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Classification of the plant-associated lifestyle of Pseudomonas strains using genome properties and machine learning.
- Published in:
- Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-14913-4
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- Article
Integration of heterogeneous molecular networks to unravel gene-regulation in Mycobacterium tuberculosis.
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- BMC Systems Biology, 2014, v. 8, n. 1, p. 111, doi. 10.1186/s12918-014-0111-5
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- Article
Regulation of Three Virulence Strategies of Mycobacterium tuberculosis: A Success Story.
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- International Journal of Molecular Sciences, 2018, v. 19, n. 2, p. 347, doi. 10.3390/ijms19020347
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- Article
Genome-guided analysis allows the identification of novel physiological traits in Trichococcus species.
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- BMC Genomics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12864-019-6410-x
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- Article
The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation.
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- Scientific Data, 2019, v. 6, n. 1, p. N.PAG, doi. 10.1038/s41597-019-0263-7
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- Article
Consistency, Inconsistency, and Ambiguity of Metabolite Names in Biochemical Databases Used for Genome-Scale Metabolic Modelling.
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- Metabolites (2218-1989), 2019, v. 9, n. 2, p. 28, doi. 10.3390/metabo9020028
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- Article
Model‐driven design of a minimal medium for <italic>Akkermansia muciniphila</italic> confirms mucus adaptation.
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- Microbial Biotechnology, 2018, v. 11, n. 3, p. 476, doi. 10.1111/1751-7915.13033
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- Article
Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88.
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- Nature Biotechnology, 2007, v. 25, n. 2, p. 221, doi. 10.1038/nbt1282
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- Article
Machine learning approaches to predict the Plant-associated phenotype of Xanthomonas strains.
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- BMC Genomics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12864-021-08093-0
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- Article
A protocol for adding knowledge to Wikidata: aligning resources on human coronaviruses.
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- BMC Biology, 2021, v. 19, n. 1, p. 1, doi. 10.1186/s12915-020-00940-y
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- Article
Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data.
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- Scientific Reports, 2016, p. 38699, doi. 10.1038/srep38699
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- Article
Draft genome sequence and characterization of Desulfitobacterium hafniense PCE-S.
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- Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/1944-3277-10-15
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- Article
FAIR data station for lightweight metadata management and validation of omics studies.
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- GigaScience, 2023, v. 12, n. 1, p. 1, doi. 10.1093/gigascience/giad014
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- Publication type:
- Article
RDF2Graph a tool to recover, understand and validate the ontology of an RDF resource.
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- Journal of Biomedical Semantics, 2015, v. 6, p. 1, doi. 10.1186/s13326-015-0038-9
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- Publication type:
- Article
Assessing the Metabolic Diversity of Streptococcus from a Protein Domain Point of View.
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- PLoS ONE, 2015, v. 10, n. 9, p. 1, doi. 10.1371/journal.pone.0137908
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- Publication type:
- Article
Effects of Argonaute on Gene Expression in Thermus thermophilus.
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- PLoS ONE, 2015, v. 10, n. 4, p. 1, doi. 10.1371/journal.pone.0124880
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- Publication type:
- Article
Proteomic Analysis of the Secretory Response of Aspergillus niger to D-Maltose and D-Xylose.
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- PLoS ONE, 2011, v. 6, n. 6, p. 1, doi. 10.1371/journal.pone.0020865
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- Article
3DM: Systematic analysis of heterogeneous superfamily data to discover protein functionalities.
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- Proteins, 2010, v. 78, n. 9, p. 2101, doi. 10.1002/prot.22725
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- Article
Correlated mutation analyses on super-family alignments reveal functionally important residues.
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- Proteins, 2009, v. 76, n. 3, p. 608, doi. 10.1002/prot.22374
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- Publication type:
- Article
Identification of fungal oxaloacetate hydrolyase within the isocitrate lyase/PEP mutase enzyme superfamily using a sequence marker-based method.
