BioAtlas: Interactive web service for microbial distribution analysis

Jesper Lund; Markus List; Jan Baumbach

BioAtlas: Interactive web service for microbial distribution analysis

Jesper Lund
, Markus List
, Jan Baumbach

Research output: Contribution to conference without publisher/journal › Poster › Communication

Abstract

Massive amounts of 16S rRNA sequencing data have been stored in publicly accessible databases, such as GOLD, SILVA, GreenGenes (GG), and the Ribosomal Database Project (RDP). Many of these sequences are tagged with geo-locations. Nevertheless, researchers currently lack a user-friendly tool to analyze microbial distribution in a location-specific context. BioAtlas is an interactive web application that closes this gap between sequence databases, taxonomy profiling and geo/body-location information. It enables users to browse taxonomically annotated sequences across (i) the world map, (ii) human body maps and (iii) user-defined maps. It further allows for (iv) uploading of own sample data, which can be placed on existing maps to (v) browse the distribution of the associated taxonomies. Finally, BioAtlas enables users to (vi) contribute custom maps (e.g. for plants or animals) and to map taxonomies to pre-defined map locations. In summary, BioAtlas facilitates map-supported browsing of public 16S rRNA sequence data and analyses of user-provided sequences without requiring manual mapping to taxonomies and existing databases. Availability: http://bioatlas.compbio.sdu.dk/

Original language	English
Publication date	21. Jul 2017
Publication status	Published - 21. Jul 2017
Event	International Society for Computational Biology - Prague Congress Centre (PCC), 5. kvetna 1640/65, Nusle 140 00 Prague 4, Czech Republic, Prague, Czech Republic Duration: 21. Jul 2017 → 25. Jul 2017 https://www.iscb.org/ismbeccb2017

Conference

Conference	International Society for Computational Biology
Location	Prague Congress Centre (PCC), 5. kvetna 1640/65, Nusle 140 00 Prague 4, Czech Republic
Country/Territory	Czech Republic
City	Prague
Period	21/07/2017 → 25/07/2017
Internet address	https://www.iscb.org/ismbeccb2017

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Interactive microbial distribution analysis using BioAtlas
Lund, J., List, M. & Baumbach, J., 3. Jul 2017, In: Nucleic Acids Research. 45, W1, p. W509–W513
Research output: Contribution to journal › Journal article › Research › peer-review

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title = "BioAtlas: Interactive web service for microbial distribution analysis",

abstract = "Massive amounts of 16S rRNA sequencing data have been stored in publicly accessible databases, such as GOLD, SILVA, GreenGenes (GG), and the Ribosomal Database Project (RDP). Many of these sequences are tagged with geo-locations. Nevertheless, researchers currently lack a user-friendly tool to analyze microbial distribution in a location-specific context. BioAtlas is an interactive web application that closes this gap between sequence databases, taxonomy profiling and geo/body-location information. It enables users to browse taxonomically annotated sequences across (i) the world map, (ii) human body maps and (iii) user-defined maps. It further allows for (iv) uploading of own sample data, which can be placed on existing maps to (v) browse the distribution of the associated taxonomies. Finally, BioAtlas enables users to (vi) contribute custom maps (e.g. for plants or animals) and to map taxonomies to pre-defined map locations. In summary, BioAtlas facilitates map-supported browsing of public 16S rRNA sequence data and analyses of user-provided sequences without requiring manual mapping to taxonomies and existing databases. Availability: http://bioatlas.compbio.sdu.dk/",

author = "Jesper Lund and Markus List and Jan Baumbach",

year = "2017",

month = jul,

day = "21",

language = "English",

note = "International Society for Computational Biology, ISMB ; Conference date: 21-07-2017 Through 25-07-2017",

url = "https://www.iscb.org/ismbeccb2017",

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TY - CONF

T1 - BioAtlas: Interactive web service for microbial distribution analysis

AU - Lund, Jesper

AU - List, Markus

AU - Baumbach, Jan

PY - 2017/7/21

Y1 - 2017/7/21

N2 - Massive amounts of 16S rRNA sequencing data have been stored in publicly accessible databases, such as GOLD, SILVA, GreenGenes (GG), and the Ribosomal Database Project (RDP). Many of these sequences are tagged with geo-locations. Nevertheless, researchers currently lack a user-friendly tool to analyze microbial distribution in a location-specific context. BioAtlas is an interactive web application that closes this gap between sequence databases, taxonomy profiling and geo/body-location information. It enables users to browse taxonomically annotated sequences across (i) the world map, (ii) human body maps and (iii) user-defined maps. It further allows for (iv) uploading of own sample data, which can be placed on existing maps to (v) browse the distribution of the associated taxonomies. Finally, BioAtlas enables users to (vi) contribute custom maps (e.g. for plants or animals) and to map taxonomies to pre-defined map locations. In summary, BioAtlas facilitates map-supported browsing of public 16S rRNA sequence data and analyses of user-provided sequences without requiring manual mapping to taxonomies and existing databases. Availability: http://bioatlas.compbio.sdu.dk/

AB - Massive amounts of 16S rRNA sequencing data have been stored in publicly accessible databases, such as GOLD, SILVA, GreenGenes (GG), and the Ribosomal Database Project (RDP). Many of these sequences are tagged with geo-locations. Nevertheless, researchers currently lack a user-friendly tool to analyze microbial distribution in a location-specific context. BioAtlas is an interactive web application that closes this gap between sequence databases, taxonomy profiling and geo/body-location information. It enables users to browse taxonomically annotated sequences across (i) the world map, (ii) human body maps and (iii) user-defined maps. It further allows for (iv) uploading of own sample data, which can be placed on existing maps to (v) browse the distribution of the associated taxonomies. Finally, BioAtlas enables users to (vi) contribute custom maps (e.g. for plants or animals) and to map taxonomies to pre-defined map locations. In summary, BioAtlas facilitates map-supported browsing of public 16S rRNA sequence data and analyses of user-provided sequences without requiring manual mapping to taxonomies and existing databases. Availability: http://bioatlas.compbio.sdu.dk/

M3 - Poster

T2 - International Society for Computational Biology

Y2 - 21 July 2017 through 25 July 2017

ER -

BioAtlas: Interactive web service for microbial distribution analysis

Abstract

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Interactive microbial distribution analysis using BioAtlas

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