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PIWI-interacting RNAs in human diseases: databases and computational models
Zhang, Tianjiao1; Chen, Liang2; Li, Rongzhen1; Ning, Liu1; Huang, Xiaobing1; Wong, Garry1
Source PublicationBriefings in Bioinformatics

PIWI-interacting RNAs (piRNAs) are short 21–35 nucleotide molecules that comprise the largest class of non-coding RNAs and found
in a large diversity of species including yeast, worms, f lies, plants and mammals including humans. The most well-understood
function of piRNAs is to monitor and protect the genome from transposons particularly in germline cells. Recent data suggest that
piRNAs may have additional functions in somatic cells although they are expressed there in far lower abundance. Compared with
microRNAs (miRNAs), piRNAs have more limited bioinformatics resources available. This review collates 39 piRNA specific and non-
specific databases and bioinformatics resources, describes and compares their utility and attributes and provides an overview of
their place in the field. In addition, we review 33 computational models based upon function: piRNA prediction, transposon element
and mRNA-related piRNA prediction, cluster prediction, signature detection, target prediction and disease association. Based on the
collection of databases and computational models, we identify trends and potential gaps in tool development. We further analyze
the breadth and depth of piRNA data available in public sources, their contribution to specific human diseases, particularly in cancer
and neurodegenerative conditions, and highlight a few specific piRNAs that appear to be associated with these diseases. This briefing
presents the most recent and comprehensive mapping of piRNA bioinformatics resources including databases, models and tools for
disease associations to date. Such a mapping should facilitate and stimulate further research on piRNAs.

Indexed BySCIE
Funding ProjectRole of piRNAs in Alzheimer’s and Parkinson’s Disease
Document TypeJournal article
CollectionUniversity of Macau
Corresponding AuthorWong, Garry
Affiliation1.University of Macau
2.Shantou University
First Author AffilicationUniversity of Macau
Corresponding Author AffilicationUniversity of Macau
Recommended Citation
GB/T 7714
Zhang, Tianjiao,Chen, Liang,Li, Rongzhen,et al. PIWI-interacting RNAs in human diseases: databases and computational models[J]. Briefings in Bioinformatics,2022,23(4):1-22.
APA Zhang, Tianjiao,Chen, Liang,Li, Rongzhen,Ning, Liu,Huang, Xiaobing,&Wong, Garry.(2022).PIWI-interacting RNAs in human diseases: databases and computational models.Briefings in Bioinformatics,23(4),1-22.
MLA Zhang, Tianjiao,et al."PIWI-interacting RNAs in human diseases: databases and computational models".Briefings in Bioinformatics 23.4(2022):1-22.
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