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- Proteins, 2008, v. 70, n. 1, p. 157, doi. 10.1002/prot.21622
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- Publication type:
- Article
Genomic convergence between Akkermansia muciniphila in different mammalian hosts.
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- BMC Microbiology, 2021, v. 21, n. 1, p. 1, doi. 10.1186/s12866-021-02360-6
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- Article
A metabolic and physiological design study of Pseudomonas putida KT2440 capable of anaerobic respiration.
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- BMC Microbiology, 2021, v. 21, n. 1, p. 1, doi. 10.1186/s12866-020-02058-1
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- Article
Metabolic response of Alicycliphilus denitrificans strain BC toward electron acceptor variation.
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- Proteomics, 2013, v. 13, n. 18/19, p. 2886, doi. 10.1002/pmic.201200571
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- Article
Metabolic modeling of energy balances in Mycoplasma hyopneumoniae shows that pyruvate addition increases growth rate.
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- Biotechnology & Bioengineering, 2017, v. 114, n. 10, p. 2339, doi. 10.1002/bit.26347
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- Publication type:
- Article
Metatranscriptomic analysis indicates prebiotic effect of isomalto/malto-polysaccharides on human colonic microbiota in-vitro.
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- Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-69685-w
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- Article
Distant Non-Obvious Mutations Influence the Activity of a Hyperthermophilic Pyrococcusfuriosus Phosphoglucose Isomerase.
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- Biomolecules (2218-273X), 2019, v. 9, n. 6, p. 212, doi. 10.3390/biom9060212
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- Article
Identification and functional characterization of novel xylose transporters from the cell factories Aspergillus niger and Trichoderma reesei.
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- Biotechnology for Biofuels, 2016, v. 9, p. 1, doi. 10.1186/s13068-016-0564-4
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- Publication type:
- Article
SALARECON connects the Atlantic salmon genome to growth and feed efficiency.
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- PLoS Computational Biology, 2022, v. 18, n. 6, p. 1, doi. 10.1371/journal.pcbi.1010194
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- Article
Assembly and Comparison of Ca. Neoehrlichia mikurensis Genomes.
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- Microorganisms, 2022, v. 10, n. 6, p. 1134, doi. 10.3390/microorganisms10061134
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- Article
Toxicological response of the model fungus Saccharomyces cerevisiae to different concentrations of commercial graphene nanoplatelets.
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- Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-60101-7
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- Publication type:
- Article
Metabolic shift induced by synthetic co-cultivation promotes high yield of chain elongated acids from syngas.
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- Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-54445-y
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- Article
NG-Tax 2.0: A Semantic Framework for High-Throughput Amplicon Analysis.
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- Frontiers in Genetics, 2020, v. 10, p. 1, doi. 10.3389/fgene.2019.01366
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- Article
Identification of genes associated with the high-temperature fermentation trait in the Saccharomyces cerevisiae natural isolate BCC39850.
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- Archives of Microbiology, 2024, v. 206, n. 10, p. 1, doi. 10.1007/s00203-024-04117-x
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- Article
Modeling the Metabolic State of Mycobacterium tuberculosis Upon Infection.
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- Frontiers in Cellular & Infection Microbiology, 2018, v. 8, p. N.PAG, doi. 10.3389/fcimb.2018.00264
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- Article
Persistence of Functional Protein Domains in Mycoplasma Species and their Role in Host Specificity and Synthetic Minimal Life.
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- Frontiers in Cellular & Infection Microbiology, 2017, v. 7, p. 1, doi. 10.3389/fcimb.2017.00031
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- Article
Genome and proteome analysis of P seudomonas chloritidismutans AW-1 <sup>T</sup> that grows on n-decane with chlorate or oxygen as electron acceptor.
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- Environmental Microbiology, 2016, v. 18, n. 10, p. 3247, doi. 10.1111/1462-2920.12880
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- Article
Unravelling the one-carbon metabolism of the acetogen S poromusa strain An4 by genome and proteome analysis.
