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In Silico Prediction and Validation of Gfap as an miR-3099 Target in Mouse Brain

Overview of attention for article published in Neuroscience Bulletin, June 2017
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Title
In Silico Prediction and Validation of Gfap as an miR-3099 Target in Mouse Brain
Published in
Neuroscience Bulletin, June 2017
DOI 10.1007/s12264-017-0143-0
Pubmed ID
Authors

Shahidee Zainal Abidin, Jia-Wen Leong, Marzieh Mahmoudi, Norshariza Nordin, Syahril Abdullah, Pike-See Cheah, King-Hwa Ling

Abstract

MicroRNAs are small non-coding RNAs that play crucial roles in the regulation of gene expression and protein synthesis during brain development. MiR-3099 is highly expressed throughout embryogenesis, especially in the developing central nervous system. Moreover, miR-3099 is also expressed at a higher level in differentiating neurons in vitro, suggesting that it is a potential regulator during neuronal cell development. This study aimed to predict the target genes of miR-3099 via in-silico analysis using four independent prediction algorithms (miRDB, miRanda, TargetScan, and DIANA-micro-T-CDS) with emphasis on target genes related to brain development and function. Based on the analysis, a total of 3,174 miR-3099 target genes were predicted. Those predicted by at least three algorithms (324 genes) were subjected to DAVID bioinformatics analysis to understand their overall functional themes and representation. The analysis revealed that nearly 70% of the target genes were expressed in the nervous system and a significant proportion were associated with transcriptional regulation and protein ubiquitination mechanisms. Comparison of in situ hybridization (ISH) expression patterns of miR-3099 in both published and in-house-generated ISH sections with the ISH sections of target genes from the Allen Brain Atlas identified 7 target genes (Dnmt3a, Gabpa, Gfap, Itga4, Lxn, Smad7, and Tbx18) having expression patterns complementary to miR-3099 in the developing and adult mouse brain samples. Of these, we validated Gfap as a direct downstream target of miR-3099 using the luciferase reporter gene system. In conclusion, we report the successful prediction and validation of Gfap as an miR-3099 target gene using a combination of bioinformatics resources with enrichment of annotations based on functional ontologies and a spatio-temporal expression dataset.

Mendeley readers

The data shown below were compiled from readership statistics for 14 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 14 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 29%
Student > Master 3 21%
Researcher 3 21%
Professor > Associate Professor 2 14%
Student > Postgraduate 1 7%
Other 1 7%
Readers by discipline Count As %
Unspecified 4 29%
Biochemistry, Genetics and Molecular Biology 3 21%
Medicine and Dentistry 2 14%
Neuroscience 2 14%
Agricultural and Biological Sciences 1 7%
Other 2 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 08 June 2017.
All research outputs
#10,055,510
of 11,337,824 outputs
Outputs from Neuroscience Bulletin
#213
of 285 outputs
Outputs of similar age
#222,917
of 267,383 outputs
Outputs of similar age from Neuroscience Bulletin
#15
of 17 outputs
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So far Altmetric has tracked 285 research outputs from this source. They receive a mean Attention Score of 3.2. This one is in the 1st percentile – i.e., 1% of its peers scored the same or lower than it.
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We're also able to compare this research output to 17 others from the same source and published within six weeks on either side of this one. This one is in the 1st percentile – i.e., 1% of its contemporaries scored the same or lower than it.