Humberto Ortiz Zuazaga

Department of Computer Science
Rio Piedras Campus
University of Puerto Rico
PO Box 70377
San Juan, PR 00936 8377
Tel (787) 764-0000 x7430
humberto.ortiz@upr.edu

and

High Performance Computing facility
University of Puerto Rico
PO Box 23334
San Juan, PR 00931-3334
humberto@hpcf.upr.edu

Degrees

PhD, Computer Science and Engineering, 2008, University of Puerto Rico.
BS (computer science) with honors 1994, University of Cincinnati.

Additional Education

University of Puerto Rico, Rio Piedras campus
undergraduate work in chemistry, 1983-1987.
University of California , Berkeley
graduate and undergraduate work in computer science, 1995.
University of Texas at San Antonio
graduate work towards a Master's degree in computer science, 1995-1996.

Experience

Undergraduate research student
Department of Pharmacology, University of Puerto Rico, 1986-1987. Characterized the biochemical properties of potential anti-cancer agents.
Research assistant
Institute of Neurobiology, University of Puerto Rico, 1988-1989. Data acquisition and analysis of electrophysiological experiments.
Consultant
Phaedrus Computer Consultants, San Juan, Puerto Rico, 1988. Taught microcomputer applications.
Consultant
Medical Sciences Campus, University of Puerto Rico, 1989. Taught introductory and intermediate BITNET usage.
Research assistant
Department of Physiology and Biophysics, University of Cincinnati, 1989-1993. Developed and studied computer simulations of action potential propagation across cell membranes.
Research assistant
Department of Computer Science, University of Cincinnati, 1993. Developed and implemented distributed algorithms to solve conjunctive normal form instances of satisfiability as part of a DIMACS implementation challenge.
Undergraduate research student
Center for GeoEnvironmental Science and Technology, College of Engineering, University of Cincinnati, 1993. Preliminary work integrating GRACE, a program for visualization of groundwater contamination, with ARC/Info, a geographical information system.
Research Associate
University of Cincinnati, 1994-1995. Worked porting GRACE to UNIX, integrating GRACE with GRASS, the US Army Corps of Engineers geographical information system.
Systems administrator
Silicon Graphics Inc., 1995. Technical support and system administration for SGI Employees.
Teaching assistant
University of Texas at San Antonio, 1995. Lectured in two microcomputer applications courses.
Technical staff assistant
University of Texas at San Antonio, 1995. Developed neural networks to classify features in fetal heart rate recordings.
Programmer analyst
University of Texas Health Science Center at San Antonio, 1995-1998. Develop and implement algorithms for constructing genetic maps and radiation hybrid maps from hybridization data.
Consultant
University of Puerto Rico, Rio Piedras Campus, 1998. Developed WWW based sequence analysis tools, established Internet sequence analysis server, and taught workshops on Internet use and sequence analysis.
Consultant
Datacom Caribe Inc., 1998. System administration tasks on BSDI UNIX computers. Developed CGI applications.
Bioinformatics Specialist
University of Puerto Rico, Medical Sciences Campus, Institute of Neurobiology, March 1998 to December 1999. Install and maintain TCP/IP based LAN and network servers for researchers. Assist researchers in computer analysis of results.
Visualization Specialist
University of Puerto Rico, High Performance Computing facility, January 2000 to July 2006. TCP/IP based LAN and network server administration. Programming data vizualization and analysis applications.
Director
Bioinformatics Resource Center, University of Puerto Rico, since August 2006. Manage and direct the operations of the Bioinformatics Resource Center (BiRC) at the UPR High Performance Computing facility.
Acting Director
High Performance Computing facility, University of Puerto Rico, November 2006 to May 2008. Direct operations and manage staff at the UPR HPCf, including the Internet2 GigaPOP, the BiRC, and the Center for Numerical Supercomputing.
Director
High Performance Computing facility, University of Puerto Rico, since May 2008. Direct operations and manage staff at the UPR HPCf, including the Internet2 GigaPOP, the BiRC, and the Center for Numerical Supercomputing and Computational Nanoscience Resource Center (CNaRC).
Assistant Professor
Department of Computer Science, Rio Piedras Campus, University of Puerto Rico, since January 21, 2010.
Adjunct Professor
Deanship for Academic Affairs, Medical Sciences Campus, University of Puerto Rico, since January 21, 2010.

