PCsRNAdb: a comprehensive resource of small noncoding RNAs across cancers.

IF 13.1 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Nucleic Acids Research Pub Date : 2025-10-08 DOI:10.1093/nar/gkaf992

Rende Huang,Jiang Li,Qi Cao,Lixia Wang,Zhixiong Shao,Haochun Yang,Xinlei Zhang,Chuanlai Yang,Xiangya Kong,Qiuyue Gu,Jianmin Wu,Tsan-Yu Chiu,Penghu Lian,Kui Wu,Feng Gao,Zhongxu Zhu

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引用次数: 0

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.

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PCsRNAdb：癌症小非编码rna的综合资源。

小非编码rna （sncRNAs）构成了多种内源性转录物，包括miRNAs、piRNAs、trna衍生片段（tdr）、rrna衍生片段（rRFs）和其他小rna。它们已被确定为广泛的生物过程和疾病的关键调控元件。其中，miRNA作为肿瘤发生和发展的关键调控和诊断生物标志物被研究和证实的最为广泛。然而，目前对miRNA以外的sncrna的了解仍然有限，特别是在肿瘤学领域。为此，我们从GEO/SRA数据库中收集了190个数据集，涵盖19种癌症类型的11 114个样本，并建立了一个用户友好的数据库——泛癌症小非编码RNA数据库（PCsRNAdb, http://pcsrnadb.cloudna.cn/#/Home），该数据库旨在提供丰富的sncRNAs资源，专门用于研究sncRNAs与癌症之间的关联。PCsRNAdb全面提供sncRNAs的序列、长度、丰度、靶基因等基本信息，并提供差异表达分析、生存分析、表达谱分析、网络调控分析等四项高级功能。我们期待该平台为相关领域的研究人员提供宝贵的资源和有效的分析工具，并有望促进该领域的癌症相关研究。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Nucleic Acids Research 生物-生化与分子生物学

CiteScore

27.10

自引率

4.70%

发文量

1057

审稿时长

2 months

期刊介绍： Nucleic Acids Research (NAR) is a scientific journal that publishes research on various aspects of nucleic acids and proteins involved in nucleic acid metabolism and interactions. It covers areas such as chemistry and synthetic biology, computational biology, gene regulation, chromatin and epigenetics, genome integrity, repair and replication, genomics, molecular biology, nucleic acid enzymes, RNA, and structural biology. The journal also includes a Survey and Summary section for brief reviews. Additionally, each year, the first issue is dedicated to biological databases, and an issue in July focuses on web-based software resources for the biological community. Nucleic Acids Research is indexed by several services including Abstracts on Hygiene and Communicable Diseases, Animal Breeding Abstracts, Agricultural Engineering Abstracts, Agbiotech News and Information, BIOSIS Previews, CAB Abstracts, and EMBASE.