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Dr. José A. Arjona-Medina

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Curriculum Vitae

Ausbildung

  • Currently Phd. Student at Johannes Kepler University (JKU), Linz, Austria. Under supervision of Prof. Sepp Hochreiter
  • Doctor by University of Malaga (UMA), Spain. 2017. (Supervisor Prof. Oswaldo Trelles).Doctoral thesisPresentationSlides
  • Master degree on Software Engineering and Artificial Intelligence, UMA, Malaga, Spain. 2013
  • Master degree on Electronics Systems for Intelligent Environments, UMA, Malaga, Spain. 2011
  • Pedagogical Certificate Aptitude, UMA, Malaga, Spain. 2008
  • Technical Telecommunication Engineering, UMA, Malaga, Spain. 2007
  • Professional Intermediate-level Music, Manuel Carra, Malaga, Spain, Esp. Piano. 2007

Auszeichnungen, Preise und Stipendien

  • Doctoral thesis grade: "Sobresaliente Cum laude" and "Mención Europea" honors. Title: "Algorithms and methods for large-scale genome rearrangements identification". 2017
  • Marie Curie Actions fellowship, Industry Academia Partnerships and Pathways (IAPP), MrSymbiomath project. 2014
  • Final Degree Project grade: "Matricula de honor". Title: "Segmentation and 3D reconstruction of bone tissue in medical imaging from computerized axial tomography”. 2007

Beruflicher Werdegang

  • 2016- : present: Research Assistant, Institute of Bioinformatics, Johannes Kepler University, Linz, Austria
  • 2016-2016: Research Assistant, Computer Architecture department. University of Malaga. Bit-Lab Group, Proj: Plataforma tecnógica de Recursos Biomoleculares y Bioinformáticos Málaga, Spain
  • 2014-2016: Research Assistant, RISC Software GmbH, High Performance, Cloud and Symbolic Computing in Big-Data problems applied to mathematical modeling of Comparative genomics (mrSymBioMath), Industry-Academia Partnership and Pathways (IAPP) - Marie Curie Programme-EU. Hagenberg (Linz), Austria
  • 2013-2014: Research Assistant, University of Malaga. Computer Architecture department. Bit- Lab Group, Proj. Red de Investigación de Reacciones Adversas a Alergenos y fármacos (RIRAAF) RD12/0013., Instituto de Salud Carlos III - Programa Redes RETICS. Málaga, Spain
  • 2009-2012: High School Teacher, JUNTA DE ANDALUCIA. Andalucía, Spain

Forschungsthemen

  • Artificial Intelligence
  • Reinforcement Learning
  • Deep Learning
  • Neural Networks
  • Comparative Genomics
  • Bioinformatics Algorithms

Ausgewählte Publikationen

  • (2019) RUDDER: Return Decomposition for Delayed Rewards, José Arjona-Medina*, Michael Gillhofer*, Michael Widrich*, Thomas Unterthiner, Johannes Brandstetter, Sepp Hochreiter. https://arxiv.org/abs/1806.07857 Neural Information Processing Systems (NIPS), (under review).
  • (2016) Refining borders of genome-rearrangements including repetitionsJ. A. Arjona-Medina and O. Trelles, BMC Genomics, 2016, 17(Suppl 8):804. DOI:10.1186/s12864-016-3069-4
  • (2016) Computational workflow for the fine-grained analysis of metagenomic samplesEsteban Pérez-Wohlfeil, José Arjona-Medina, Óscar Torreño-Tirado, Eugenia Ulzurrun, Oswaldo Trelles, BMC Genomics,2016, 17(Suppl 8):802. DOI:10.1186/s12864-016-3063-x
  • (2016) Computational Synteny Block: A framework to identify Evolutionary EventsJose A. Arjona-Medina and Oswaldo Trelles, IEEE Transactions on NanoBioscience, 2016, 15 (4)pp. 1-11.

