Dr. Luis L Fonseca, PhD - The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory - Research Scientist

Dr. Luis L Fonseca

PhD

The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory

Research Scientist

Atlanta, GA | United States

Main Specialties: Biology, Biotechnology

Additional Specialties: Biochemistry; Computational Biology

ORCID logohttps://orcid.org/0000-0002-7902-742X


Top Author

Dr. Luis L Fonseca, PhD - The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory - Research Scientist

Dr. Luis L Fonseca

PhD

Introduction

I was trained as a biochemist, and I am familiar with most common biochemical assays. I wrote my
Ph.D. thesis on the elucidation of the metabolism of primary cultures of brain cells (astrocytes and
neurons) and had two postdoctoral positions studying the metabolism of trehalose in Saccharomyces
cerevisiae and the metabolic response to acid stress in Lactococcus lactis. Most of the metabolic studies
were done by NMR (1H, 2H, 7Li, 13C, 15N, 19F, 23Na and 31P) either in vivo (with cells perfused
through or immobilized in the NMR tube) or in vitro (isotopomeric analysis or metabolic flux analysis).
During these postdoctoral positions I changed the focus of my research from the wet-lab to the
computational side to which I now devote all of my research time. My main interest is still on the
fundamental elucidation of cellular metabolism, which I undertake with computational models using both
continuous and discrete frameworks with mechanistic and canonical formulations. I have also been
involved in teaching Computational Systems Biology to undergraduates in biomedical engineering.

Primary Affiliation: The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory - Atlanta, GA , United States

Specialties:

Additional Specialties:

Research Interests:


View Dr. Luis L Fonseca’s Resume / CV

Education

Oct 2009 - Oct 2009
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica
Postdoctoral Fellow
Aug 2007 - Aug 2007
Georgia Institute of Technology
Visiting Schoolar
Wallace H. Coulter Department of Biomedical Engineering
Jan 2000 - Sep 2006
Instituto de Tecnologia Química e Biológica
Ph.D. in Biochemistry
Jan 1993 - Jan 1998
Universidade de Lisboa Faculdade de Ciencias
BS in Biochemistry (Licenciatura)
Chemistry and Biochemistry Department

Experience

May 2012 - Apr 2012
Research Scientist II
Research Scientist
The Wallace H. Coulter Department of Biomedical Engineering
Jan 1998 - Dec 1999
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica
Research Assistant

Publications

36Publications

1288Reads

201Profile Views

190PubMed Central Citations

Analysis of erythrocyte dynamics in Rhesus macaque monkeys during infection with Plasmodium cynomolgi.

Malar J 2018 Nov 6;17(1):410. Epub 2018 Nov 6.

The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, 30332-2000, USA.

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https://malariajournal.biomedcentral.com/articles/10.1186/s1
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http://dx.doi.org/10.1186/s12936-018-2560-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6219197PMC
November 2018
219 Reads
3.110 Impact Factor

A dynamic model of lignin biosynthesis in .

Biotechnol Biofuels 2018 19;11:253. Epub 2018 Sep 19.

1The Wallace H. Coulter, Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, 950 Atlantic Drive, Atlanta, GA 30332-2000 USA.

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http://dx.doi.org/10.1186/s13068-018-1241-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6145374PMC
September 2018
32 Reads
6.044 Impact Factor

Metabolic modeling helps interpret transcriptomic changes during malaria.

Biochim Biophys Acta Mol Basis Dis 2018 Jun 22;1864(6 Pt B):2329-2340. Epub 2017 Oct 22.

Department of Biomedical Engineering, Georgia Tech, Atlanta, GA 30332, USA. Electronic address:

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http://dx.doi.org/10.1016/j.bbadis.2017.10.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5911422PMC
June 2018
19 Reads
1 Citation
4.882 Impact Factor

A Mathematical Model of the Phosphoinositide Pathway.

Sci Rep 2018 03 2;8(1):3904. Epub 2018 Mar 2.

