A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs

Kunz M, Wolf B, Fuchs M, Christoph J, Xiao K, Thum T, Atlan D, Prokosch HU, Dandekar T (2019)

Publication Type: Journal article

Publication year: 2019

Journal

Briefings in Bioinformatics Oxford University Press

DOI: 10.1093/bib/bbz066

Abstract

Long non-coding RNAs (lncRNAs) are of fundamental biological importance; however, their functional role is often unclear or loosely defined as experimental characterization is challenging and bioinformatic methods are limited. We developed a novel integrated method protocol for the annotation and detailed functional characterization of lncRNAs within the genome. It combines annotation, normalization and gene expression with sequence-structure conservation, functional interactome and promoter analysis. Our protocol allows an analysis based on the tissue and biological context, and is powerful in functional characterization of experimental and clinical RNA-Seq datasets including existing lncRNAs. This is demonstrated on the uncharacterized lncRNA GATA6-AS1 in dilated cardiomyopathy.

Authors with CRIS profile

Meik Kunz Lehrstuhl für Medizinische Informatik Jan Christoph Lehrstuhl für Medizinische Informatik Hans-Ulrich Prokosch Lehrstuhl für Medizinische Informatik

Involved external institutions

Haute école spécialisée de Suisse occidentale (HES-SO) / Fachhochschule Westschweiz CH Switzerland (CH) Phenosystems BE Belgium (BE) Medizinische Hochschule Hannover (MHH) / Hannover Medical School DE Germany (DE) Julius-Maximilians-Universität Würzburg DE Germany (DE)

How to cite

APA:

Kunz, M., Wolf, B., Fuchs, M., Christoph, J., Xiao, K., Thum, T.,... Dandekar, T. (2019). A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs. Briefings in Bioinformatics. https://doi.org/10.1093/bib/bbz066

MLA:

Kunz, Meik, et al. "A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs." Briefings in Bioinformatics (2019).

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