Konferenzen und Poster

  • Speeding up Semantic Segmentation for Autonomous Driving, Michael Treml*, José Arjona-Medina*, Thomas Unterthiner*, Rupesh Durg esh, Felix Friedmann, Peter Schuberth, Andreas Mayr, Martin Heusel, Markus Hofmarche r, Michael Widrich, Bernhard Nessler, Sepp Hochreiter Machine Learning for Intelligent Transportation Systems, in conjunction withNeural Information Processing Systems (NIPS), 2016
  • Refining borders of genome-rearrangements using repetitionsJ. A. Arjona-Medina and O. Trelles, SolBio International Conference 2016 on "Bioinformatics & Computational Biology for Innovative Genomics” April, 2016. Riviera Maya, MÉXICO.
  • Computational workflow for the fine-grained analysis of metagenomic samplesEsteban Pérez-Wohlfeil, José Arjona-Medina, Óscar Torreño-Tirado, Eugenia Ulzurrun, Oswaldo Trelles, SolBio International Conference 2016 on "Bioinformatics & Computational Biology for Innovative Genomics” April, 2016. Riviera Maya, MÉXICO.
  • GECKO-MGV: Evolution Events driven tool for enhanced visual analysis of multi-genome comparisons, S. Díaz Del Pino, J. A. Arjona-Medina, O. Torreño, S. Benavides and O. Trelles, International Work-Conference on Bioinformatics and Biomedical Engineering IWBBIO 2016. April, 2016. Granada (SPAIN).
  • Computational Synteny Block: A framework to identify Evolutionary Events, Jose A. Arjona-Medina and Oswaldo Trelles, IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2015, pp. 5-12.
  • Experimental Study of Local Alignment Distributions in the Comparison of Large Genomic Sequences, Jose A. Arjona-Medina, Oscar Torreño Tirado, Noura Chelbat and Oswaldo Trelles, ISCB-Latin America x-Meeting on Bioinformatics with BSB & SoiBio. Belo Horizonte, Brazil October 28 - 30, 2014.
  • Software for featuring genome evolution, Jose A. Arjona-Medina, Oscar Torreño Tirado and Oswaldo Trelles, European Conference on Computational Biology, Strasbourgh, France, 7th - 10th of September 2014.
  • Digital Signal Processing applied to the identification of Evolutionary EventsJose A. Arjona-Medina, Oscar Torreño Tirado and Oswaldo Trelles, 4to Congreso Argentino de Bioinformática y Biología Computacional y 4ta Conferencia Internacional de la Sociedad Iberoamericana de Bioinformática (SoIBio).

Book chapters

  • (2019) Explaining and Interpreting LSTMs with LRP. Leila Arras, Jose Arjona-Medina, Michael Widrich, Grégoire Montavon, Michael Gillhofer, Klaus-Robert Müller, Sepp Hochreiter, Wojciech Samek. Book title: Interpretable AI: Interpreting, Explaining and Visualizing Deep Learning. Editor: Wojciech Samek, Grégoire Montavon, Andrea Vedaldi, Lars Kai Hansen, Klaus-Robert Müller. Publisher: Springer Lecture Notes in Computer Science. (to appear 2019)
  • (2019) Visual Scene Understanding for Autonomous Driving using Semantic Segmentation. M. Hofmarcher, T. Unterthiner, J. Arjona-Medina, G. Klambauer, S. Hochreiter, B. Nessler. Book title: Interpretable AI: Interpreting, Explaining and Visualizing Deep Learning. Editor: Wojciech Samek, Grégoire Montavon, Andrea Vedaldi, Lars Kai Hansen, Klaus-Robert Müller. Publisher: Springer Lecture Notes in Computer Science. (to appear 2019)

Lehre

  • (2019) Deep Reinforcement Learning. Johannes Kepler University Linz, Austria.
  • (2019) Exercises in Machine Learning: Unsupervised Techniques. Johannes Kepler University Linz, Austria.
  • (2019) Exercises in Machine Learning: Theoretical Concepts. Johannes Kepler University Linz, Austria.
  • (2016) Practical course on Galaxy, SolBio International Conference 2016 on "Bioinformatics & Computational Biology for Innovative Genomics” April, 2016. Riviera Maya, MÉXICO.
  • (2015) Special Topics in Bioinformatics: Breaking the computational barriers in pairwise genome comparison, Johannes Kepler University. Linz, Austria
  • High School Teacher (2009-2012)

Mitgliedschaften

  • ISCB - International Society for Computational Biology
  • SoIBio - Sociedad Iberoamericana de Bioinformática