Honors

University of Cincinnati, William McIntire Memorial Scholarship, 1993.

Memberships

University of Cincinnati student chapter of the Association for Computing Machinery, secretary, 1993.

Patents

US 2011/0093206 A1
Patent application: METHODS, SYSTEMS, AND PRODUCTS FOR QUANTITATIVELY MEASURING THE DEGREE OF CONCORDANCE BETWEEN OR AMONG MICROARRAY PROBE LEVEL DATA SETS. Cheung; Philip; (San Diego, CA) ; Tully; Timothy P.; (Solana Beach, CA) ; Ortiz-Zuazaga; Humberto; (San Juan, PR) ; Moreno; Oscar; (Rio Piedras, PR). April 21, 2011.

Publications

  1. N. Sperelakis, H. Ortiz-Zuazaga, and J. B. Picone. Fast conduction in the electric field model for propagation in cardiac muscle. Innov. et Tech. en Biol. et Med., 12(4):404-414, 1991.

  2. N. Sperelakis, H. Ortiz-Zuazaga, J. E. Mann, Jr. Voltage interaction between sarcolemma and junctional SR membrane. Mathl. Comput. Modelling, 16(11):101-115, 1992.

  3. G. Sfyris, N. Sperelakis, H. Ortiz-Zuazaga, J. B. Picone, and E. Stepp. Length constant as a function of intercellular coupling of a cardiac muscle strand analog with applied longitudinal current. Mathl. Comput. Modelling, 17(1):131-139, 1993.

  4. Y. Robles, P. E. Vivas, H. G. Ortiz-Zuazaga, Y. Felix, S. Peña de Ortiz. Hippocampal gene expression profiling in spatial learning. Neurobiology of Learning and Memory. 2003 Jul;80(1):80-95. doi: 10.1016/S1074-7427(03)00025-X

  5. Rojas-Cartagena C, Ortiz-Pineda PA, Ramirez-Gomez F, Suarez-Castillo EC, Matos-Cruz V, Rodriguez C, Ortiz-Zuazaga H, Garcia-Arraras JE. Distinct profiles of expressed sequence tags (ESTs) during intestinal regeneration in the sea cucumber Holothuria glaberrima. Physiol Genomics. 2007 Jul 3; doi: 10.1152/physiolgenomics.00228.2006

  6. Filipa Godoy-Vitorino, Ruth E. Ley, Zhan Gao, Zhiheng Pei, Humberto Ortiz-Zuazaga, Luis R. Pericchi, Maria A. Garcia-Amado, Fabian Michelangeli, Martin J. Blaser, Jeffrey I. Gordon, Maria G. Dominguez-Bello. Bacterial Community in the Crop of the Hoatzin, a Neotropical Folivorous Flying Bird. Applied and Environmental Microbiology, October 2008, p. 5905-5912, Vol. 74, No. 19. doi: 10.1128/AEM.00574-08

  7. Nancy Arroyo Gonzalez, Adrinel Vázquez, Humberto G. Ortiz Zuazaga, Arup Sen, Hugo Luna Olvera, Sandra Peña de Ortiz and N. S. Govind. Genome-wide expression profiling of the osmoadaptation response of Debaryomyces hansenii. Yeast 2009. 26:111-124. doi: 10.1002/yea.1656

  8. Lorena Saavedra-Rodríguez, Humberto Ortiz-Zuazaga, Lissette Andrés, Karen Rodríguez, Fernando Ramírez, Adrinel Vázquez, and Sandra Peña de Ortiz. Identification of flap-structure specific endonuclease 1 as a factor involved in long-term memory formation of aversive learning. Journal of Neuroscience, May 2009. 29(18):5726-5737 doi: 10.1523/JNEUROSCI.4033-08.2009

  9. Pablo A Ortiz-Pineda, Francisco J Ramírez-Gómez, Judit Pérez-Ortiz, Sebastián González-Díaz, Francisco Santiago-De Jesús, Josue Hernández-Pasos, Carmencita Rojas-Cartagena, Edna C Suárez-Castillo, Karen Tossas-Robles, Ana T Méndez-Merced, José L Roig-López, Cristina Del Valle-Avila, Humberto Ortiz-Zuazaga and José E García-Arrarás. Gene expression profiling of intestinal regeneration in the sea cucumber. BMC Genomics 10:262, 8 June 2009. doi: 10.1186/1471-2164-10-262

