Líneas de Investigación / Líneas de Trabajo

Me interesan la autogestión y la gobernanza horizontal, creo que se pueden fomentar a través de desarrollo de aplicaciones informáticas. Creo que estas aplicaciones pueden provenir de modelos computacionales que pueden co-crearse con los usuarios y validarse experimentalmente.

 

Formación Académica

Estudié Ingeniería en Cibernética y Sistemas Computacionales en la Universidad La Salle y la Maestría en Ciencias de la Complejidad en la Universidad Autónoma de la Ciudad de México.

Experiencia profesonal

  1. National Laboratory of Sustainability Sciences (LANCIS), Head of Scientific Computing Unit. Mexico City, since 2017
  2. National Institute of Genomic Medicine (INMEGEN), Head of Bioinformatics Department. Mexico City, 2008 - 2016
  3. Informatics and Construction Group (GICSA), Systems architect. Mexico City, 2006 - 2008
  4. Informatics Solution Centre (CSI), Sysadmin, Programmer. Mexico City, 2003 - 2006

Premios y Distinciones

 

Artículos

• Karol Baca-Lopez, Maria D Correa-Rodriguez, Rodrigo Flores-Espinosa, Rodrigo Garcia-Herrera, Claudia I Hernandez-
Armenta, Alfredo Hidalgo-Miranda, Aldo J Huerta-Verde, Ivan Imaz-Rosshandler, Ana V Martinez-Rubio, Alejandra Medina-Escareno, Rodrigo Mendoza-Smith, Mauricio Rodriguez-Dorantes, Ivan Salido-Guadarrama, Enrique Hernandez-Lemus, Claudia Rangel-Escareno, "A 3-state model for multidimensional genomic data integration." Systems Biomedicine 1, no. 2 (2013): 122-129. DOI: 10.4161/sysb.25898

• Siqueiros-García, Jesús M., Enrique Hernández-Lemus, Rodrigo García-Herrera, and Andrea Robina-Galatas. "Mapping the Structure and Dynamics of Genomics-Related MeSH Terms Complex Networks." PloS one 9, no.4 (2014): e92639. DOI: 10.1371/journal.pone.0092639

• Andrés Moreno-Estrada, Christopher R. Gignoux, Juan Carlos Fernández-López, Fouad Zakharia, Martin Sikora, Alejandra V. Contreras, Victor Acuña-Alonzo, Karla Sandoval, Celeste Eng, Sandra Romero-Hidalgo, Patricia Ortiz-Tello, Victoria Robles, Eimear E. Kenny, Ismael Nuño-Arana, Rodrigo Barquera-Lozano, Gastón Macín-Pérez, Julio Granados-Arriola, Scott Huntsman, Joshua M. Galanter, Marc Via, Jean G. Ford, Rocío Chapela, William Rodriguez-Cintron, Jose R. Rodríguez-Santana, Isabelle Romieu, Juan José Sienra-Monge, Blanca del Rio Navarro, Stephanie J. London, Andrés Ruiz-Linares, Rodrigo Garcia-Herrera, Karol Estrada, Alfredo Hidalgo-Miranda, Gerardo Jimenez-Sanchez, Alessandra Carnevale, Xavier Soberón, Samuel Canizales-Quinteros, Héctor Rangel-Villalobos, Irma Silva-Zolezzi, Esteban Gonzalez Burchard, Carlos D. Bustamante, “The genetics of Mexico recapitulates Native American substructure and affects biomedical traits.” Science 344, no. 6189 (2014): 1280-1285. DOI: 10.1126/science.1251688
• Rodrigo García Herrera, “Ver para pensar”, Deveras, revista de ciencia para niños, año 5, no. 25 (2014): 10-11
• Espinal-Enríquez J, Siquieros JM, García-Herrera R and Alcalá-Corona S., “A Literature-Based approach to a Narco-Network.” Social Informatics. 6th International Conference, SocInfo 2014. LNCS. Springer (2014). ISBN
978-3-319-13734-6. DOI: 10.1007/978-3-319-15168-7_13
• Hernández-Lemus, E., Baca-López, K., Lemus, R., García-Herrera, R., “The role of master regulators in gene regulatory networks.” Papers in Physics: Proceedings of the 13th Latin American Workshop on Nonlinear Phenomena (2015). DOI: 10.4279/PIP.070011

