Microbiology Galaxy Lab: The first community-driven gateway for reproducible and FAIR analysis of microbial data.
Fuente:
PubMed
Saved in:
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Artículo científico |
| Language: | en |
| Published: |
bioRxiv : the preprint server for biology
2025
|
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1868266260606746624 |
|---|---|
| author | Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice |
| author_facet | Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice |
| collection | PubMed - marine biology |
| contents | Microbiology Galaxy Lab: The first community-driven gateway for reproducible and FAIR analysis of microbial data. Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice The explosion of microbial omics data has outpaced the ability of many researchers to analyze it, with complex tools and limited computational resources creating barriers to discovery. To address this gap, we present the Microbiology Galaxy Lab: a free, globally accessible, community-supported platform that combines state-of-the-art analytical power with user-friendly accessibility. Supported by the Galaxy and global microbiology communities, this platform integrates over 315 tool suites and 115 curated workflows, enabling comprehensive metabarcoding, (meta)genomic, (meta)transcriptomic, and (meta)proteomic data analysis within a FAIR-aligned environment. It also supports research in the health and infectious disease sectors, as well as in environmental microbiology. The platform's utility is exemplified through various use cases, including antimicrobial resistance tracking, biomarker prediction, microbiome classification, and functional annotation of key microbes. Built on reproducibility and community engagement, it supports creation, sharing, and updating of best-practice workflows. Over 35 tutorials and learning paths empower scientists, fostering an ecosystem that keeps resources at the forefront of microbial science. The Microbiology Galaxy Lab enables collective analysis, democratising research, thereby accelerating discovery across the global microbiology community (microbiology.usegalaxy.org, .eu, .org.au, .fr). |
| format | Artículo científico |
| id | pubmed_39764050 |
| institution | PubMed |
| language | en |
| publishDate | 2025 |
| publisher | bioRxiv : the preprint server for biology |
| record_format | pubmed |
| spellingShingle | Microbiology Galaxy Lab: The first community-driven gateway for reproducible and FAIR analysis of microbial data. Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice Microbiology Galaxy Lab: The first community-driven gateway for reproducible and FAIR analysis of microbial data. Nasr, Engy Pechlivanis, Nikos Strepis, Nikolaos Amato, Pierre Bernt, Matthias Bhardwaj, Anshu Blankenberg, Daniel Brites, Daniela Cumbo, Fabio Do, Katherine T Ferrari, Emanuele Griffin, Timothy J Grüning, Björn Hiltemann, Saskia Hyde, Cameron J Jagtap, Pratik Mehta, Subina Métris, Kimberly L Momin, Saim Nelson, Tiffanie M Oba, Asime Pavloudi, Christina Péguilhan, Raphaëlle Price, Gareth R Psomopoulos, Fotis Rosic, Nedeljka Schatz, Michael C Schiml, Valerie Claudia Siguret, Cléa Soranzo, Nicola Stubbs, Andrew van Heusden, Peter Vohra, Mustafa Zierep, Paul Batut, Bérénice The explosion of microbial omics data has outpaced the ability of many researchers to analyze it, with complex tools and limited computational resources creating barriers to discovery. To address this gap, we present the Microbiology Galaxy Lab: a free, globally accessible, community-supported platform that combines state-of-the-art analytical power with user-friendly accessibility. Supported by the Galaxy and global microbiology communities, this platform integrates over 315 tool suites and 115 curated workflows, enabling comprehensive metabarcoding, (meta)genomic, (meta)transcriptomic, and (meta)proteomic data analysis within a FAIR-aligned environment. It also supports research in the health and infectious disease sectors, as well as in environmental microbiology. The platform's utility is exemplified through various use cases, including antimicrobial resistance tracking, biomarker prediction, microbiome classification, and functional annotation of key microbes. Built on reproducibility and community engagement, it supports creation, sharing, and updating of best-practice workflows. Over 35 tutorials and learning paths empower scientists, fostering an ecosystem that keeps resources at the forefront of microbial science. The Microbiology Galaxy Lab enables collective analysis, democratising research, thereby accelerating discovery across the global microbiology community (microbiology.usegalaxy.org, .eu, .org.au, .fr). |
| title | Microbiology Galaxy Lab: The first community-driven gateway for reproducible and FAIR analysis of microbial data. |
| url | https://pubmed.ncbi.nlm.nih.gov/39764050/ |