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Diverse control of metabolism and other cellular processes in Streptomyces coelicolor by the PhoP transcription factor: genome-wide identification of in vivo targets.
- Published in:
- Nucleic Acids Research, 2012, v. 40, n. 19, p. 9543, doi. 10.1093/nar/gks766
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- Article
Generation of 2,000 breast cancer metabolic landscapes reveals a poor prognosis group with active serotonin production.
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- Scientific Reports, 2016, p. 19771, doi. 10.1038/srep19771
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- Article
Integrating Kinetic Model of E. coli with Genome Scale Metabolic Fluxes Overcomes Its Open System Problem and Reveals Bistability in Central Metabolism.
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- PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0139507
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- Article
Systems-Based Approaches to Probing Metabolic Variation within the <i>Mycobacterium tuberculosis</i> Complex.
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- PLoS ONE, 2013, v. 8, n. 9, p. 1, doi. 10.1371/journal.pone.0075913
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- Article
Slow Protein Fluctuations Explain the Emergence of Growth Phenotypes and Persistence in Clonal Bacterial Populations.
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- PLoS ONE, 2013, v. 8, n. 1, p. 1, doi. 10.1371/journal.pone.0054272
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- Article
MultiMetEval: Comparative and Multi-Objective Analysis of Genome-Scale Metabolic Models.
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- PLoS ONE, 2012, v. 7, n. 12, p. 1, doi. 10.1371/journal.pone.0051511
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- Article
The Genetic Requirements for Fast and Slow Growth in Mycobacteria.
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- PLoS ONE, 2009, v. 4, n. 4, p. 1, doi. 10.1371/journal.pone.0005349
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- Article
Evaluation of the chicken transcriptome by SAGE of B cells and the DT40 cell line.
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- BMC Genomics, 2004, v. 5, p. 98, doi. 10.1186/1471-2164-5-98
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- Article
Acorn: A grid computing system for constraint based modeling and visualization of the genome scale metabolic reaction networks via a web interface.
- Published in:
- 2011
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- Publication type:
- Product Review
The structure of full‐length LysR‐type transcriptional regulators. Modeling of the full‐length OxyR transcription factor dimer.
- Published in:
- Nucleic Acids Research, 2003, v. 31, n. 5, p. 1444, doi. 10.1093/nar/gkg234
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- Publication type:
- Article
Equation-Free Analysis of Two-Component System Signalling Model Reveals the Emergence of Co-Existing Phenotypes in the Absence of Multistationarity.
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- PLoS Computational Biology, 2012, v. 8, n. 6, p. 1, doi. 10.1371/journal.pcbi.1002396
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- Article
Differential Producibility Analysis (DPA) of Transcriptomic Data with Metabolic Networks: Deconstructing the Metabolic Response of M. tuberculosis.
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- PLoS Computational Biology, 2011, v. 7, n. 6, p. 1, doi. 10.1371/journal.pcbi.1002060
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- Article
Domain organization of activation-induced cytidine deaminase.
- Published in:
- Nature Immunology, 2003, v. 4, n. 12, p. 1153, doi. 10.1038/ni1203-1153
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- Publication type:
- Article
Multi-scale, whole-system models of liver metabolic adaptation to fat and sugar in non-alcoholic fatty liver disease.
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- NPJ Systems Biology & Applications, 2018, v. 4, n. 1, p. N.PAG, doi. 10.1038/s41540-018-0070-3
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- Article
Interrogation of global mutagenesis data with a genome scale model of Neisseria meningitidis to assess gene fitness in vitro and in sera.
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- Genome Biology, 2011, v. 12, n. 12, p. 1, doi. 10.1186/gb-2011-12-12-r127
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- Article
Integration of Omics Data Sources to Inform Mechanistic Modeling of Immune‐Oncology Therapies: A Tutorial for Clinical Pharmacologists.
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- Clinical Pharmacology & Therapeutics, 2020, v. 107, n. 4, p. 858, doi. 10.1002/cpt.1786
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- Article
QSP Designer: Quantitative systems pharmacology modeling with modular biological process map notation and multiple language code generation.