University of Lisbon, Faculty of Sciences, BIOISI: Biosystems and Integrative Sciences Institute. Campo Grande, 1749-016, Lisbon, Portugal.

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http://dx.doi.org/10.1038/s41598-018-22226-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5834545PMC
March 2018
7 Reads
5.080 Impact Factor

Mathematical models of lignin biosynthesis.

Biotechnol Biofuels 2018 9;11:34. Epub 2018 Feb 9.

1The Wallace H. Coulter, Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, 313, Ferst Drive, Atlanta, GA 30332 USA.

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http://dx.doi.org/10.1186/s13068-018-1028-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5806469PMC
February 2018
18 Reads
1 Citation
6.044 Impact Factor

Plasmodium knowlesi: a superb in vivo nonhuman primate model of antigenic variation in malaria.

Parasitology 2018 01 17;145(1):85-100. Epub 2017 Jul 17.

The Wallace H. Coulter Department of Biomedical Engineering,Georgia Institute of Technology and Emory University,Atlanta,Georgia,30332-2000,USA.

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http://dx.doi.org/10.1017/S0031182017001135DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5798396PMC
January 2018
6 Reads
3 Citations
2.560 Impact Factor

A model of Plasmodium vivax concealment based on Plasmodium cynomolgi infections in Macaca mulatta.

Malar J 2017 09 18;16(1):375. Epub 2017 Sep 18.

The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, 950 Atlantic Drive, Suite 2115, Atlanta, GA, 30332-2000, USA.

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http://dx.doi.org/10.1186/s12936-017-2008-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5608162PMC
September 2017
88 Reads
4 Citations
3.110 Impact Factor

Quantifying the removal of red blood cells in Macaca mulatta during a Plasmodium coatneyi infection.

Malar J 2016 08 12;15(1):410. Epub 2016 Aug 12.

The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA.

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http://dx.doi.org/10.1186/s12936-016-1465-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4983012PMC
August 2016
172 Reads
8 Citations
3.110 Impact Factor

Analysis of the Involvement of Different Ceramide Variants in the Response to Hydroxyurea Stress in Baker's Yeast.

PLoS One 2016 19;11(1):e0146839. Epub 2016 Jan 19.

Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0146839PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4718512PMC
July 2016
8 Reads
1 Citation
3.234 Impact Factor

Dynamic models of the complex microbial metapopulation of lake mendota.

NPJ Syst Biol Appl 2016 24;2:16007. Epub 2016 Mar 24.

Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA, USA.

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http://dx.doi.org/10.1038/npjsba.2016.7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5516861PMC
March 2016
7 Reads
4 Citations

New insights into the complex regulation of the glycolytic pathway in Lactococcus lactis. II. Inference of the precisely timed control system regulating glycolysis.

Mol Biosyst 2016 Jan;12(1):37-47

Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA.

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http://dx.doi.org/10.1039/c5mb00726gDOI Listing
January 2016
5 Reads
4 Citations

New insights into the complex regulation of the glycolytic pathway in Lactococcus lactis. I. Construction and diagnosis of a comprehensive dynamic model.

Mol Biosyst 2016 Jan 26;12(1):23-36. Epub 2015 Nov 26.

Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA.

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http://dx.doi.org/10.1039/c5mb00331hDOI Listing
January 2016
10 Reads
4 Citations

Comparison of mathematical frameworks for modeling erythropoiesis in the context of malaria infection.

Math Biosci 2015 Dec 8;270(Pt B):224-36. Epub 2015 Sep 8.

The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, 950 Atlantic Drive, Atlanta, GA 30332-2000, USA. Electronic address:

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http://dx.doi.org/10.1016/j.mbs.2015.08.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4679698PMC
December 2015
13 Reads
8 Citations
1.303 Impact Factor

Computational inference of the structure and regulation of the lignin pathway in Panicum virgatum.

Biotechnol Biofuels 2015 17;8:151. Epub 2015 Sep 17.

The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, 313, Ferst Drive, Atlanta, GA 30332 USA ; BioEnergy Sciences Center (BESC), Oak Ridge National Lab, Oak Ridge, TN USA.