  10. Leah J. Campbell, Edna C. Suárez-Castillo, Humberto Ortiz-Zuazaga, Dunja Knapp, Elly M. Tanaka, Craig M. Crews. Gene Expression Profile of the Regeneration Epithelium during Axolotl Limb Regeneration. Developmental Dynamics, 240(7):1826-1840. July 2011. doi: 10.1002/dvdy.22669

Refereed Proceedings

  1. F. S. Annexstein, J. V. Franco, H. Ortiz-Zuazaga, and R. P. Swaminathan. Distributed implementations of algorithms for satisfiability problems. Ohio Aerospace Institute / Ohio Supercomputer Center / NASA, Proceedings of Symposium on Application of Parallel and Distributed Computing, April 18-19, 1994.

  2. H. Ortiz-Zuazaga and R. Plaetke. TkMap: a bioTk program for drawing genetic or radiation hybrid maps. Abstract presented at American Society for Human Genetics 46th Annual Meeting. October 1996.

  3. R. Plaetke, B.E. Reus, R. Linn, R. Rodriguez, H. Ortiz-Zuazaga, D. Buley, P. O'Connell, S.L. Naylor, and R.J. Leach. A radiation hybrid map of human chromosome 3 consisting of 153 markers. Abstract presented at American Society for Human Genetics 46th Annual Meeting. October 1996.

  4. G. Schachtel, H. Ortiz-Zuazaga, and R. Plaetke. BPE: an environment for meiotic breakpoint mapping. Abstract presented at American Society for Human Genetics 46th Annual Meeting. October 1996.

  5. H. Ortiz-Zuazaga, and R. Plaetke. Screening genetic markers with the maximum weighted clique method. Abstract presented at the First International Conference on Computational Molecular Biology. Albuquerque, NM, January 1997.

  6. H. Ortiz-Zuazaga, and R. Plaetke. Screening genetic markers with the maximum weighted clique method. Abstract presented at Genome Mapping and Sequencing. Cold Spring Harbor, May 1997.

  7. S.L. Naylor, R. Plaetke, H. Ortiz-Zuazaga, P. O'Connell, B. Reus, X. He, R. Linn, S. Wood, and R.J. Leach. Construction of Framework and Radiation Hybrid Maps of Chromosomes 3 and 8. Abstract presented at Genome Mapping and Sequencing. Cold Spring Harbor, NY, May 1997.

  8. H.G. Ortiz-Zuazaga, Y. Robles, R. Chiesa, S. Peña de Ortiz. Analysis of Learning-Related Changes in Gene Expression Using Nylon Membrane cDNA Microarrays. Abstract presented at the Fifth Annual International Conference on Computational Molecular Biology (RECOMB 2001). Montreal, Quebec, Canada. April 2001.

  9. Ortiz-Zuazaga, H., Aviño-Diaz, M. A., Laubenbacher, R., Moreno O. Finite fields are better Booleans. Refereed abstract, presented at the Seventh Annual Conference on Computational Molecular Biology (RECOMB 2003), April 10-13, 2003, Germany.

  10. Edna C. Suárez-Castillo, Humberto Ortiz-Zuazaga, Josué Hernández-Pasos, José E. García-Arrarás. Microarray analysis of the sea cucumber intestinal regeneration process. Developmental Biology, Volume 306, Issue 1, 1 June 2007, Pages 379-380. doi: 10.1016/j.ydbio.2007.03.351

  11. Humberto Ortiz-Zuazaga, Sandra Peña de Ortiz, Oscar Moreno de Ayala. Error Correction and Clustering Gene Expression Data Using Majority Logic Decoding. Proceedings of The 2007 International Conference on Bioinformatics and Computational Biology (BIOCOMP'07), Las Vegas, Nevada, June 25-28, 2007.

  12. Humberto Ortiz Zuazaga, Tim Tully, Oscar Moreno. Majority logic decoding for probe-level microarray data. Proceedings of BIOCOMP'08 - The 2008 International Conference on Bioinformatics & Computational Biology, Las Vegas, Nevada, July 13-17, 2008.

