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Sample GSM2534038

Query DataSets for GSM2534038

Status

Public on Mar 12, 2017

Title

ChIP-seq from neural progenitor cell (ENCLB953HPX)

Sample type

SRA

Source name

Homo sapiens neural progenitor in vitro differentiated cells female embryo (5 days) derived from H9

Organism

Homo sapiens

Characteristics

antibody: H3K27ac
cell_type: neural progenitor cell
biomaterial_type: in vitro differentiated cells
description: Frozen or fixed, in vitro specified neural progenitor cells from ES WA09 (H9) by the SESCC for use by the ENCODE consortia
biosample encode accession: ENCBS018TPT (SAMN04284242)
age: 5 day
donor_id: ENCDO222AAA
dev stage: embryonic
Sex: female
health state: healthy
lab: Richard Myers, HAIB
link: ENCBS018TPT at ENCODE; https://www.encodeproject.org/ENCBS018TPT/
link: Derived from ENCODE donor ENCDO222AAA; https://www.encodeproject.org/ENCDO222AAA/
link: differentiation protocol; https://www.encodeproject.org/documents/c7707280-f681-4c88-9b16-9271082c8b32/@@download/attachment/SESCC_ENCODE_differentiation_SOPs_May30_2014.pdf

Extracted molecule

genomic DNA

Extraction protocol

general protocol: https://www.encodeproject.org/documents/be2a0f12-af38-430c-8f2d-57953baab5f5/@@download/attachment/Epigenomics_Alternative_Mag_Bead_ChIP_Protocol_v1.1_exp.pdf

Library strategy

ChIP-Seq

Library source

genomic

Library selection

ChIP

Instrument model

Illumina HiSeq 2500

Description

https://www.encodeproject.org/experiments/ENCSR449AXO/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR449AXO
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR603SVD
encode release date: 2016-06-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB953HPX
size range: 200-600
nucleic acid starting quantity: 88.88
nucleic acid starting quantity units: ng

Data processing

See GSM*_README.txt supplementary file linked below

Submission date

Mar 12, 2017

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

GPL16791

Series (1)

GSE96178

ChIP-seq from neural progenitor cell (ENCSR449AXO)

Relations

BioSample

SAMN04284242

SRA

SRX2635932

Supplementary file	Size	Download	File type/resource
GSM2534038_ENCFF037CWU_peaks_GRCh38.bed.gz	1.3 Mb	(ftp)(http)	BED
GSM2534038_ENCFF101CZL_peaks_GRCh38.bigBed	3.1 Mb	(ftp)(http)	BIGBED
GSM2534038_ENCFF151CNW_signal_p-value_hg19.bigWig	1.6 Gb	(ftp)(http)	BIGWIG
GSM2534038_ENCFF202ZHO_fold_change_over_control_GRCh38.bigWig	1.5 Gb	(ftp)(http)	BIGWIG
GSM2534038_ENCFF311CAL_peaks_hg19.bed.gz	1.3 Mb	(ftp)(http)	BED
GSM2534038_ENCFF370SQP_peaks_hg19.bigBed	3.0 Mb	(ftp)(http)	BIGBED
GSM2534038_ENCFF813BDL_fold_change_over_control_hg19.bigWig	1.5 Gb	(ftp)(http)	BIGWIG
GSM2534038_ENCFF844FSG_signal_p-value_GRCh38.bigWig	1.5 Gb	(ftp)(http)	BIGWIG
GSM2534038_ENCLB953HPX_README.txt.gz	1.7 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