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Series GSE77045 Query DataSets for GSE77045
Status Public on Jan 20, 2019
Title Circulating extracellular RNA markers of liver regeneration
Organism Mus musculus
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Background and Aims: Although the liver can regenerate after sustaining injury, the tools to detect ongoing regeneration are lacking. The restoration of the liver after hepatectomy involves rapid, sequential, and coordinated changes in gene expression that result in systemic and local changes, such as the activation of progenitor cell populations and proliferation of quiescent hepatocytes. We postulated that changes in gene expression and regenerative programs could be activated within target cells through the transfer of extracellular RNA across cells or within the circulation, coordinating tissue response, and these extracellular RNA could represent biomarkers of the hepatic regenerative response.
Methods: We identified temporal changes in circulating extracellular RNA at selected time periods up to 24 hours after partial hepatectomy in mice. (CD-1 males)
Results: A peak increase in extracellular RNA content occurred 6 hours after hepatectomy. RNA sequencing was performed to identify the circulating extracellular non-coding RNA released after partial hepatectomy. To identify candidate markers, we used bioinformatics analyses to find the enriched RNA in the circulation after hepatectomy. We then performed tissue expression analysis for selected non-coding RNA and correlated it to these findings. Finally, a digital PCR assay was used to detect and quantify the expression of selected extracellular RNA in serum samples.
Conclusions: Extracellular RNA that were selectively enriched during acute regeneration were detected within the circulation and represent biomarkers of ongoing liver regeneration in mice. The ability to detect ongoing active regeneration would benefit the evaluation of hepatic recovery after liver injury.
Overall design Compare small RNA expression in time points after partial hepatectomy in CD-1 mice.
Contributor(s) Patel T, Yan I
Citation(s) 27415797
Submission date Jan 20, 2016
Last update date May 15, 2019
Contact name Tushar Patel
Organization name Mayo Clinic
Street address 4500 San Pablo S
City Jacksonville
State/province FL
ZIP/Postal code 32246
Country USA
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (3)
GSM2043043 IY_1b
GSM2043044 IY_3b
GSM2043045 IY_8b
BioProject PRJNA310881
SRA SRP069307

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

Supplementary file Size Download File type/resource
GSE77045_RAW.tar 30.0 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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