  13. Humberto Ortiz-Zuazaga, Roberto Arce-Corretjer. Majority logic decoding: a discrete method for detecting differential expression in RNA-Seq data. Proceedings of BIOCOMP'13: The 14th International Conference on Bioinformatics and Computational Biology. July 22-25, 2013, Las Vegas, Nevada, USA.

Conferences

  1. F. S. Annexstein, J. V. Franco, H. Ortiz-Zuazaga, and R. P. Swaminathan. Distributed implementations of algorithms for satisfiability problems. Poster presentation at Second DIMACS Challenge: Cliques, Coloring and Satisfiability, October 1993.

  2. H. Ortiz-Zuazaga, B. Rosen, T. Bylander, D. Soriano, and B. Schrifrin. Training a Neural Network to Recognize Artifacts and Decelerations in Cardiotocograms. Extended Abstract presented at AAAI AIM-96. March 1996.

  3. Y. Robles, Y.Carrasquillo, S.I. Vázquez, H.G. Ortiz- Zuazaga and Sandra Peña de Ortiz. Profiling of hippocampal gene expression in spatial learning with cDNA microarrays. Abstract presented at the Society for Neuroscience annual meeting. New Orleans, LA, November 2000.

  4. I. Chevere, S. Joselyn, S. Kida Y. Robles, H.G. Ortiz-Zuazaga, A.J. Silva, and S. Peña de Ortiz. Establishment of a CREB-Dependent Gene Expression Profile for Emotional Memory. Abstract presented at the Society for Neuroscience annual meeting. New Orleans, LA, November 2000.

  5. R. Chiesa, H. Ge, J. Wehner, H.G. Ortiz-Zuazaga, and S. Peña de Ortiz. Analysis of Gene Expression in Emotional Learning. Abstract presented at the Society for Neuroscience annual meeting. New Orleans, LA, November 2000.

  6. R. Chiesa, H.G. Ortiz-Zuazaga, H. Ge, and S. Peña de Ortiz. Gene Expression Profiling in Emotional learning with cDNA Microarrays. Abstract presented at the 40th meeting of the American Society for Cell Biology. San Francisco, California. December 2000.

  7. Ortiz-Zuazaga HG, Robles Y, Chiesa, R, and Peña de Ortiz S. Analysis of Learning-Related Changes in Gene Expression Using Nylon Membrane cDNA Microarrays. International Meeting of the Society for Neurochemistry, Buenos Aires Argentina, 2001.

  8. Al-Banchaabouchi M, Colón WI, Ge H, Ortiz-Zuazaga HG, Menéndes R, Maldonado-Vlaar CS, Peña de Ortiz S. Expression and function of the hzf-3 gene in neurocognitive processes in the rat brain. Federation of European Neuroscience Forum Abstract, 041.7, 2002.

  9. Vázquez A, Araneda S., Ortiz-Zuazaga HG, and Peña de Ortiz S. Molecular mechanisms of lead (Pb+2)-mediated long-term memory (LTM) impairment in the adult rat brain. Federation of European Neuroscience Forum Abstract, 041.34, 2002.

  10. Julio García, Humberto Ortiz Zuazaga, Ricardo Chiesa, and Sandra Peña de Ortiz. Cluster analysis of cDNA microarrays. Poster presented at the BRIN-PR 1st Annual Symposium: Biotechnology and Modern Medicine, October 11, 2002 San Juan Puerto Rico.

  11. Oscar Moreno (UPR-Río Piedras) Maria Alicia Aviñó (UPR-Cayey) Dorothy Bollman (UPR-Mayaguez) Humberto Ortiz-Zuazaga (UPR HPCf). The Reverse Engineering Problem in Genetic Networks. Invited talk, presented at the BRIN-PR 1st Annual Symposium: Biotechnology and Modern Medicine, October 11, 2002 San Juan Puerto Rico.

  12. Weaving the Research Web in a Minority Institution. Conde JG, Fernández-Repollet E, Agostini M, Nieves BG, Cormier G, Ortiz-Zuazaga H, Cabán-Babilonia W, Vélez E and Spann ML. Eighth RCMI International Symposium on Health Disparities, December 8 - 11, 2002, Sheraton Waikiki Hotel, Honolulu, Hawaii

  13. L. Saavedra, H. G. Ortiz-Zuazaga, F. Ramírez, & S. Peña de Ortiz. Molecular Profiling of Memory Consolidation in Condition Taste Aversion. Keystone Symposia 2005, Session X3: Proteomics and Bioinformatics. Keystone, Colorado, April 8-13, 2005.

