LnCompare: gene set feature analysis for human long non-coding RNAs.

Carlevaro-Fita, Joana; Liu, Leibo; Zhou, Yuan; Zhang, Shan; Chouvardas, Panagiotis; Johnson, Rory; Li, Jianwei (2019). LnCompare: gene set feature analysis for human long non-coding RNAs. Nucleic acids research, 47(W1), W523-W529. Oxford University Press 10.1093/nar/gkz410

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Interest in the biological roles of long noncoding RNAs (lncRNAs) has resulted in growing numbers of studies that produce large sets of candidate genes, for example, differentially expressed between two conditions. For sets of protein-coding genes, ontology and pathway analyses are powerful tools for generating new insights from statistical enrichment of gene features. Here we present the LnCompare web server, an equivalent resource for studying the properties of lncRNA gene sets. The Gene Set Feature Comparison mode tests for enrichment amongst a panel of quantitative and categorical features, spanning gene structure, evolutionary conservation, expression, subcellular localization, repetitive sequences and disease association. Moreover, in Similar Gene Identification mode, users may identify other lncRNAs by similarity across a defined range of features. Comprehensive results may be downloaded in tabular and graphical formats, in addition to the entire feature resource. LnCompare will empower researchers to extract useful hypotheses and candidates from lncRNA gene sets.

Item Type:

Journal Article (Original Article)

Division/Institute:

04 Faculty of Medicine > Department of Haematology, Oncology, Infectious Diseases, Laboratory Medicine and Hospital Pharmacy (DOLS) > Clinic of Medical Oncology
04 Faculty of Medicine > Pre-clinic Human Medicine > BioMedical Research (DBMR)

UniBE Contributor:

Carlevaro Fita, Joana; Chouvardas, Panagiotis and Johnson, Rory Baldwin

Subjects:

600 Technology > 610 Medicine & health

ISSN:

0305-1048

Publisher:

Oxford University Press

Language:

English

Submitter:

Rebeka Gerber

Date Deposited:

05 Nov 2019 08:34

Last Modified:

05 Nov 2019 08:34

Publisher DOI:

10.1093/nar/gkz410

PubMed ID:

31147707

BORIS DOI:

10.7892/boris.134311

URI:

https://boris.unibe.ch/id/eprint/134311

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