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Series GSE104457 Query DataSets for GSE104457
Status Public on Feb 14, 2018
Title PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets [ChIP-Seq]
Organism Anolis carolinensis
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The PITX1 transcription factor is expressed during hindlimb development, where it plays a critical role in directing hindlimb growth and the specification of hindlimb morphology. While it is known that PITX1 regulates hindlimb formation, in part, through activation of the Tbx4 gene, other transcriptional targets remain to be elucidated. We have used a combination of ChIP-seq and RNA-seq to investigate enhancer regions and target genes that are directly regulated by PITX1 in embryonic mouse hindlimbs. In addition, we have analyzed PITX1 binding sites in hindlimbs of Anolis lizards to identify ancient PITX1 regulatory targets. We find that PITX1-bound regions in both mouse and Anolis hindlimbs are strongly associated with genes implicated in limb and skeletal system development. Gene expression analyses reveal a large number of misexpressed genes in the hindlimbs of Pitx1-/- embryos. By intersecting misexpressed genes with genes that have neighboring mouse PITX1 binding sites, we identified 440 candidate targets of PITX1. Of these candidates, 68 exhibit ultra-conserved PITX1 binding events that are shared between mouse and Anolis hindlimbs. Among the ancient targets of PITX1 are important regulators of cartilage and skeletal muscle development, including Sox9 and Six1. Our data suggest that PITX1 promotes chondrogenesis and myogenesis in the hindlimb by direct regulation of several key members of the cartilage and muscle transcriptional networks.
 
Overall design Examination of PITX1 binding sites in Anolis carolinensis hindlimbs
 
Contributor(s) Wang JS, Infante CR, Park S, Menke DB
Citation(s) 29273440
Submission date Sep 29, 2017
Last update date Jul 25, 2021
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
 
Platforms (1)
GPL15001 Illumina HiSeq 2000 (Anolis carolinensis)
Samples (3)
GSM2800763 PITX1_ChIPseq_Rep1
GSM2800764 PITX1_ChIPseq_Rep2
GSM2800765 Input_DNA
This SubSeries is part of SuperSeries:
GSE104460 PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets
Relations
BioProject PRJNA412663
SRA SRP119166

Download family Format
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE104457_RAW.tar 1.6 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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