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http://dx.doi.org/10.1186/s13068-015-0334-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4574612PMC
September 2015
34 Reads
4 Citations
6.044 Impact Factor

Dynamics of the Heat Stress Response of Ceramides with Different Fatty-Acyl Chain Lengths in Baker's Yeast.

PLoS Comput Biol 2015 Aug 4;11(8):e1004373. Epub 2015 Aug 4.

Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1004373DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4524633PMC
August 2015
10 Reads
2 Citations

Carbon flux analysis by 13C nuclear magnetic resonance to determine the effect of CO2 on anaerobic succinate production by Corynebacterium glutamicum.

Appl Environ Microbiol 2014 May 7;80(10):3015-24. Epub 2014 Mar 7.

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Oeiras, Portugal.

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http://dx.doi.org/10.1128/AEM.04189-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4018904PMC
May 2014
22 Reads
7 Citations
3.670 Impact Factor

Coordination of rapid sphingolipid responses to heat stress in yeast.

PLoS Comput Biol 2013 30;9(5):e1003078. Epub 2013 May 30.

Integrative BioSystems Institute and Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia, USA.

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http://dx.doi.org/10.1371/journal.pcbi.1003078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3667767PMC
March 2014
12 Reads
6 Citations

23Na multiple quantum filtered NMR characterisation of Na+ binding and dynamics in animal cells: a comparative study and effect of Na+/Li + competition.

Eur Biophys J 2013 Jul 6;42(7):503-19. Epub 2013 Apr 6.

Health Sciences Research Centre, University of Beira Interior, 6200-506 Covilhã, Portugal.

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http://dx.doi.org/10.1007/s00249-013-0899-8DOI Listing
July 2013
14 Reads
1 Citation
2.220 Impact Factor

Canonical modeling of the multi-scale regulation of the heat stress response in yeast.

Metabolites 2012 Feb 27;2(1):221-41. Epub 2012 Feb 27.

Integrative BioSystems Institute and The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, 313 Ferst Drive, Suite 4103, Atlanta, GA 30332, USA.

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http://dx.doi.org/10.3390/metabo2010221DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3901190PMC
February 2012
24 Reads
6 Citations

The glucose/xylose facilitator Gxf1 from Candida intermedia expressed in a xylose-fermenting industrial strain of Saccharomyces cerevisiae increases xylose uptake in SSCF of wheat straw.

Enzyme Microb Technol 2011 May 9;48(6-7):518-25. Epub 2011 Mar 9.

Centro de Recursos Microbiológicos (CREM), Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal.

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http://dx.doi.org/10.1016/j.enzmictec.2011.02.010DOI Listing
May 2011
10 Reads
7 Citations
2.322 Impact Factor

Statistical inference methods for sparse biological time series data.

BMC Syst Biol 2011 Apr 25;5:57. Epub 2011 Apr 25.

Department of Bioinformatics and Biostatistics, School of Public Health and Information Sciences, University of Louisville, Louisville, KY 40202, USA.

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http://dx.doi.org/10.1186/1752-0509-5-57DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3114728PMC
April 2011
17 Reads
2 Citations
2.440 Impact Factor

Complex coordination of multi-scale cellular responses to environmental stress.

Mol Biosyst 2011 Mar 18;7(3):731-41. Epub 2010 Nov 18.

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, 2780-156 Oeiras, Portugal.

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http://dx.doi.org/10.1039/c0mb00102cDOI Listing
March 2011
24 Reads
13 Citations

Estimation of metabolic pathway systems from different data sources.

IET Syst Biol 2009 Nov;3(6):513-22

Georgia Institute of Technology, Integrative BioSystems Institute and The Wallace H. Coulter Department of Biomedical Engineering, Atlanta, USA.

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http://dx.doi.org/10.1049/iet-syb.2008.0180DOI Listing
November 2009
9 Reads
9 Citations
1.060 Impact Factor

The turnover of the H3 deuterons from (2-13C) glutamate and (2-13C) glutamine reveals subcellular trafficking in the brain of partially deuterated rats.

