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Vicente Ernesto Acuña Aguayo

Scientist researcher

UNIVERSIDAD DE CHILE

Santiago, Chile

Líneas de Investigación


graph algorithms, enumeration, biological networks, biological sequences, bioinformatics, directed hypergraphs

Educación

  •  Bioinformatics, Université de Lyon. Francia, 2010
  •  Computer Science, Universidad de Chile. Chile, 2004
  •  Ingeniero Civil Matemático, Universidad de Chile. Chile, 2002

Experiencia Académica

  •   Postdoctoral position Full Time

    Université de Lyon

    Lyon, Francia

    2010 - 2011

  •   Postdoctoral position Full Time

    Universidad de Chile

    FCFM

    Santiago, Chile

    2012 - 2013

  •   Scientist researcher Full Time

    Universidad de Chile

    FCFM

    Santiago, Chile

    2013 - At present

Experiencia Profesional

  •   Research engineer Full Time

    CMM, Universidad de Chile

    Santiago, Chile

    2004 - 2005

Formación de Capital Humano


Tutor of Benjamín Ruiz, course of Introduction to Mathematical Modelling (July-December 2014). Center for Mathematical Modeling and Escuela de Ingeniería (Universidad De Chile).

Teaching graduate and postgraduate course "Modeling and Analysis of Biological Networks" (March-July 2014). Doctoral School of Complex Systems (Universidad Adolfo Ibañez) and Escuela de Ingeniería (Universidad De Chile). Jointly with Alejandro Maass and Eric Goles.

Teaching regular course of Probability and Statistics (March-July 2014). Escuela de Ingeniería (Universidad de Chile).

Organization of regular seminar MOAI-Bio (2013-2014). Center for Mathematical Modeling (Universidad de Chile).

Organization of mini course BioASP (2013-2014). Main exposer Santiago Videla. Center for Mathematical Modeling (Universidad de Chile).



 

Article (9)

On Bubble Generators in Directed Graphs

Acuña, Vicente; Grossi, Roberto; Italiano, Giuseppe; Lima, Leandro; Rizzi, Romeo; Sacomoto, Gustavo; Sagot, Marie-France; Sinaimeri, Blerina

Article SCOPUS
Algorithmica  (2019)

Deciphering transcriptional regulations coordinating the response to environmental changes

Acuña V; Aravena, A.; Guziolowski, C; Eveillard D.; Siegel A.; Maass A.

Article ISI SCOPUS
BMC BIOINFORMATICS  (2016)

Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure

Milreu, PV; Klein, CC; Cottret, L.; Acuña V; Birmelé, E.; Borassi, M.; Junot, C.; Marchetti-Spaccamela, A; Marino, A.; Stougie, L; Jourdan F.; Crescenzi, P.; Lacroix, V.; Sagot, MF

Article ISI
BIOINFORMATICS  (2014)

Algorithms and complexity of enumerating minimal precursor sets in genome-wide metabolic networks

Acuña V; Milreu, P.V.; Cottret, L.; Marchetti-Spaccamela, A; Stougie, L; Sagot M.

Article ISI SCOPUS
Bioinformatics  (2012)

Telling stories: Enumerating maximal directed acyclic graphs with a constrained set of sources and targets

Acua V.; Birmel E.; Cottret, L.; Crescenzi, P.; Jourdan F.; Lacroix, V.; Marchetti-Spaccamela, A; Marino, A.; Milreu, P.V.; Sagot, M.-F.; Stougie, L

Article ISI SCOPUS
Theoretical Computer Science  (2012)

A note on the complexity of finding and enumerating elementary modes

Acuña V; Marchetti-Spaccamela, A; Sagot, M.-F.; Stougie, L

Article
BIOSYSTEMS  (2010)

Graph-based analysis of the metabolic exchanges between two co-resident intracellular symbionts, Baumannia cicadellinicola and Sulcia muelleri, with their insect host, Homalodisca coagulata

Cottret, L.; Milreu, P.V.; Acuña V; Marchetti-Spaccamela, A; Stougie, L; Charles, H.; Sagot, M.-F.

Article
PLOS COMPUTATIONAL BIOLOGY  (2010)

Modes and cuts in metabolic networks: Complexity and algorithms

Acuña V; Chierichetti, F.; Lacroix, V.; Marchetti-Spaccamela, A; Sagot, M.-F.; Stougie, L

Article
BIOSYSTEMS  (2009)

Coding with variable block maps

Acuña V; Didier, G; Maass A.

Article ISI SCOPUS
THEORETICAL COMPUTER SCIENCE  (2006)

BookSection (4)

Modeling parsimonious putative regulatory networks: complexity and heuristic approach

Acuña V; Aravena, A.; Maass A.; Siegel A.

BookSection
 (2014)

Enumerating chemical organisations in consistent metabolic networks: Complexity and algorithms

Milreu, P.V.; Acuña V; Birmelé, E.; Crescenzi, P.; Marchetti-Spaccamela, A; Sagot, M.-F.; Stougie, L; Lacroix, V.

BookSection
 (2010)

The biclique k-clustering problem in bipartite graphs and its application in bioinformatics

Acuña V; Ferreira C.E.; Freire A.S.; Moreno E.

BookSection
 (2010)

Enumerating precursor sets of target metabolites in a metabolic network

Cottret, L.; Milreu, P.V.; Acuña V; Marchetti-Spaccamela, A; Martinez, F.V.; Sagot, M.-F.

BookSection
 (2008)

ConferencePaper (1)

Minimum ratio cover of matrix columns by extreme rays of its induced cone

Freire A.S.; Acuña V; Crescenzi, P.; Ferreira C.E.; Lacroix, V.; Milreu, P.V.; Moreno E.; Sagot, M.-F.

ConferencePaper SCOPUS
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)  (2012)

15
Vicente Acuña

Scientist researcher

UNIVERSIDAD DE CHILE

Santiago, Chile

2
Alejandro Maass

Main Researcher

Center for Mathematical Modeling

Universidad de Chile

Santiago, Chile

1
Eduardo Moreno

Full Professor

Faculty of Engineering and Sciences

Universidad Adolfo Ibañez

Peñalolen, Chile