sample GSM2422924

Query DataSets for GSM2422924

Status

Public on Jan 03, 2017

Title

eCLIP from HepG2 (ENCLB334YPG)

Sample type

SRA

Source name

Homo sapiens HepG2 immortalized cell line

Organism

Homo sapiens

Characteristics

antibody: EIF3D
line: HepG2
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS621TAB (SAMN06122190)
dev stage: child
age: 15 year
Sex: male
passage number: 3
lab: Gene Yeo, UCSD
health state: hepatocellular carcinoma
link: ENCBS621TAB at ENCODE; https://www.encodeproject.org/ENCBS621TAB/
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/ENCSR041NUV/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against EIF3D
experiment encode accession: ENCSR041NUV
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR755PSW
encode release date: 2016-04-26
lab: Gene Yeo, UCSD
library encode accession: ENCLB334YPG
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

ZIP/Postal code

94305-5120

Country

USA

Platform ID

GPL20301

Series (1)

GSE91432

eCLIP from HepG2 (ENCSR041NUV)

Relations

BioSample

SAMN06122190

SRA

SRX2424785

Named Annotation

GSM2422924_ENCFF845XMT_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2422924_ENCFF048OWX_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2422924_ENCFF891XHE_peaks_GRCh38.bed.gz

Supplementary file	Size	Download	File type/resource
GSM2422924_ENCFF048OWX_minus_strand_signal_of_unique_reads_GRCh38.bigWig	38.8 Mb	(ftp)(http)	BIGWIG
GSM2422924_ENCFF104YAE_peaks_GRCh38.bigBed	7.0 Mb	(ftp)(http)	BIGBED
GSM2422924_ENCFF197CXZ_peaks_hg19.bigBed	7.1 Mb	(ftp)(http)	BIGBED
GSM2422924_ENCFF344JTJ_minus_strand_signal_of_unique_reads_hg19.bigWig	39.7 Mb	(ftp)(http)	BIGWIG
GSM2422924_ENCFF738CPK_peaks_hg19.bed.gz	3.8 Mb	(ftp)(http)	BED
GSM2422924_ENCFF845XMT_plus_strand_signal_of_unique_reads_GRCh38.bigWig	39.6 Mb	(ftp)(http)	BIGWIG
GSM2422924_ENCFF891XHE_peaks_GRCh38.bed.gz	3.7 Mb	(ftp)(http)	BED
GSM2422924_ENCFF991QIX_plus_strand_signal_of_unique_reads_hg19.bigWig	40.6 Mb	(ftp)(http)	BIGWIG
GSM2422924_ENCLB334YPG_README.txt.gz	886 b	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file