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Ten steps to get started in Genome Assembly and Annotation
As a part of the ELIXIR-EXCELERATE efforts in capacity building, we present here 10 steps to facilitate researchers getting started in genome assembly and genome annotation. The guidelines given are broadly applicable, intended to be stable over time, and cover all aspects from start to finish of a...
Autores principales: | , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
F1000 Research Limited
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850084/ https://www.ncbi.nlm.nih.gov/pubmed/29568489 http://dx.doi.org/10.12688/f1000research.13598.1 |
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author | Dominguez Del Angel, Victoria Hjerde, Erik Sterck, Lieven Capella-Gutierrez, Salvadors Notredame, Cederic Vinnere Pettersson, Olga Amselem, Joelle Bouri, Laurent Bocs, Stephanie Klopp, Christophe Gibrat, Jean-Francois Vlasova, Anna Leskosek, Brane L. Soler, Lucile Binzer-Panchal, Mahesh Lantz, Henrik |
author_facet | Dominguez Del Angel, Victoria Hjerde, Erik Sterck, Lieven Capella-Gutierrez, Salvadors Notredame, Cederic Vinnere Pettersson, Olga Amselem, Joelle Bouri, Laurent Bocs, Stephanie Klopp, Christophe Gibrat, Jean-Francois Vlasova, Anna Leskosek, Brane L. Soler, Lucile Binzer-Panchal, Mahesh Lantz, Henrik |
author_sort | Dominguez Del Angel, Victoria |
collection | PubMed |
description | As a part of the ELIXIR-EXCELERATE efforts in capacity building, we present here 10 steps to facilitate researchers getting started in genome assembly and genome annotation. The guidelines given are broadly applicable, intended to be stable over time, and cover all aspects from start to finish of a general assembly and annotation project. Intrinsic properties of genomes are discussed, as is the importance of using high quality DNA. Different sequencing technologies and generally applicable workflows for genome assembly are also detailed. We cover structural and functional annotation and encourage readers to also annotate transposable elements, something that is often omitted from annotation workflows. The importance of data management is stressed, and we give advice on where to submit data and how to make your results Findable, Accessible, Interoperable, and Reusable (FAIR). |
format | Online Article Text |
id | pubmed-5850084 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | F1000 Research Limited |
record_format | MEDLINE/PubMed |
spelling | pubmed-58500842018-03-21 Ten steps to get started in Genome Assembly and Annotation Dominguez Del Angel, Victoria Hjerde, Erik Sterck, Lieven Capella-Gutierrez, Salvadors Notredame, Cederic Vinnere Pettersson, Olga Amselem, Joelle Bouri, Laurent Bocs, Stephanie Klopp, Christophe Gibrat, Jean-Francois Vlasova, Anna Leskosek, Brane L. Soler, Lucile Binzer-Panchal, Mahesh Lantz, Henrik F1000Res Opinion Article As a part of the ELIXIR-EXCELERATE efforts in capacity building, we present here 10 steps to facilitate researchers getting started in genome assembly and genome annotation. The guidelines given are broadly applicable, intended to be stable over time, and cover all aspects from start to finish of a general assembly and annotation project. Intrinsic properties of genomes are discussed, as is the importance of using high quality DNA. Different sequencing technologies and generally applicable workflows for genome assembly are also detailed. We cover structural and functional annotation and encourage readers to also annotate transposable elements, something that is often omitted from annotation workflows. The importance of data management is stressed, and we give advice on where to submit data and how to make your results Findable, Accessible, Interoperable, and Reusable (FAIR). F1000 Research Limited 2018-02-05 /pmc/articles/PMC5850084/ /pubmed/29568489 http://dx.doi.org/10.12688/f1000research.13598.1 Text en Copyright: © 2018 Dominguez Del Angel V et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Opinion Article Dominguez Del Angel, Victoria Hjerde, Erik Sterck, Lieven Capella-Gutierrez, Salvadors Notredame, Cederic Vinnere Pettersson, Olga Amselem, Joelle Bouri, Laurent Bocs, Stephanie Klopp, Christophe Gibrat, Jean-Francois Vlasova, Anna Leskosek, Brane L. Soler, Lucile Binzer-Panchal, Mahesh Lantz, Henrik Ten steps to get started in Genome Assembly and Annotation |
title | Ten steps to get started in Genome Assembly and Annotation |
title_full | Ten steps to get started in Genome Assembly and Annotation |
title_fullStr | Ten steps to get started in Genome Assembly and Annotation |
title_full_unstemmed | Ten steps to get started in Genome Assembly and Annotation |
title_short | Ten steps to get started in Genome Assembly and Annotation |
title_sort | ten steps to get started in genome assembly and annotation |
topic | Opinion Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850084/ https://www.ncbi.nlm.nih.gov/pubmed/29568489 http://dx.doi.org/10.12688/f1000research.13598.1 |
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