• Hugo Tovar-Romero, Rodrigo García-Herrera, Jesús Espinal-Enríquez and Enrique Hernández-Lemus, “Transcriptional master regulators analysis in breast cancer genetic networks.” Computational Biology and Chemistry

(2015). DOI: 10.1016/j.compbiolchem.2015.08.007

• J. Mario Siqueiros-García, Rodrigo García-Herrera, Enrique Hernández-Lemus and Sergio Alcalá-Corona, “A game-theory modeling approach to utility and strength of interactions dynamics in biomedical research social

networks” Complex Adaptive Systems Modeling. (2017) DOI: 10.1186/s40294-017-0044-0
• Sandra Romero-Hidalgo, Adrián Ochoa-Leyva, Alejandro Garcíarrubio, Victor Acuña-Alonzo, Erika Antúnez-Argüelles, Martha Balcazar-Quintero, Rodrigo Barquera-Lozano, Alessandra Carnevale, Fernanda Cornejo-Granados, Juan Carlos Fernández-López, Rodrigo García-Herrera, Humberto García-Ortíz, ángeles Granados-Silvestre, Julio Granados, Fernando Guerrero-Romero, Enrique Hernández-Lemus, Paola León-Mimila, Gastón Macín-Pérez, Angélica Martínez-Hernández, Marta Menjivar, Enrique Morett, Lorena Orozco, Guadalupe Ortíz-López, Fernando Pérez-Villatoro, Javier Rivera-Morales, Fernando Riveros-McKay, Marisela Villalobos-Comparán, Hugo Villamil-Ramírez, Teresa Villarreal-Molina, Samuel Canizales-Quinteros, Xavier Soberón, “Demographic history and biologically relevant genetic variation of Native Mexicans inferred from whole-genome sequencing” , Nature Communications, (2017), DOI:10.1038/s41467-017-01194-z

• Mireya Martínez-García , Magaly Salinas-Ortega, Iván Estrada-Arriaga, Enrique Hernández-Lemus, Rodrigo García-Herrera, Maite Vallejo, “A systematic approach to analyze the social determinants of cardiovascular disease” , PLoS ONE, (2018), DOI:10.1371/journal.pone.0190960

• Baeza-Castro, Andres, Bojorquez, Luis, Janssen, Marco, Eakin, Hallie, Serrano-Candela, Fidel, Gomez, Paola, Miquelajauregui, Yosune, Garcia-Herrera, Rodrigo. “Socio-hydrological Model SESMO Version 1.0.0”, CoMSES Computational Model Library (2019).https://www.comses.net/codebases/c9c25814-775d-435f-a8c8-017404a2130f/releases/1.0.0/
• Tlacaelel Rivera-Núñez, Erin Estrada-Lugo, Luis Garcia-Barrios, Elena Lazos-Chavero, María Amalia Gracia, Mariana Benitez, Rodrigo Garcia-Herrera, Natsuko Rivera-Yodisha. “Peasant micropower in an agrifood supply system of the Sierra Madre of Chiapas, Mexico”, accepted for publication in Journal of Rural Studies (2020).

 

Capítulos de Libro

• E. Hernández-Lemus, J. Espinal-Enríquez, R. García-Herrera, “Handling Big Data in Precision Medicine”, in
“Progress and Challenges in Precision Medicine”, Mukesh Verma, Debmalya Barh, AP-Elsevier, 251-268, (2017).
Paperback ISBN: 9780128094112 eBook ISBN: 9780128095027


Agradecimientos

• Samantha Yong Mendoza. “Expresión genética de Mycobacterium tuberculosis latente dentro de macrófagos humanos”, Tesis de Maestría. 2017. Instituto Politécnico Nacional, Escuela Nacional de Ciencias Biológicas, Programa de biomedicina y biotecnología molecular, Ciudad de México.
• Jesús Espinal-Enríquez, Cristóbal Fresno, Guillermo Anda-Jáuregui & Enrique Hernández-Lemus, “RNA-Seq based genome-wide analysis reveals loss of inter-chromosomal regulation in breast cancer” , Scientific Reports (2017). DOI:10.1038/s41598-017-01314-1
• Diana Drago-García, Jesús Espinal-Enríquez, Enrique Hernández-Lemus, “Network analysis of EMT and MET micro-RNA regulation in breast cancer”, Scientific Reports, (2017) DOI:10.1038/s41598-017-13903-1
• Yosune Miquelajauregui, Steven G. Cumming, Sylvie Gauthier, “Sensitivity of Boreal Carbon Stocks to Fire Return Interval, Fire Severity and Fire Season: A Simulation Study of Black Spruce Forests” , Ecosystems (2018) DOI:10.1007/s10021-018-0287-4
• Josué Barrera-Redondo, Santiago Ramírez-Barahona, Luis E. Eguiarte, “Rates of molecular evolution in tree ferns are associated with body size, environmental temperature, and biological productivity” , Evolution (2018)
DOI:10.1111/evo.13475

