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Series GSE66679 Query DataSets for GSE66679
Status Public on Jun 01, 2015
Title Laser capture microdissection/RNA-Seq analyses of Hoxa9,10,11/Hoxd9,10,11 mutant limb development
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We used a novel recombineering method to introduce frameshift mutations into the first exons of the flanking Hoxa9,10,11 and Hoxd9,10,11 genes. By interbreeding it was possibleto make mice homozygous mutant for all six genes. These mice showed an extreme shortening of the zeugopod, with only tiny cartilaginous remnants of the ulna and radius made.We used laser capture microdissection to isolate the cells of the developing mutant zeugopods. Mutant and wild type samples were compared by RNA-seq. The results define the many downstream functional pathways perturbed by the Hox mutations, including the upregulation of many genes known to inhibit chondrocyte and osteoblast differentiation, BMP signalin, and growth arrest and apoptosis. In addition we observed the downregulation of genes required for WNT signaling and chonrdocyte maturation.
Overall design RNA-seq comparison of Hoxa9,10,11/Hoxd9,10,11 mutant and wild type developing limbs in mouse.Also includes different compartments of wild type developing limb.
Contributor(s) Raines AM, Magella B, Adam M, Potter SS
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Submission date Mar 09, 2015
Last update date May 15, 2019
Contact name Steven Potter
Organization name Children's hospital Medical Center
Department Developmental Biology
Lab Potter
Street address 3333 Burnet Ave.
City Cincinnati
State/province OH
ZIP/Postal code 45229
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (12)
GSM1627844 Hoxa9,10,11/Hoxd9,10,11 mutant rep1
GSM1627845 Hoxa9,10,11/Hoxd9,10,11 mutant rep2
GSM1627846 Hoxa9,10,11/Hoxd9,10,11 mutant rep3
BioProject PRJNA277715
SRA SRP055993

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Supplementary file Size Download File type/resource
GSE66679_RNA-Seq_processed_data.txt.gz 2.4 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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