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Status |
Public on Jun 22, 2012 |
Title |
Heart_Nkx2-5_ChIP-seq |
Sample type |
SRA |
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Source name |
WT_Nkx2-5_ChIP
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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
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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).
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Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina Genome Analyzer IIx |
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Description |
Sample 4
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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
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Submission date |
Jan 17, 2012 |
Last update date |
May 15, 2019 |
Contact name |
Vincent M. Christoffels |
E-mail(s) |
v.m.christoffels@amsterdamumc.nl
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Phone |
0205667821
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Organization name |
Amsterdam UMC
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Department |
Medical Biology
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Lab |
Vincent Christoffels
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Street address |
Meibergdreef 15 K2-159
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City |
Amsterdam |
State/province |
N/A (NA) |
ZIP/Postal code |
1105 AZ |
Country |
Netherlands |
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Platform ID |
GPL11002 |
Series (1) |
GSE35151 |
Genome-wide occupancy profile of Tbx3, Gata4, Nkx2-5 and p300 in adult mouse whole heart |
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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 Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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