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Contact Information

Ramon Betancourt 342                                                                        Cell phone: (52) (312) 1442079
Villa de Álvarez, Colima 28984                                                           Email:



Undergaduate Program on Genomic Sciences

National Autonomous University of Mexico (UNAM)

Av. Universidad
Cuernavaca, Morelos 62100

Laboratory Experience

Sep 2015June 2016

Pablo Meyer - IBM Computational Biology Center

Computational Systems Biology


Duties included:

  • Reproducing the metabolic model of Karp, P. D. et al (2014). A genome-scale metabolic flux model of Escherichia coli K–12 derived from the EcoCyc database.
  • Studying  Enzyme localization in the context of FBA model of   Escherichia coli.
  • Constructing the Transcription Factor - Enzyme network using metabolic and gene regulatory data.
  • Developing a Bacillus subtilis model that integrates metabolism and transcriptional regulation.
  • Running multiple simulations of the previous model to compare the simulated results with experimental data.
  • Studying Enzyme localization in the context of the  metabolic model of  Bacillus subtilis.

Skills developed:

  • Using and Retrieving metabolic data from Pathway Genome Data Bases.
  • Developing parsing tools (Perl and Python) to clean and manage metabolic and regulatory data.
  • Using Pathway Tools software (a systems biology software) to retrieve metabolic data.
  • Using linear programming software in R.
  • Acquiring more in-depth understanding about Flux Balance Analysis (FBA).
  • Managing metabolic tools in Matlab (Cobra toolbox) and Python (Cobrapy).
  • Using tools derived from FBA:  pFBA,  FVA,  Mapping fluxes.
  • Developing python software to construct a metabolic + transcriptional regulation model.
  • Using Cytoscape.
  • Acquiring statistical skills and using statistical libraries (Fisher Test, Pearson correlation, Linear regression).
Sep 2014Jun 2015

Rafael Peña-Miller lab - Center for Genomics Sciences

Microbial Systems Biology


Duties included:

  • Programming an ODE-based model that describes plasmid dynamics in a bacterial population under different treatments of antibiotics.
  • Programming a numerical method (Bisection method) to find the rate of horizontal gene transfer that makes a plasmid persist without antibiotics.
  • Developing an application of the Gillespie Algorithm to study the growth of bacterial population in a chemostat.
  • Improving speed of the previous algorithm adapting it to the tau-leap method.
  • (In progress) Studying machine learning algorithms and try to predict the optical density of a bacterial population at the end of the day, using experimental data (13 days and different treatments with antibiotics).

Skills developed:

  • R programming.
  • Programming a numerical method to solve a biological problem.
  • Developing an application of the Gillespie Algorithm.
  •  Using Knn algorithm as machine-learning algorithm.


1. Rafael Peña-Miller, Rogelio Rodríguez-González, Craig R MacLean and Alvaro San Millan (2015). "Evaluating the effect of horizontal transmission on the stability of plasmids under different selection regimes". Mobile Genetics Elements.

 Programming Skills


Academic Interests

  • Whole-Cell Modelling
  • Evolution
  • Computational science
  • Developing biological software
  • Cell-to-Cell communication
  • Systems Biology
  • Learning different Mathematical formalisms
  • Parallel computing
  • Machine learning

Extracurricular activities

  • XVI Autumn School and X National Meeting of Mathematical Biology.

             Scholarship holder.

             UNAM Science Faculty,  Juriquilla, Querétaro Campus.      November 2014


  • Symposium "The Major Transitions In Evolution".


          Mexico City.                                                                                                    March 2015    

  • RECOMB/ISCB Conference on Regulatory and Systems Genomics, with Dream Challenges.


    Philadelphia, Pennsylvania.                                                                     November  2015


  • English

           Speak: Intermediate level.

           Read/Write: high proficiency.

  • Spanish

          Native language.

Personal Interests

  • Play Soccer
  • Play Basketball
  • Reading
  • Listen to music
  • Walk and Explore
  • Biking