• Lakshmi Charli-Joseph, J. Mario Siqueiros-Garcia, Hallie Eakin, David Manuel-Navarrete and Rebecca Shelton, “Promoting agency for social-ecological transformation: a transformation-lab in the Xochimilco social ecological system”, Ecology and Society (2018). DOI:10.5751/ES-10214-230246
• Barajas HR, Romero MF, Martínez-Sánchez S, Alcaraz LD. “Global genomic similarity and core genome sequence diversity of the Streptococcus genus as a toolkit to identify closely related bacterial species in complex
environments.” PeerJ (2019), DOI 10.7717/peerj.6233
• Ricardo Saldana-Meyer, Javier Rodriguez-Hernaez, Mayilaadumveettil Nishana, Karina Jacome-Lopez, Elphege P. Nora, Benoit G. Bruneau, Mayra Furlan-Magaril, Jane Skok, Danny Reinberg, «RNA interactions with CTCF are essential for its proper function», bioRxiv, (2019), DOI:10.1101/530014

 

Conferencias

 

• Geocalle: repositorio web para cartografía participativa de población en situación de calle in "XXII Congreso Nacional SELPER México", 2017, organized by the Latin American Society for Remote Perception and Spatial Information Systems.

• Yosune Miquelajauregui , Erika Danaé López Espinoza, Erika Luna Pérez, Fidel Serrano-Candela , Rodrigo García-Herrera, Luis A. Bojórquez-Tapia, Paola Gómez-Priego, Adolfo Magaldi, «Impacts of future urban growth on the local climate in Mexico City Metropolitan Area: implications for urban socio-hydrological vulnerability», Conference on Complex Systems, Tesalonia, 2018

• E. D. López Espinoza, Y. Miquelajauregui, E. Luna Pérez, F. Serrano Candela, R. García Herrera, L. Bojórquez Tapia, «Estudio numérico de un escenario de crecimiento urbano para el centro de México y su impacto en la
meteorología local», Reunión anual 2018, Unión Geofísica Mexicana, A.C.
• Miguel Romero, Diana Gallego, Jazmin Blaz, Arely Lechuga, Rocío Cruz-Ortega, Francisco Molina, Luis D. Alcaraz. “Rhizospheric microbial communities in mine tailings, a comparison of cultured and uncultured micro-
biomes.” Poster in XII Congreso Nacional de Bioquímica, 2019.

• Cristóbal Hernández Álvarez, Felipe García Oliva, Daniel Piñero Dalmau, Rocío Cruz Ortega, Shamayim Martínez Sánchez, Hugo Barajas de la Torre, Luis D. Alcaraz. “Assesing squash root microbiome along a historical aridity gradient.” Poster in XII Congreso Nacional de Bioquímica, 2019.

 

Software 

 

En el Python Package Index
 

• Pyveplot, SVG Hiveplot Python API.
https://pypi.python.org/project/pyveplot/
• PyVenny, Venn diagram plotting tool.
https://pypi.python.org/project/pyvenny/
• visibility_graph, Python implementation of the Visibility Graph algorythm for the creation of networks from time series.
https://pypi.python.org/project/visibility_graph/
• RugPlot, SVG API for the creation of connected bivariate scatter plots.
https://pypi.python.org/project/rugplot/
• sleuth-automation, an object-oriented API and wrapper scripts for the SLEUTH urban growth model.
https://pypi.python.org/project/sleuth-automation/
• road-agent, framework for agent-based modeling of urban mobility
https://pypi.python.org/project/road-agent/

 

En el QGIS Python Plugins Repository
• Sleuth Inputs, a QGIS plugin that simplifies the preparation of input layers for the SLEUTH urban growth model
https://plugins.qgis.org/plugins/SleuthInputs/