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Sample GSM2800764 Query DataSets for GSM2800764
Status Public on Feb 14, 2018
Title PITX1_ChIPseq_Rep2
Sample type SRA
 
Source name embryonic hindlimb tissue
Organism Anolis carolinensis
Characteristics developmental stage: stage 6-7
antibody: Pitx1(Santa Cruz, sc-18922X, Lot G0105)
tissue: hindlimb
Growth protocol Hindlimbs were collected from stage 6-7 Anolis carolinensis embryos.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated hindlimb tissues and PITX1-DNA complexes were isolated with antibody.
Libraries were prepared according to instructions accompanying the NEBNext Ultra DNA Library Prep Kit (NEB #E6240S/L). Libraries were sequenced on the HiSeq platform.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Data processing Sequencing read quality was evaluated using FastQC (version 0.5.1)
ChIP-seq reads were aligned to the Anolis carolinensis genome (anoCar2) using bowtie (version 0.12.8)
Peaks were identified using MACS2 with default parameters except for the effective genome size set for lizard (anoCar2)
Genome_build: anoCar2
Supplementary_files_format_and_content: Bigwig files were converted from bedGraph files generated by MACS2
 
Submission date Sep 29, 2017
Last update date May 15, 2019
Contact name Marc Wein
E-mail(s) mnwein@mgh.harvard.edu
Organization name Massachusetts General Hospital
Street address 55 Fruit Street
City Boston
State/province MA
ZIP/Postal code 02114
Country USA
 
Platform ID GPL15001
Series (2)
GSE104457 PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets [ChIP-Seq]
GSE104460 PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets
Relations
BioSample SAMN07722629
SRA SRX3234605

Supplementary file Size Download File type/resource
GSM2800764_Anolis_HL_PITX1_Rep2_norm_FE.bw 740.1 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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