AnnoLnc: A One-Stop Portal to Systematically Annotate Novel Human Long Noncoding RNAs

De-Chang Yang; Lan Ke; Yang Ding; Ge Gao

doi:10.1007/978-1-0716-1158-6_8

AnnoLnc: A One-Stop Portal to Systematically Annotate Novel Human Long Noncoding RNAs

Methods Mol Biol. 2021:2254:111-131. doi: 10.1007/978-1-0716-1158-6_8.

Authors

De-Chang Yang^#^{1

2}, Lan Ke^#^{1

2}, Yang Ding^{1

2}, Ge Gao^{3

4}

Affiliations

¹ Biomedical Pioneering Innovation Center (BIOPIC), Beijing Advanced Innovation Center for Genomics (ICG), Center for Bioinformatics (CBI), Peking University, Beijing, China.
² State Key Laboratory of Protein and Plant Gene Research at School of Life Sciences, Peking University, Beijing, China.
³ Biomedical Pioneering Innovation Center (BIOPIC), Beijing Advanced Innovation Center for Genomics (ICG), Center for Bioinformatics (CBI), Peking University, Beijing, China. gaog@mail.cbi.pku.edu.cn.
⁴ State Key Laboratory of Protein and Plant Gene Research at School of Life Sciences, Peking University, Beijing, China. gaog@mail.cbi.pku.edu.cn.

^# Contributed equally.

PMID: 33326073
DOI: 10.1007/978-1-0716-1158-6_8

Abstract

While more than a hundred thousand long noncoding RNAs (lncRNAs) have been identified in human genome, their biological functions and regulation are largely elusive. Here we present AnnoLnc, a one-stop online annotation portal for human lncRNAs ( http://annolnc1.gao-lab.org/ ). As the first (and the most comprehensive) Web server to provide on-the-fly annotation for novel human lncRNAs, AnnoLnc exploits more than 700 data sources to annotate inputted lncRNA systematically, spanning genomic location, secondary structure, expression patterns, coexpression-based functional annotation, transcriptional regulation, miRNA interaction, protein interaction, genetic association, and evolution. Moreover, in addition to a user-friendly Web interface, AnnoLnc can also be integrated into existing pipelines by either a set of JSON-based web service APIs or a stand-alone version for Linux server.

Keywords: Annotation; Long noncoding RNAs; Web server.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Databases, Nucleic Acid
Gene Expression Profiling
Gene Expression Regulation
Humans
Internet
Molecular Sequence Annotation / methods*
RNA, Long Noncoding / genetics*
Software
User-Computer Interface

Substances

RNA, Long Noncoding