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Sample GSM2423532

Query DataSets for GSM2423532

Status

Public on Jan 04, 2017

Title

ChIP-seq from GM12878 (ENCLB675VMV)

Sample type

SRA

Source name

Homo sapiens GM12878 immortalized cell line

Organism

Homo sapiens

Characteristics

antibody: BMI1
line: GM12878
biomaterial_type: immortalized cell line
biosample encode accession: ENCBS607NAA (SAMN06122176)
dev stage: adult
age: unknown
Sex: female
lab: Michael Snyder, Stanford
health state: unknown
link: ENCBS607NAA at ENCODE; https://www.encodeproject.org/ENCBS607NAA/
link: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/
link: growth protocol; https://www.encodeproject.org/documents/124a58ec-dfe8-4023-8ea1-e130c084675d/@@download/attachment/Snyder_GM12878%20Cell%20Growth%20Protocol.pdf

Biomaterial provider

Coriell Cell Repositories https://catalog.coriell.org/0/Sections/Search/Sample_Detail.aspx?Ref=GM12878

Extracted molecule

genomic DNA

Extraction protocol

general protocol: https://www.encodeproject.org/documents/a6e8aca1-c1e5-4ad7-bceb-8ca2e661b909/@@download/attachment/ChIP-Seq%20Biorupter%20Pico%20BravoTruSeq%20protocol%20for%20Syapse.pdf

Library strategy

ChIP-Seq

Library source

genomic

Library selection

ChIP

Instrument model

Illumina HiSeq 4000

Description

https://www.encodeproject.org/experiments/ENCSR469WII/
***************
biological replicate number: 2
technical replicate number: 1
description: BMI1 ChIP-seq on human GM12878
experiment encode accession: ENCSR469WII
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR956WYO
encode release date: 2016-11-18
lab: Michael Snyder, Stanford
library encode accession: ENCLB675VMV
size range: 450-650

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)

GSE91792

ChIP-seq from GM12878 (ENCSR469WII)

Relations

BioSample

SAMN06122176

SRA

SRX2423991

Named Annotation

GSM2423532_ENCFF745VJD_peaks_GRCh38.bed.gz

Named Annotation

GSM2423532_ENCFF952BKH_signal_p-value_GRCh38.bigWig

Named Annotation

GSM2423532_ENCFF514HMG_fold_change_over_control_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM2423532_ENCFF085IIW_signal_p-value_hg19.bigWig	1.6 Gb	(ftp)(http)	BIGWIG
GSM2423532_ENCFF311HTV_peaks_hg19.bigBed	12.8 Mb	(ftp)(http)	BIGBED
GSM2423532_ENCFF514HMG_fold_change_over_control_GRCh38.bigWig	1.8 Gb	(ftp)(http)	BIGWIG
GSM2423532_ENCFF688WHP_peaks_GRCh38.bigBed	12.8 Mb	(ftp)(http)	BIGBED
GSM2423532_ENCFF745VJD_peaks_GRCh38.bed.gz	6.8 Mb	(ftp)(http)	BED
GSM2423532_ENCFF827JSS_peaks_hg19.bed.gz	6.8 Mb	(ftp)(http)	BED
GSM2423532_ENCFF952BKH_signal_p-value_GRCh38.bigWig	1.7 Gb	(ftp)(http)	BIGWIG
GSM2423532_ENCFF956CKZ_fold_change_over_control_hg19.bigWig	1.7 Gb	(ftp)(http)	BIGWIG
GSM2423532_ENCLB675VMV_README.txt.gz	1.9 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file