dc.contributor
Institut Català de la Salut
dc.contributor
[Xie Z, Manichanh C] Grup de Recerca en Microbioma, Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Departament de Medicina, Universitat Autònoma de Barcelona, Bellaterra, Spain
dc.contributor
Vall d'Hebron Barcelona Hospital Campus
dc.contributor.author
Manichanh, Chaysavanh
dc.contributor.author
Xie, Zixuan
dc.date.accessioned
2025-10-24T08:52:33Z
dc.date.available
2025-10-24T08:52:33Z
dc.date.issued
2022-10-06T12:20:49Z
dc.date.issued
2022-10-06T12:20:49Z
dc.identifier
Xie Z, Manichanh C. FunOMIC: Pipeline with built-in fungal taxonomic and functional databases for human mycobiome profiling. Comput Struct Biotechnol J. 2022;20:3685–94.
dc.identifier
https://hdl.handle.net/11351/8269
dc.identifier
10.1016/j.csbj.2022.07.010
dc.identifier.uri
http://hdl.handle.net/11351/8269
dc.description.abstract
Fungal databases; Taxonomy and functions; Inter-kingdom interactions
dc.description.abstract
Bases de datos de hongos; Taxonomía y funciones; Interacciones entre reinos
dc.description.abstract
Bases de dades de fongs; Taxonomia i funcions; Interaccions entre regnes
dc.description.abstract
While analysis of the bacterial microbiome has become routine, that of the fungal microbiome is still hampered by the lack of robust databases and bioinformatic pipelines. Here, we present FunOMIC, a pipeline with built-in taxonomic (1.6 million marker genes) and functional (3.4 million non-redundant fungal proteins) databases for the identification of fungi. Applied to more than 2,600 human metagenomic samples, the tool revealed fungal species associated with geography, body sites, and diseases. Correlation network analysis provided new insights into inter-kingdom interactions. With this pipeline and two of the most comprehensive fungal databases, we foresee a fast-growing resource for mycobiome studies.
dc.description.abstract
This work was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Action, Innovative Training Network [grant number 812969] and by the Instituto de Salud Carlos III /FEDER, a government agency (Grant No: PI17/00614; PI20/00130).
dc.format
application/pdf
dc.relation
Computational and Structural Biotechnology Journal;20
dc.relation
https://doi.org/10.1016/j.csbj.2022.07.010
dc.relation
info:eu-repo/grantAgreement/ES/PE2013-2016/PI17%2F00614
dc.relation
info:eu-repo/grantAgreement/ES/PE2017-2020/PI20%2F00130
dc.relation
info:eu-repo/grantAgreement/EC/H2020/812969
dc.rights
Attribution-NonCommercial-NoDerivatives 4.0 International
dc.rights
http://creativecommons.org/licenses/by-nc-nd/4.0/
dc.rights
info:eu-repo/semantics/openAccess
dc.subject
Diversitat microbiana
dc.subject
Fongs - Classificació
dc.subject
Bases de dades
dc.subject
PHENOMENA AND PROCESSES::Microbiological Phenomena::Microbiota::Mycobiome
dc.subject
PUBLIC HEALTH::Environmental Health::Science::Microbiology::Fungi
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Other subheadings::Other subheadings::/classification
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PUBLICATION CHARACTERISTICS::Publication Formats::Database
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FENÓMENOS Y PROCESOS::fenómenos microbiológicos::microbiota::micobioma
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SALUD PÚBLICA::salud ambiental::ciencia::microbiología::hongos
dc.subject
Otros calificadores::Otros calificadores::/clasificación
dc.subject
CARACTERÍSTICAS DE PUBLICACIONES::formatos de publicación::base de datos
dc.title
FunOMIC: Pipeline with built-in fungal taxonomic and functional databases for human mycobiome profiling
dc.type
info:eu-repo/semantics/article
dc.type
info:eu-repo/semantics/publishedVersion
