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Series GSE131078 Query DataSets for GSE131078
Status Public on Jun 10, 2020
Title Transcriptomic analysis of bone and fibrous tissue morphogenesis during digit tip regeneration in the adult mouse
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: Investigate the transcriptomic landscape throughout the time course of murine digit regeneration after level-dependent amputation.
Methods: The terminal phalanx bone of hind limb digits was subjected to either a distal amputation (25% bone length loss) or proximal amputation (65% bone length loss). Total RNA was isolated from bone and fibrous tissues distal to the distal interphalangeal joint at 12, 14, and 21 days post-amputation (DPA). mRNA library was sequenced using Illumina HiSeq 3000. Trimmed reads were aligned to the mouse genome mm10 and batch-corrected.
Results: A limb-specific developmental signaling pathway is transiently upregulated at 14 DPA after distal amputation, corresponding with regeneration of digit tip tissues. Absence of a limb-specific pathway after proximal amputation corresponded with minimal regeneration and fibrotic scarring.
Conclusions: Digit regeneration is a level-dependent and spatiotemporally controlled process, with distal and proximal amputations showing significant differences in gene expression and tissue regrowth over time.
Overall design mRNA profiles of the murine digit tip at various time points after distal amputation or proximal amputation were generated using high throughput sequencing.
Contributor(s) Qu F, Palte IC, Gontarz PM, Zhang B, Guilak F
Citation(s) 32506623
Submission date May 13, 2019
Last update date Jun 10, 2020
Contact name Bo Zhang
Phone 3143624757
Organization name Washington University School of Medicine
Department Developmental Biology
Lab Zhang
Street address 4515 McKinley Research Bldg 03212
City Saint Louis
State/province Missouri
ZIP/Postal code 63110
Country USA
Platforms (1)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (24)
GSM3763054 R12_1
GSM3763055 R12_2
GSM3763056 R12_3
BioProject PRJNA542610
SRA SRP198228

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Supplementary file Size Download File type/resource
GSE131078_gene_counts.txt.gz 669.1 Kb (ftp)(http) TXT
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