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Series GSE119349 Query DataSets for GSE119349
Status Public on Sep 04, 2018
Title Small RNA-Seq reveals novel miRNAs shaping the transcriptomic identity of rat brain structures
Organism Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary In the central nervous system (CNS), the microRNAs (miRNAs), small endogenous RNAs exerting a negative post-transcriptional regulation on mRNAs, are involved in major functions, such as neurogenesis, and synaptic plasticity. Moreover, they are essential to define the specific transcriptome of the tissues and cell types. However, few studies were performed to determine the miRNome of the different structures of the rat CNS, even through rat is a major model in neuroscience. We determined the miRNome profile of the hippocampus, the cortex, the striatum, the spinal cord and the olfactory bulb, by small RNA-Seq. We found a total of 365 known miRNAs' and 90 novel miRNAs expressed in the CNS of the rat. Novel miRNAs seemed to be important in defining structure-specific miRNomes. Differential analysis showed that several miRNAs were specifically enriched/depleted in these CNS structures. Then, we correlated miRNAs' expression with the expression of their mRNA targets by mRNA-Seq. This analysis suggests that the transcriptomic identity of each structure is regulated by specific miRNAs. Altogether, these results suggest the critical role played by these enriched/depleted miRNAs in the functional identities of CNS structures.
Overall design miRNA and mRNA profile of 5 structures of the central nervous system of rat, for each structurewe analyzed three biological replicates
Contributor(s) Soula A, Valere M, Lopez-Gonzalez M, Ury-Thiery V, Groppi A, Landry M, Nikolski M, Favereaux A
Citation(s) 30456375
Submission date Aug 31, 2018
Last update date Dec 13, 2018
Contact name Alexandre FAVEREAUX
Phone +33533514763
Organization name CNRS UMR 5297
Street address 146 rue leo saignat
City Bordeaux
ZIP/Postal code 33000
Country France
Platforms (1)
GPL18694 Illumina HiSeq 2500 (Rattus norvegicus)
Samples (15)
GSM3371617 Olfactory bulb 1
GSM3371618 Olfactory bulb 2
GSM3371619 Olfactory bulb 3
BioProject PRJNA488824
SRA SRP159284

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Supplementary file Size Download File type/resource
GSE119349_RAW.tar 2.2 Mb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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