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GEO accession:
Sample GSM2190975
Query DataSets for GSM2190975
Status
Public on Jun 22, 2016
Title
ChIP-seq from limb (ENCLB522RGG)
Sample type
SRA
Source name
Mus musculus strain B6NCrl limb tissue mixed sex embryo (15.5 days)
Organism
Mus musculus
Characteristics
antibody: H3K9me3
tissue_type: limb
biomaterial_type: tissue
description: Limb from 78 embryonic 15.5 day mice
biosample encode accession: ENCBS735QNY (SAMN04284132)
age: 15.5 day
donor_id: ENCDO956IXV
dev stage: embryonic
Sex: pooled male and female
health state: healthy
lab: Len Pennacchio, LBNL
link: ENCBS735QNY at ENCODE;
https://www.encodeproject.org/ENCBS735QNY/
link: Derived from ENCODE donor ENCDO956IXV;
https://www.encodeproject.org/ENCDO956IXV/
link: excision protocol;
https://www.encodeproject.org/documents/631aa21c-8e48-467e-8cac-d40c875b3913/@@download/attachment/StandardTissueExcisionProtocol_02132017.pdf
Extracted molecule
genomic DNA
Extraction protocol
general protocol:
https://www.encodeproject.org/documents/89795b31-e65a-42ca-9d7b-d75196f6f4b3/@@download/attachment/Ren%20Lab%20ENCODE%20Chromatin%20Immunoprecipitation%20Protocol_V2.pdf
general protocol:
https://www.encodeproject.org/documents/4f73fbc3-956e-47ae-aa2d-41a7df552c81/@@download/attachment/Ren_ChIP_Library_Preparation_v060614.pdf
excision protocol:
https://www.encodeproject.org/documents/631aa21c-8e48-467e-8cac-d40c875b3913/@@download/attachment/StandardTissueExcisionProtocol_02132017.pdf
Library strategy
ChIP-Seq
Library source
genomic
Library selection
ChIP
Instrument model
Illumina HiSeq 2000
Description
https://www.encodeproject.org/experiments/ENCSR028ZHS/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K9me3 ChIP-seq on embryonic 15.5 day mouse limb
experiment encode accession: ENCSR028ZHS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR070OXL
encode release date: 2016-03-17
lab: Bing Ren, UCSD
library encode accession: ENCLB522RGG
size range: 300-500
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Jun 07, 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
GPL13112
Series (1)
GSE82366
ChIP-seq from limb (ENCSR028ZHS)
Relations
BioSample
SAMN04284132
SRA
SRX1832796
Named Annotation
GSM2190975_ENCFF737HSB_peaks_mm10.bed.gz
Named Annotation
GSM2190975_ENCFF473CWJ_signal_p-value_mm10.bigWig
Named Annotation
GSM2190975_ENCFF286IYG_fold_change_over_control_mm10.bigWig
Supplementary file
Size
Download
File type/resource
GSM2190975_ENCFF286IYG_fold_change_over_control_mm10.bigWig
773.5 Mb
(ftp)
(http)
BIGWIG
GSM2190975_ENCFF461NAK_peaks_mm10.bigBed
853.5 Kb
(ftp)
(http)
BIGBED
GSM2190975_ENCFF473CWJ_signal_p-value_mm10.bigWig
722.6 Mb
(ftp)
(http)
BIGWIG
GSM2190975_ENCFF737HSB_peaks_mm10.bed.gz
409.3 Kb
(ftp)
(http)
BED
GSM2190975_ENCLB522RGG_README.txt.gz
1.1 Kb
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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