We develop methods that lift single-protein function prediction up to the level of microbial communities, combining ontology-aware deep learning with multi-scale systems approaches. Applications include desert-soil and mangrove-microbiome design, bioprospecting from Saudi-Arabian extremophile habitats, and metagenomics-driven functional characterisation of patient and environmental microbiomes.
- Section
- Applications
- Keywords
- metagenomics, microbial communities, DeepGOMeta, soil microbiome, marine microbiome, extremophile, functional metagenomics
Connections
related papers borg:linkedPaper
- In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria
- In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters
- DESM: portal for microbial knowledge exploration systems
- DeepGOMeta for functional insights into microbial communities using deep learning-based protein function prediction
related projects borg:linkedProject
- Enabling desert revegetation by AI-tailored soil microbiome fortification
- Enabling mangrove restoration by AI-tailored microbiome fortification
- Metagenomics-based surface prospecting
- Computational methods for functional metagenomics: from protein functions to multi-scale interactions
- Sequencing and computational analysis of MRSA samples
- Data integration and ontologies for microbial cell factories
Referenced by
research topics borg:topic
- Enabling desert revegetation by AI-tailored soil microbiome fortification
- Enabling mangrove restoration by AI-tailored microbiome fortification
- Metagenomics-based surface prospecting
- Computational methods for functional metagenomics: from protein functions to multi-scale interactions
- Sequencing and computational analysis of MRSA samples
- Data integration and ontologies for microbial cell factories
- Robert Hoehndorf
- Maxat Kulmanov
- Rund Tawfiq
- Daulet Toibazar
- Amal Alhelal
- Md Nurul Muttakin
- Shahad Qatan
- Kexin Niu
- Asaad Mohammedsaleh
- Miguel Angel Rodriguez Garcia
- Heribert Hirt
- Gabriel Wittum
- Arne Nägel
- Takashi Gojobori
- Mohammed Al Fageeh
- Vladimir Bajic
- In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria
- In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters
- DESM: portal for microbial knowledge exploration systems
- DeepGOMeta for functional insights into microbial communities using deep learning-based protein function prediction
Open in the interactive graph →
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