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- CPT: Pharmacometrics & Systems Pharmacology, 2023, v. 12, n. 7, p. 889, doi. 10.1002/psp4.12972
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- Publication type:
- Article
Learn–confirm in model‐informed drug development: Assessing an immunogenicity quantitative systems pharmacology platform.
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- CPT: Pharmacometrics & Systems Pharmacology, 2023, v. 12, n. 2, p. 139, doi. 10.1002/psp4.12887
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- Article
Application of quantitative systems pharmacology to guide the optimal dosing of COVID‐19 vaccines.
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- CPT: Pharmacometrics & Systems Pharmacology, 2021, v. 10, n. 10, p. 1130, doi. 10.1002/psp4.12700
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- Article
A Quantitative Systems Pharmacology Consortium Approach to Managing Immunogenicity of Therapeutic Proteins.
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- CPT: Pharmacometrics & Systems Pharmacology, 2019, v. 8, n. 11, p. 773, doi. 10.1002/psp4.12465
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- Publication type:
- Article
Integration of Genome Scale Metabolic Networks and Gene Regulation of Metabolic Enzymes With Physiologically Based Pharmacokinetics.
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- CPT: Pharmacometrics & Systems Pharmacology, 2017, v. 6, n. 11, p. 732, doi. 10.1002/psp4.12230
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- Publication type:
- Article
The prognostic significance of specific HOX gene expression patterns in ovarian cancer.
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- International Journal of Cancer, 2016, v. 139, n. 7, p. 1608, doi. 10.1002/ijc.30204
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- Article
XQTav: an XQuery processor for Taverna environment.
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- Bioinformatics, 2006, v. 22, n. 10, p. 1280, doi. 10.1093/bioinformatics/btl101
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- Publication type:
- Article
STOCKS: STOChastic Kinetic Simulations of biochemical systems with Gillespie algorithm.
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- Bioinformatics, 2002, v. 18, n. 3, p. 470, doi. 10.1093/bioinformatics/18.3.470
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- Publication type:
- Article
Immunogenicity in Clinical Practice and Drug Development: When is it Significant?
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- CTS: Clinical & Translational Science, 2020, v. 13, n. 2, p. 219, doi. 10.1111/cts.12717
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- Publication type:
- Article
Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification.
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- Microbial Cell Factories, 2010, v. 9, p. 88, doi. 10.1186/1475-2859-9-88
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- Article
Mitochondrial Metabolism in the Spotlight: Maintaining Balanced RNAP III Activity Ensures Cellular Homeostasis.
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- International Journal of Molecular Sciences, 2023, v. 24, n. 19, p. 14763, doi. 10.3390/ijms241914763
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- Article
Lipid metabolism and Type VII secretion systems dominate the genome scale virulence profile of Mycobacterium tuberculosis in human dendritic cells.
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- BMC Genomics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12864-015-1569-2
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- Article
Mycobacterium leprae genomes from a British medieval leprosy hospital: towards understanding an ancient epidemic.
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- BMC Genomics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2164-15-270
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- Publication type:
- Article
Metabolic and evolutionary insights into the closely-related species Streptomyces coelicolor and Streptomyces lividans deduced from high-resolution comparative genomic hybridization.
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- BMC Genomics, 2010, v. 11, n. 1, p. 1, doi. 10.1186/1471-2164-11-682
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- Publication type:
- Article
Metabolic and evolutionary insights into the closely-related species Streptomyces coelicolor and Streptomyces lividans deduced from highresolution comparative genomic hybridization.
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- BMC Genomics, 2010, v. 11, p. 682, doi. 10.1186/1471-2164-11-682
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- Publication type:
- Article
QSSPN: dynamic simulation of molecular interaction networks describing gene regulation, signalling and whole-cell metabolism in human cells.
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- Bioinformatics, 2013, v. 29, n. 24, p. 3181, doi. 10.1093/bioinformatics/btt552
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- Article
CalcTav—integration of a spreadsheet and Taverna workbench.
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- Bioinformatics, 2011, v. 27, n. 18, p. 2618, doi. 10.1093/bioinformatics/btr425
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- Publication type:
- Article
SurreyFBA: a command line tool and graphics user interface for constraint-based modeling of genome-scale metabolic reaction networks.
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- Bioinformatics, 2011, v. 27, n. 3, p. 433, doi. 10.1093/bioinformatics/btq679
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- Article