PCsRNAdb: a comprehensive resource of small noncoding RNAs across cancers

Small noncoding RNAs (sncRNAs) constitute a diverse class of endogenous transcripts, including miRNAs, piRNAs, tRNA-derived fragments (tDRs), rRNA-derived fragments (rRFs), and other small RNAs. They have been identified as pivotal regulatory elements in a wide array of biological processes and diseases. Among these, miRNA is the most extensively studied and confirmed as a key regulatory and diagnostic biomarker in tumorigenesis and development. However, the current understanding of sncRNAs other than miRNA remains limited, particularly in the field of oncology. To this end, we collected 190 datasets from GEO/SRA database, encompassing 11 114 samples across 19 cancer types, and built a user-friendly database, the Pan-Cancer Small Non-Coding RNA Database (PCsRNAdb, http://pcsrnadb.cloudna.cn/#/Home), which is developed to provide abundant resources of sncRNAs specifically designed to investigate the association between sncRNAs and cancers. PCsRNAdb comprehensively provides basic information such as the sequence, length, abundance, and target genes of sncRNAs, and further offers four advanced functionalities, including differential expression analysis, survival analysis, expression profiling analysis, and network regulatory analysis. We anticipate that such platform offers invaluable resources and effective analytical tools for researchers in related fields and is expected to facilitate cancer-related research in this domain.

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Publication Details

Journal
Nucleic Acids Research
Published
2025-10-08
DOI
https://doi.org/10.1093/nar/gkaf992
Citations
1
Primary Topic
Cancer-related molecular mechanisms research
Type
article
Field-Weighted Citation Impact
0.94
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article

PCsRNAdb: a comprehensive resource of small noncoding RNAs across cancers

Qi Cao, Zhanru Shao, Lixia Wang, Haochun Yang et al.
1 citations
Nucleic Acids Research
Cancer-related molecular mechanisms research
0.94
article

PCsRNAdb: a comprehensive resource of small noncoding RNAs across cancers

Qi Cao, Zhanru Shao, Lixia Wang, Haochun Yang, Xiangya Kong, Kui Wu, Feng Gao, Jianmin Wu, Qihai Gu, Li Jiang, Zhongxu Zhu, Tor Chiu, Rui Huang, Xinlei Zhang, Chuanlai Yang, Penghu Lian
article en
1 citations

Abstract

Small noncoding RNAs (sncRNAs) constitute a diverse class of endogenous transcripts, including miRNAs, piRNAs, tRNA-derived fragments (tDRs), rRNA-derived fragments (rRFs), and other small RNAs. They have been identified as pivotal regulatory elements in a wide array of biological processes and diseases. Among these, miRNA is the most extensively studied and confirmed as a key regulatory and diagnostic biomarker in tumorigenesis and development. However, the current understanding of sncRNAs other than miRNA remains limited, particularly in the field of oncology. To this end, we collected 190 datasets from GEO/SRA database, encompassing 11 114 samples across 19 cancer types, and built a user-friendly database, the Pan-Cancer Small Non-Coding RNA Database (PCsRNAdb, http://pcsrnadb.cloudna.cn/#/Home), which is developed to provide abundant resources of sncRNAs specifically designed to investigate the association between sncRNAs and cancers. PCsRNAdb comprehensively provides basic information such as the sequence, length, abundance, and target genes of sncRNAs, and further offers four advanced functionalities, including differential expression analysis, survival analysis, expression profiling analysis, and network regulatory analysis. We anticipate that such platform offers invaluable resources and effective analytical tools for researchers in related fields and is expected to facilitate cancer-related research in this domain.

Nucleic Acids ResearchVol. 54(D1)
Jinggangshan University (CN), Sun Yat-sen University (CN), Chinese Academy of Sciences (CN), Chinese Academy of Medical Sciences & Peking Union Medical College (CN), Wenzhou Medical University (CN), Peking Union Medical College Hospital (CN), Soochow University (CN), Sixth Affiliated Hospital of Sun Yat-sen University (CN), The Seventh Affiliated Hospital of Sun Yat-sen University (CN), Zhejiang Cancer Hospital (CN), Hangzhou Academy of Agricultural Sciences (CN), Second Affiliated Hospital of Soochow University (CN), Cloud Computing Center (CN), Hangzhou Cancer Hospital (CN)
Openalex Percentile: Top 20%
Cancer-related molecular mechanisms research
0.94
DOIOpen Access PDFOpenAlex
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