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Sample GSM862698 Query DataSets for GSM862698
Status Public on Jun 22, 2012
Title Heart_Nkx2-5_ChIP-seq
Sample type SRA
 
Source name WT_Nkx2-5_ChIP
Organism Mus musculus
Characteristics strain background: FVB/N
genotype/variation: wildtype
Stage: adult
tissue: heart
chip antibody: Nkx2-5 (N-19)
chip antibody vendor: Santa Cruz Biotechnology
chip antibody cat#: sc-8697
chip antibody lot#: A1109, J2010
Extracted molecule genomic DNA
Extraction protocol Material was used for library preparation with standard NEBNext library kit protocol for Illumina sequencing (New England BioLabs, #E6000S/L, #E6040S/L).
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer IIx
 
Description Sample 4
Data processing Sequencing results were run through the standard Illumina GAPipeline (v1.0 for GAI runs and v1.3 for GAII runs) to convert images to reads of 36bp in length (unaligned sequences produced by the Illumina Genome Analyzer) and edit for quality (FIRECREST, Bustard and GERALD). Reads were then processed and aligned to the mouse reference genome (NCBI Build 37, mm9) as previously described, allowing a maximum of two mismatches and retaining only sequences with unique alignments
Genome Build:
Heart_Nkx2-5_ChIP-seq.WIG: mm9
Heart_Nkx2-5_ChIP-seq_bed.txt: mm9
 
Submission date Jan 17, 2012
Last update date May 15, 2019
Contact name Vincent M. Christoffels
E-mail(s) v.m.christoffels@amsterdamumc.nl
Phone 0205667821
Organization name Amsterdam UMC
Department Medical Biology
Lab Vincent Christoffels
Street address Meibergdreef 15 K2-159
City Amsterdam
State/province N/A (NA)
ZIP/Postal code 1105 AZ
Country Netherlands
 
Platform ID GPL11002
Series (1)
GSE35151 Genome-wide occupancy profile of Tbx3, Gata4, Nkx2-5 and p300 in adult mouse whole heart
Relations
SRA SRX116273
BioSample SAMN00773674

Supplementary file Size Download File type/resource
GSM862698_Heart_Nkx2-5_ChIP-seq.WIG.gz 101.9 Mb (ftp)(http) WIG
GSM862698_Heart_Nkx2-5_ChIP-seq_bed.txt.gz 56.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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