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- Environmental Microbiology, 2016, v. 18, n. 9, p. 2843, doi. 10.1111/1462-2920.12973
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- Article
Comparative Genomics Highlights Symbiotic Capacities and HighMetabolic Flexibility of theMarine Genus Pseudovibrio.
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- Genome Biology & Evolution, 2018, v. 10, n. 1, p. 125, doi. 10.1093/gbe/evx271
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- Article
Studying microbial functionality within the gut ecosystem by systems biology.
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- Genes & Nutrition, 2018, v. 13, p. 1, doi. 10.1186/s12263-018-0594-6
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- Article
Genome-scale metabolic modelling enables deciphering ethanol metabolism via the acrylate pathway in the propionate-producer Anaerotignum neopropionicum.
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- Microbial Cell Factories, 2022, v. 21, n. 1, p. 1, doi. 10.1186/s12934-022-01841-1
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- Article
Deciphering the trophic interaction between <italic>Akkermansia muciniphila</italic> and the butyrogenic gut commensal <italic>Anaerostipes caccae</italic> using a metatranscriptomic approach.
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- Antonie van Leeuwenhoek, 2018, v. 111, n. 6, p. 859, doi. 10.1007/s10482-018-1040-x
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- Article
Forward Genetics by Genome Sequencing Uncovers the Central Role of the Aspergillus niger goxB Locus in Hydrogen Peroxide Induced Glucose Oxidase Expression.
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- Frontiers in Microbiology, 2018, p. N.PAG, doi. 10.3389/fmicb.2018.02269
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- Publication type:
- Article
Aspergillus niger Secretes Citrate to Increase Iron Bioavailability.
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- Frontiers in Microbiology, 2017, p. 1, doi. 10.3389/fmicb.2017.01424
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- Article
Functional Profiling of Unfamiliar Microbial Communities Using a Validated De Novo Assembly Metatranscriptome Pipeline.
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- PLoS ONE, 2016, v. 11, n. 1, p. 1, doi. 10.1371/journal.pone.0146423
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- Publication type:
- Article
In silico-guided engineering of Pseudomonas putida towards growth under micro-oxic conditions.
- Published in:
- Microbial Cell Factories, 2019, v. 18, n. 1, p. N.PAG, doi. 10.1186/s12934-019-1227-5
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- Publication type:
- Article
A structured evaluation of genome-scale constraint-based modeling tools for microbial consortia.
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- PLoS Computational Biology, 2023, v. 19, n. 8, p. 1, doi. 10.1371/journal.pcbi.1011363
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- Publication type:
- Article
Time-dependent transcriptome profile of genes involved in triacylglycerol (TAG) and polyunsaturated fatty acid synthesis in Nannochloropsis gaditana during nitrogen starvation.
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- Journal of Applied Phycology, 2020, v. 32, n. 2, p. 1153, doi. 10.1007/s10811-019-02021-2
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- Article
Combined Transcriptome Sequencing of Mycoplasma hyopneumoniae and Infected Pig Lung Tissue Reveals Up-Regulation of Bacterial F1-Like ATPase and Down-Regulation of the P102 Cilium Adhesin in vivo.
- Published in:
- Frontiers in Microbiology, 2020, v. 11, p. 1, doi. 10.3389/fmicb.2020.01679
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- Publication type:
- Article
Genome-scale metabolic modeling underscores the potential of Cutaneotrichosporon oleaginosus ATCC 20509 as a cell factory for biofuel production.
- Published in:
- Biotechnology for Biofuels, 2021, v. 14, n. 1, p. 1, doi. 10.1186/s13068-020-01838-1
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- Publication type:
- Article
Author Correction: A protocol for adding knowledge to Wikidata: aligning resources on human coronaviruses.
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- 2023
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- Publication type:
- Correction Notice