Studying microbial functionality within the gut ecosystem by systems biology

Por Hornung, Bastian, Martins dos Santos, Vitor A. P., Smidt, Hauke, Schaap, Peter J.
Publicado no Genes Nutr (2018)

Reconciliation of Genome-Scale Metabolic Reconstructions for Comparative Systems Analysis

Por Oberhardt, Matthew A., Puchałka, Jacek, Martins dos Santos, Vítor A. P., Papin, Jason A.
Publicado em 2011

Efficient Reconstruction of Predictive Consensus Metabolic Network Models

Por van Heck, Ruben G. A., Ganter, Mathias, Martins dos Santos, Vitor A. P., Stelling, Joerg
Publicado no PLoS Comput Biol (2016)

DMPy: a Python package for automated mathematical model construction of large-scale metabolic systems

Por Smith, Robert W., van Rosmalen, Rik P., Martins dos Santos, Vitor A. P., Fleck, Christian
Publicado no BMC Syst Biol (2018)

Modeling the Metabolic State of Mycobacterium tuberculosis Upon Infection

Por Rienksma, Rienk A., Schaap, Peter J., Martins dos Santos, Vitor A. P., Suarez-Diez, Maria
Publicado no Front Cell Infect Microbiol (2018)

Assessing the Metabolic Diversity of Streptococcus from a Protein Domain Point of View

Por Saccenti, Edoardo, Nieuwenhuijse, David, Koehorst, Jasper J., Martins dos Santos, Vitor A. P., Schaap, Peter J.
Publicado no PLoS One (2015)

Genome-Scale Metabolic Network Analysis of the Opportunistic Pathogen Pseudomonas aeruginosa PAO1

Por Oberhardt, Matthew A., Puchałka, Jacek, Fryer, Kimberly E., Martins dos Santos, Vítor A. P., Papin, Jason A.
Publicado em 2008

Protein domain architectures provide a fast, efficient and scalable alternative to sequence-based methods for comparative functional genomics

Por Koehorst, Jasper J., Saccenti, Edoardo, Schaap, Peter J., Martins dos Santos, Vitor A. P., Suarez-Diez, Maria
Publicado no F1000Res (2017)

Random and cyclical deletion of large DNA segments in the genome of Pseudomonas putida

Por Leprince, Audrey, de Lorenzo, Víctor, Völler, Petra, van Passel, Mark W J, Martins dos Santos, Vitor A P
Publicado em 2012

Identification of a Novel L-rhamnose Uptake Transporter in the Filamentous Fungus Aspergillus niger

Por Sloothaak, Jasper, Odoni, Dorett I., Martins dos Santos, Vitor A. P., Schaap, Peter J., Tamayo-Ramos, Juan Antonio
Publicado no PLoS Genet (2016)

Multi-Level Integration of Environmentally Perturbed Internal Phenotypes Reveals Key Points of Connectivity between Them

Por Benis, Nirupama, Kar, Soumya K., Martins dos Santos, Vitor A. P., Smits, Mari A., Schokker, Dirkjan, Suarez-Diez, Maria
Publicado no Front Physiol (2017)

From correlation to causation: analysis of metabolomics data using systems biology approaches

Por Rosato, Antonio, Tenori, Leonardo, Cascante, Marta, De Atauri Carulla, Pedro Ramon, Martins dos Santos, Vitor A. P., Saccenti, Edoardo
Publicado no Metabolomics (2018)

Regulation of Three Virulence Strategies of Mycobacterium tuberculosis: A Success Story

Por Zondervan, Niels A., van Dam, Jesse C. J., Schaap, Peter J., Martins dos Santos, Vitor A. P., Suarez-Diez, Maria
Publicado no Int J Mol Sci (2018)

Metabolic modeling of energy balances in Mycoplasma hyopneumoniae shows that pyruvate addition increases growth rate

Por Kamminga, Tjerko, Slagman, Simen‐Jan, Bijlsma, Jetta J. E., Martins dos Santos, Vitor A. P., Suarez‐Diez, Maria, Schaap, Peter J.
Publicado no Biotechnol Bioeng (2017)

Predicting the murine enterocyte metabolic response to diets that differ in lipid and carbohydrate composition

Por Sinha, Neeraj, Suarez-Diez, Maria, van Schothorst, Evert M., Keijer, Jaap, Martins dos Santos, Vitor A. P., Hooiveld, Guido J. E. J.
Publicado no Sci Rep (2017)

SAPP: functional genome annotation and analysis through a semantic framework using FAIR principles

Por Koehorst, Jasper J, van Dam, Jesse C J, Saccenti, Edoardo, Martins dos Santos, Vitor A P, Suarez-Diez, Maria, Schaap, Peter J
Publicado no Bioinformatics (2018)

Genome-Scale Reconstruction and Analysis of the Pseudomonas putida KT2440 Metabolic Network Facilitates Applications in Biotechnology

Por Puchałka, Jacek, Oberhardt, Matthew A., Godinho, Miguel, Bielecka, Agata, Regenhardt, Daniela, Timmis, Kenneth N., Papin, Jason A., Martins dos Santos, Vítor A. P.
Publicado em 2008

Persistence of Functional Protein Domains in Mycoplasma Species and their Role in Host Specificity and Synthetic Minimal Life

Por Kamminga, Tjerko, Koehorst, Jasper J., Vermeij, Paul, Slagman, Simen-Jan, Martins dos Santos, Vitor A. P., Bijlsma, Jetta J. E., Schaap, Peter J.
Publicado no Front Cell Infect Microbiol (2017)

More than just a gut feeling: constraint-based genome-scale metabolic models for predicting functions of human intestinal microbes

Por van der Ark, Kees C. H., van Heck, Ruben G. A., Martins Dos Santos, Vitor A. P., Belzer, Clara, de Vos, Willem M.
Publicado no Microbiome (2017)

SyNDI: synchronous network data integration framework

Por Lindfors, Erno, van Dam, Jesse C. J., Lam, Carolyn Ming Chi, Zondervan, Niels A., Martins dos Santos, Vitor A. P., Suarez-Diez, Maria
Publicado no BMC Bioinformatics (2018)