J Neurochem 2009 May;109 Suppl 1:63-72

Laboratory for Imaging and Spectroscopy by Magnetic Resonance LISMAR, Instituto de Investigaciones Biomédicas Alberto Sols CSIC/UAM, Madrid, Spain.

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http://dx.doi.org/10.1111/j.1471-4159.2009.05962.xDOI Listing
May 2009
83 Reads
1 Citation
4.281 Impact Factor

Characterization of the individual glucose uptake systems of Lactococcus lactis: mannose-PTS, cellobiose-PTS and the novel GlcU permease.

Mol Microbiol 2009 Feb 1;71(3):795-806. Epub 2008 Dec 1.

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Rua da Quinta Grande 6, Oeiras, Portugal.

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http://dx.doi.org/10.1111/j.1365-2958.2008.06564.xDOI Listing
February 2009
17 Reads
22 Citations
4.420 Impact Factor

Role of periplasmic trehalase in uptake of trehalose by the thermophilic bacterium Rhodothermus marinus.

J Bacteriol 2008 Mar 11;190(6):1871-8. Epub 2008 Jan 11.

Instituto Tecnologia Química e Biológica/UNL, Rua da Quinta Grande 6, 2780-156 Oeiras, Portugal.

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http://dx.doi.org/10.1128/JB.01616-07DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2258883PMC
March 2008
16 Reads
2.810 Impact Factor

Kinetic properties of the redox switch/redox coupling mechanism as determined in primary cultures of cortical neurons and astrocytes from rat brain.

J Neurosci Res 2007 Nov;85(15):3244-53

Laboratory for Imaging and Spectroscopy by Magnetic Resonance LISMAR, Instituto de Investigaciones Biomédicas Alberto Sols CSIC/UAM, Madrid, Spain.

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http://dx.doi.org/10.1002/jnr.21386DOI Listing
November 2007
9 Reads
7 Citations
2.594 Impact Factor

The redox switch/redox coupling hypothesis.

Neurochem Int 2006 May-Jun;48(6-7):523-30. Epub 2006 Mar 10.

Laboratory for Imaging and Spectroscopy by Magnetic Resonance LISMAR, Institute of Biomedical Research Alberto Sols, c/Arturo Duperier 4, E-28029 Madrid, Spain.

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http://dx.doi.org/10.1016/j.neuint.2005.12.036DOI Listing
June 2006
57 Reads
40 Citations
3.092 Impact Factor

Cultures of rat astrocytes challenged with a steady supply of glutamate: new model to study flux distribution in the glutamate-glutamine cycle.

Glia 2005 Sep;51(4):286-96

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Oeiras, Portugal.

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http://dx.doi.org/10.1002/glia.20209DOI Listing
September 2005
14 Reads
7 Citations
6.031 Impact Factor

Culturing primary brain astrocytes under a fully controlled environment in a novel bioreactor.

J Neurosci Res 2005 Jan 1-15;79(1-2):26-32

Instituto de Biologia Experimental e Tecnológica/Instituto de Tecnologia Química e Biológica (IBET/ITQB), 2781-901 Oeiras, Portugal.

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http://dx.doi.org/10.1002/jnr.20279DOI Listing
March 2005
8 Reads
4 Citations
2.594 Impact Factor

Effect of ethanol on the metabolism of primary astrocytes studied by (13)C- and (31)P-NMR spectroscopy.

J Neurosci Res 2001 Dec;66(5):803-11

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Rua de Quinta Grande, 6, 2780-156 Oeiras, Portugal.

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http://dx.doi.org/10.1002/jnr.10039DOI Listing
December 2001
276 Reads
3 Citations
2.594 Impact Factor

NMR studies on energy metabolism of immobilized primary neurons and astrocytes during hypoxia, ischemia and hypoglycemia.

NMR Biomed 2000 Dec;13(8):438-48

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Oeiras, Portugal.

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http://dx.doi.org/10.1002/nbm.665DOI Listing
December 2000
7 Reads
3 Citations
3.044 Impact Factor