The Ocean Gene Atlas: exploring the biogeography of plankton genes online
| العنوان: | The Ocean Gene Atlas: exploring the biogeography of plankton genes online |
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| المؤلفون: | Villar, Emilie, Vannier, Thomas, Vernette, Caroline, Lescot, Magali, Cuenca, Miguelangel, Alexandre, Aurélien, Bachelerie, Paul, Rosnet, Thomas, Pelletier, Eric, Sunagawa, Shinichi, Hingamp, Pascal |
| المساهمون: | Diversité et Interactions au sein du Plancton Océanique (DIPO), Adaptation et diversité en milieu marin (AD2M), Centre National de la Recherche Scientifique (CNRS)-Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Institut méditerranéen d'océanologie (MIO), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université de Toulon (UTLN), Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology [Zürich] (ETH Zürich), Institut de Biologie François JACOB (JACOB), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), ANR-11-BTBR-0008,OCEANOMICS,Biotechnologies et bioressources pour la valorisation des écosystèmes marins planctoniques(2011), Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology in Zürich [Zürich] (ETH Zürich), Adaptation et diversité en milieu marin (ADMM), Institut national des sciences de l'Univers (INSU - CNRS)-Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Station biologique de Roscoff (SBR), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Toulon (UTLN)-Centre National de la Recherche Scientifique (CNRS) |
| المصدر: | Nucleic Acids Research Nucleic Acids Research, Oxford University Press, 2018, 46 (W1), pp.gky376. ⟨10.1093/nar/gky376⟩ Nucleic Acids Research, Oxford University Press, 2018, 46 (W1), pp.W289-W295. ⟨10.1093/nar/gky376⟩ Nucleic Acids Research, 2018, 46 (W1), pp.gky376. ⟨10.1093/nar/gky376⟩ Nucleic Acids Research, 46 (W1) |
| بيانات النشر: | HAL CCSD, 2018. |
| سنة النشر: | 2018 |
| مصطلحات موضوعية: | Aquatic Organisms, Internet, [SDV.GEN]Life Sciences [q-bio]/Genetics, [INFO.INFO-DB]Computer Science [cs]/Databases [cs.DB], Oceans and Seas, [SDV]Life Sciences [q-bio], [INFO.INFO-WB]Computer Science [cs]/Web, fungi, Biodiversity, Plankton, [SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics, Phylogeography, [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, Web Server Issue, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Ecosystem, Software, ComputingMilieux_MISCELLANEOUS, geographic locations, [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography |
| الوصف: | The Ocean Gene Atlas is a web service to explore the biogeography of genes from marine planktonic organisms. It allows users to query protein or nucleotide sequences against global ocean reference gene catalogs. With just one click, the abundance and location of target sequences are visualized on world maps as well as their taxonomic distribution. Interactive results panels allow for adjusting cutoffs for alignment quality and displaying the abundances of genes in the context of environmental features (temperature, nutrients, etc.) measured at the time of sampling. The ease of use enables non-bioinformaticians to explore quantitative and contextualized information on genes of interest in the global ocean ecosystem. Currently the Ocean Gene Atlas is deployed with (i) the Ocean Microbial Reference Gene Catalog (OM-RGC) comprising 40 million non-redundant mostly prokaryotic gene sequences associated with both Tara Oceans and Global Ocean Sampling (GOS) gene abundances and (ii) the Marine Atlas of Tara Ocean Unigenes (MATOU) composed of >116 million eukaryote unigenes. Additional datasets will be added upon availability of further marine environmental datasets that provide the required complement of sequence assemblies, raw reads and contextual environmental parameters. Ocean Gene Atlas is a freely-available web service at: http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/. ISSN:1362-4962 ISSN:0301-5610 |
| وصف الملف: | application/application/pdf |
| اللغة: | English |
| تدمد: | 1362-4962 0305-1048 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=pmid_dedup__::37c7912fbed866230e3e90f1f830acd4 https://hal.sorbonne-universite.fr/hal-01803597/file/gky376.pdf |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.pmid.dedup....37c7912fbed866230e3e90f1f830acd4 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 13624962 03051048 |
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