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CorGAT: a tool for the functional annotation of SARS-CoV-2 genomes.
Chiara, Matteo; Zambelli, Federico; Tangaro, Marco Antonio; Mandreoli, Pietro; Horner, David S; Pesole, Graziano.
  • Chiara M; Department of Biosciences, University of Milan, Via Celoria 26, Milan, Italy.
  • Zambelli F; Institute of Biomembranes, Bioenergetics and Molecular Biotechnology, National Research Council, Via Giovanni Amendola, 122/O 70126, Bari, Italy.
  • Tangaro MA; Department of Biosciences, University of Milan, Via Celoria 26, Milan, Italy.
  • Mandreoli P; Institute of Biomembranes, Bioenergetics and Molecular Biotechnology, National Research Council, Via Giovanni Amendola, 122/O 70126, Bari, Italy.
  • Horner DS; Institute of Biomembranes, Bioenergetics and Molecular Biotechnology, National Research Council, Via Giovanni Amendola, 122/O 70126, Bari, Italy.
  • Pesole G; Department of Biosciences, University of Milan, Via Celoria 26, Milan, Italy.
Bioinformatics ; 2020 Dec 21.
Article in English | MEDLINE | ID: covidwho-1387720
Semantic information from SemMedBD (by NLM)
1. 2019 novel coronavirus LOCATION_OF Genome
Subject
2019 novel coronavirus
Predicate
LOCATION_OF
Object
Genome
2. Genome PART_OF 2019 novel coronavirus
Subject
Genome
Predicate
PART_OF
Object
2019 novel coronavirus
3. 2019 novel coronavirus LOCATION_OF Genome
Subject
2019 novel coronavirus
Predicate
LOCATION_OF
Object
Genome
4. Genome PART_OF 2019 novel coronavirus
Subject
Genome
Predicate
PART_OF
Object
2019 novel coronavirus
ABSTRACT

SUMMARY:

While over 150 thousand genomic sequences are currently available through dedicated repositories, ad hoc methods for the functional annotation of SARS-CoV-2 genomes do not harness all currently available resources for the annotation of functionally relevant genomic sites. Here we present CorGAT, a novel tool for the functional annotation of SARS-CoV-2 genomic variants. By comparisons with other state of the art methods we demonstrate that, by providing a more comprehensive and rich annotation, our method can facilitate the identification of evolutionary patterns in the genome of SARS-CoV-2.

AVAILABILITY:

Galaxy http//corgat.cloud.ba.infn.it/galaxy; software https//github.com/matteo14c/CorGAT/tree/Revision_V1; docker https//hub.docker.com/r/laniakeacloud/galaxy_corgat. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.

Full text: Available Collection: International databases Database: MEDLINE Topics: Variants Language: English Journal subject: Medical Informatics Year: 2020 Document Type: Article Affiliation country: BIOINFORMATICS

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Full text: Available Collection: International databases Database: MEDLINE Topics: Variants Language: English Journal subject: Medical Informatics Year: 2020 Document Type: Article Affiliation country: BIOINFORMATICS