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Sample GSM2423619

Query DataSets for GSM2423619

Status

Public on Jan 04, 2017

Title

eCLIP from K562 (ENCLB131TWE)

Sample type

SRA

Source name

Homo sapiens K562 immortalized cell line

Organism

Homo sapiens

Characteristics

antibody: YBX3
line: K562
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS175JIH (SAMN06121657)
dev stage: adult
Sex: female
age: 53 year
health state: chronic myelogenous leukemia (CML)
passage number: 5
lab: Gene Yeo, UCSD
link: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/
link: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/
link: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004
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/ENCSR529FKI/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against CSDA
experiment encode accession: ENCSR529FKI
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR660VTT
encode release date: 2016-04-26
lab: Gene Yeo, UCSD
library encode accession: ENCLB131TWE
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)

GSE91844

eCLIP from K562 (ENCSR529FKI)

Relations

BioSample

SAMN06121657

SRA

SRX2424090

Named Annotation

GSM2423619_ENCFF829JJE_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2423619_ENCFF047ZXN_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2423619_ENCFF210TQC_peaks_GRCh38.bed.gz

Supplementary file	Size	Download	File type/resource
GSM2423619_ENCFF047ZXN_minus_strand_signal_of_unique_reads_GRCh38.bigWig	22.3 Mb	(ftp)(http)	BIGWIG
GSM2423619_ENCFF210TQC_peaks_GRCh38.bed.gz	2.7 Mb	(ftp)(http)	BED
GSM2423619_ENCFF526YVR_peaks_hg19.bed.gz	2.7 Mb	(ftp)(http)	BED
GSM2423619_ENCFF611POQ_plus_strand_signal_of_unique_reads_hg19.bigWig	23.6 Mb	(ftp)(http)	BIGWIG
GSM2423619_ENCFF715TOV_minus_strand_signal_of_unique_reads_hg19.bigWig	22.7 Mb	(ftp)(http)	BIGWIG
GSM2423619_ENCFF724COO_peaks_GRCh38.bigBed	6.1 Mb	(ftp)(http)	BIGBED
GSM2423619_ENCFF829JJE_plus_strand_signal_of_unique_reads_GRCh38.bigWig	23.0 Mb	(ftp)(http)	BIGWIG
GSM2423619_ENCFF914IQD_peaks_hg19.bigBed	6.1 Mb	(ftp)(http)	BIGBED
GSM2423619_ENCLB131TWE_README.txt.gz	884 b	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file