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Series GSE52988 Query DataSets for GSE52988
Status Public on Jun 19, 2014
Title Attenuated sensing of SHH underlies adaptive evolution of bovine limbs
Organism Mus musculus
Experiment type Other
Summary Artiodactyls display skeletal adaptations for cursorial (running) locomotion. In these animals, the distal limb skeleton is symmetric, which facilitates walking on the tips of the two central digits, while lateral digits are reduced or lost. We have identified that one primary molecular alteration during the formation of the bovine limb is that, in contrast to mouse, the posterior limb bud mesenchyme does not upregulate Ptch1 expression in response to SHH. We have tracked down this dissimilarity to a cis-regulatory SHH-responsive element that is functionally altered in bovine and established a causal link between lack of upregulation of Ptch1 and acquisition of a symmetric distal autopod.
 
Overall design A high resolution 4C-seq protocol involving two restriction digests was applied to viewpoint in Ptch1 promoter (mm9 chr13:63,667,995-63,669,157) in three different tissues, allowing robust detection of physical interactions between regulatory DNA elements.
 
Contributor(s) Lopez-Rios J, Ivanek R, Duchesne A, Zeller R
Citation(s) 24990743
Submission date Dec 04, 2013
Last update date Nov 17, 2021
Contact name DBM Bioinformatics Core Facility
Phone +41612073541
Organization name University of Basel
Department Departement of Biomedicine
Street address Hebelstrasse 20
City Basel
State/province BS
ZIP/Postal code 4053
Country Switzerland
 
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (3)
GSM1279840 telencephalon
GSM1279841 anterior_limb
GSM1279842 posterior_limb
Relations
BioProject PRJNA230633
SRA SRP033510

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52988_RAW.tar 170.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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