Universität zu Köln

Piechotta, Michael, Naarmann-de Vries, Isabel S., Wang, Qi, Altmueller, Janine and Dieterich, Christoph ORCID: 0000-0001-9468-6311 (2022). RNA modification mapping with JACUSA2. Genome Biol., 23 (1). LONDON: BMC. ISSN 1474-760X

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Abstract

Several high-throughput antibody-free methods for RNA modification detection from sequencing data have been developed. We present JACUSA2 as a versatile software solution and comprehensive analysis framework for RNA modification detection assays that are based on either the Illumina or Nanopore platform. Importantly, JACUSA2 can integrate information from multiple experiments, such as replicates and different conditions, and different library types, such as first- or second-strand cDNA libraries. We demonstrate its utility, showing analysis workflows for N6-methyladenosine (m6A) and pseudouridine (psi) detection on Illumina and Nanopore sequencing data sets. Our software and its R helper package are available as open source solutions.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Piechotta, Michael UNSPECIFIED UNSPECIFIED UNSPECIFIED Naarmann-de Vries, Isabel S. UNSPECIFIED UNSPECIFIED UNSPECIFIED Wang, Qi UNSPECIFIED UNSPECIFIED UNSPECIFIED Altmueller, Janine UNSPECIFIED UNSPECIFIED UNSPECIFIED Dieterich, Christoph UNSPECIFIED orcid.org/0000-0001-9468-6311 UNSPECIFIED
URN:	urn:nbn:de:hbz:38-674714
DOI:	10.1186/s13059-022-02676-0
Journal or Publication Title:	Genome Biol.
Volume:	23
Number:	1
Date:	2022
Publisher:	BMC
Place of Publication:	LONDON
ISSN:	1474-760X
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language MESSENGER-RNA Multiple languages Biotechnology & Applied Microbiology; Genetics & Heredity Multiple languages
URI:	http://kups.ub.uni-koeln.de/id/eprint/67471