CDinFusion--submission-ready, on-line integration of sequence and contextual data.

State of the art (DNA) sequencing methods applied in "Omics" studies grant insight into the 'blueprints' of organisms from all domains of life. Sequencing is carried out around the globe and the data is submitted to the public repositories of the International Nucleotide Sequence...

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Autores principales:	Wolfgang Hankeln, Norma Johanna Wendel, Jan Gerken, Jost Waldmann, Pier Luigi Buttigieg, Ivaylo Kostadinov, Renzo Kottmann, Pelin Yilmaz, Frank Oliver Glöckner
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3e2fc17df6ef41eb8667ccff0a0d2e9b
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spelling	oai:doaj.org-article:3e2fc17df6ef41eb8667ccff0a0d2e9b2021-11-04T06:08:40ZCDinFusion--submission-ready, on-line integration of sequence and contextual data.1932-620310.1371/journal.pone.0024797https://doaj.org/article/3e2fc17df6ef41eb8667ccff0a0d2e9b2011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21935468/?tool=EBIhttps://doaj.org/toc/1932-6203State of the art (DNA) sequencing methods applied in "Omics" studies grant insight into the 'blueprints' of organisms from all domains of life. Sequencing is carried out around the globe and the data is submitted to the public repositories of the International Nucleotide Sequence Database Collaboration. However, the context in which these studies are conducted often gets lost, because experimental data, as well as information about the environment are rarely submitted along with the sequence data. If these contextual or metadata are missing, key opportunities of comparison and analysis across studies and habitats are hampered or even impossible. To address this problem, the Genomic Standards Consortium (GSC) promotes checklists and standards to better describe our sequence data collection and to promote the capturing, exchange and integration of sequence data with contextual data. In a recent community effort the GSC has developed a series of recommendations for contextual data that should be submitted along with sequence data. To support the scientific community to significantly enhance the quality and quantity of contextual data in the public sequence data repositories, specialized software tools are needed. In this work we present CDinFusion, a web-based tool to integrate contextual and sequence data in (Multi)FASTA format prior to submission. The tool is open source and available under the Lesser GNU Public License 3. A public installation is hosted and maintained at the Max Planck Institute for Marine Microbiology at http://www.megx.net/cdinfusion. The tool may also be installed locally using the open source code available at http://code.google.com/p/cdinfusion.Wolfgang HankelnNorma Johanna WendelJan GerkenJost WaldmannPier Luigi ButtigiegIvaylo KostadinovRenzo KottmannPelin YilmazFrank Oliver GlöcknerPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 9, p e24797 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Wolfgang Hankeln Norma Johanna Wendel Jan Gerken Jost Waldmann Pier Luigi Buttigieg Ivaylo Kostadinov Renzo Kottmann Pelin Yilmaz Frank Oliver Glöckner CDinFusion--submission-ready, on-line integration of sequence and contextual data.
description	State of the art (DNA) sequencing methods applied in "Omics" studies grant insight into the 'blueprints' of organisms from all domains of life. Sequencing is carried out around the globe and the data is submitted to the public repositories of the International Nucleotide Sequence Database Collaboration. However, the context in which these studies are conducted often gets lost, because experimental data, as well as information about the environment are rarely submitted along with the sequence data. If these contextual or metadata are missing, key opportunities of comparison and analysis across studies and habitats are hampered or even impossible. To address this problem, the Genomic Standards Consortium (GSC) promotes checklists and standards to better describe our sequence data collection and to promote the capturing, exchange and integration of sequence data with contextual data. In a recent community effort the GSC has developed a series of recommendations for contextual data that should be submitted along with sequence data. To support the scientific community to significantly enhance the quality and quantity of contextual data in the public sequence data repositories, specialized software tools are needed. In this work we present CDinFusion, a web-based tool to integrate contextual and sequence data in (Multi)FASTA format prior to submission. The tool is open source and available under the Lesser GNU Public License 3. A public installation is hosted and maintained at the Max Planck Institute for Marine Microbiology at http://www.megx.net/cdinfusion. The tool may also be installed locally using the open source code available at http://code.google.com/p/cdinfusion.
format	article
author	Wolfgang Hankeln Norma Johanna Wendel Jan Gerken Jost Waldmann Pier Luigi Buttigieg Ivaylo Kostadinov Renzo Kottmann Pelin Yilmaz Frank Oliver Glöckner
author_facet	Wolfgang Hankeln Norma Johanna Wendel Jan Gerken Jost Waldmann Pier Luigi Buttigieg Ivaylo Kostadinov Renzo Kottmann Pelin Yilmaz Frank Oliver Glöckner
author_sort	Wolfgang Hankeln
title	CDinFusion--submission-ready, on-line integration of sequence and contextual data.
title_short	CDinFusion--submission-ready, on-line integration of sequence and contextual data.
title_full	CDinFusion--submission-ready, on-line integration of sequence and contextual data.
title_fullStr	CDinFusion--submission-ready, on-line integration of sequence and contextual data.
title_full_unstemmed	CDinFusion--submission-ready, on-line integration of sequence and contextual data.
title_sort	cdinfusion--submission-ready, on-line integration of sequence and contextual data.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/3e2fc17df6ef41eb8667ccff0a0d2e9b
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CDinFusion--submission-ready, on-line integration of sequence and contextual data.

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