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ORCIDJosé P. Faria
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2020 – today
- 2023
[j5]Michael Shaffer
, Mikayla A. Borton, Ben Bolduc, José P. Faria, Rory M. Flynn, Parsa Ghadermazi, Janaka N. Edirisinghe, Elisha M. Wood-Charlson, Christopher S. Miller, Siu Hung Joshua Chan, Matthew B. Sullivan, Christopher S. Henry, Kelly C. Wrighton:
kb_DRAM: annotation and metabolic profiling of genomes with DRAM in KBase. Bioinform. 39(4) (2023)- [j4]Emanuel Cunha, Davide Lagoa, José P. Faria, Filipe Liu, Christopher S. Henry, Oscar Días:
TranSyT, an innovative framework for identifying transport systems. Bioinform. 39(8) (2023) - 2021
- [j3]Samuel M. D. Seaver, Filipe Liu, Qizhi Zhang, James G. Jeffryes, José P. Faria, Janaka N. Edirisinghe, Michael B. Mundy, Nicholas Chia, Elad Noor, Moritz Emanuel Beber, Aaron A. Best, Matthew DeJongh, Jeffrey A. Kimbrel, Patrik D'haeseleer, Sean R. McCorkle, Jay R. Bolton, Erik Pearson, Shane Canon, Elisha M. Wood-Charlson, Robert W. Cottingham, Adam P. Arkin, Christopher S. Henry:
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes (Corrigendum). Nucleic Acids Res. 49(Database-Issue): D1555 (2021) - [j2]Samuel M. D. Seaver, Filipe Liu, Qizhi Zhang, James G. Jeffryes, José P. Faria, Janaka N. Edirisinghe, Michael B. Mundy, Nicholas Chia, Elad Noor, Moritz Emanuel Beber, Aaron A. Best, Matthew DeJongh, Jeffrey A. Kimbrel, Patrik D'haeseleer, Sean R. McCorkle, Jay R. Bolton, Erik Pearson, Shane Canon, Elisha M. Wood-Charlson, Robert W. Cottingham, Adam P. Arkin, Christopher S. Henry:
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes. Nucleic Acids Res. 49(Database-Issue): D575-D588 (2021)
2010 – 2019
- 2019
- [c2]Fernando Cruz, Diogo Lima, José P. Faria, Miguel Rocha, Oscar Días:
Towards the Reconstruction of Integrated Genome-Scale Models of Metabolism and Gene Expression. PACBB 2019: 173-181 - 2014
- [j1]José P. Faria, Ross A. Overbeek, Fangfang Xia, Miguel Rocha, Isabel Rocha, Christopher S. Henry:
Genome-scale bacterial transcriptional regulatory networks: reconstruction and integrated analysis with metabolic models. Briefings Bioinform. 15(4): 592-611 (2014) - 2010
- [c1]José P. Faria, Miguel Rocha, Rick L. Stevens, Christopher S. Henry:
Analysis of the Effect of Reversibility Constraints on the Predictions of Genome-Scale Metabolic Models. IWPACBB 2010: 209-215
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