  14. L. Saavedra, H.G. Ortiz-Zuazaga, F. Ramírez, S. Peña de Ortiz. Molecular Profiling of Memory Consolidation of Conditioned Taste Aversion (CTA): DNA recombination pathways. Program No. 69.3. 2005 Abstract Viewer/Itinerary Planner. Washington, DC: Society for Neuroscience, 2005. Online.

  15. A. Vazquez, M. Sepulveda, J. Wang, L. Saavedra, H.G. Ortiz-Zuazaga, G. Quirk, S. Peña de Ortiz. Gene expression profiling of auditory fear extinction in the rat medial prefrontal cortex. Program No. 316.14. 2005 Abstract Viewer/Itinerary Planner. Washington, DC: Society for Neuroscience, 2005. Online.

  16. Godoy-Vitorino, Filipa, Gao, Z., Pei Z., Zhou M., Pericchi, L.R., Torres, D., Ortiz, H., Ayala,D., Blaser, M.J, Domínguez-Bello, M.G., Phylogenetic Analysis of Crop Bacteria in the Hoatzin (Opisthocomus hoazin). Poster presented and abstract published at the 105th General Meeting of the American Society for Microbiology (ASM), Georgia World Congress Center, Atlanta, GA, USA, 2005.

  17. Godoy-Vitorino, Filipa, Gao, Z, Pei, Z., Blaser, M., Pericchi, L., Ortiz, H., Ley, R., Gordon, J., Garcia-Amado,M., Michelangeli, F., Domínguez-Bello, M., Molecular Diversity of Bacteria and Fungi in the Foregut of a South-American Leaf-Eating bird: The Hoatzin (Opisthocomus hoazin), Poster presented at the first External Scientific Advisory Committee (ESAC) of CREST- Center for Applied Tropical Ecology and Conservation (CATEC), University of Puerto Rico, College of Natural Sciences, San Juan, Puerto Rico, 2006

  18. A.Vazquez; M.Sepulveda; E. Acevedo, G. Huguet; L.Saavedra; H.Ortiz-Zuazaga; G.Quirk; S.Pena de Ortiz, Identification of DNA recombination-related genes in the rat medial prefrontal cortex following auditory fear conditioning, poster presented at the 15th Annual Puerto Rico Neuroscience Conference, December 2, 2006, Interamerican University, Bayamon, Puerto Rico.

  19. J. Y. Laguna-Torres, E. A. Castro, M. Colón-Cesario, I. J. Santos, J.R. Fernández, H.Ortiz-Zuazaga and S. Peña de Ortiz, The role of gene rearrangement processes on hippocampal synaptic plasticity and on remote memory, poster presented at the 15th Annual Puerto Rico Neuroscience Conference, December 2, 2006, Interamerican University, Bayamon, Puerto Rico.

  20. Suárez-Castillo, E.C., Ortiz-Zuazaga, H., Hernández-Pasos, J., García-Arrarás, J.E. Microarray analysis of the Sea cucumber intestinal regeneration process. Gordon Research Conference on Tissue Repair & Regeneration. Colby-Sawyer College, New London, NH, June 17-22/ 2007.

  21. Suárez-Castillo, E.C., Ortiz-Zuazaga, H., Hernández-Pasos, J., García-Arrarás, J.E. Microarray analysis of the Sea cucumber intestinal regeneration process. First Pan American Congress in Developmental Biology. Grand Melia Hotel in Cancun, Mexico, June 16-20/ 2007.

  22. Ruiz Goyco, A., Falcón Dvorsky, E., and Ortiz-Zuazaga, H. Ensamblando secuencias nucleicas de segunda generación. XXVI Inter University Seminar on Mathematical Sciences Research (SIDIM). University of Puerto Rico at Humacao and Palmas del Mar, Puerto Rico, February 25-26, 2011.

  23. Medina-Cruz, J.A., Ortiz Ubarri, J. and Ortiz-Zuazaga, H. Automated creation of virtual network topology and virtual cluster nodes for parallel programming on a single server. XXVI Inter University Seminar on Mathematical Sciences Research (SIDIM). University of Puerto Rico at Humacao and Palmas del Mar, Puerto Rico, February 25-26, 2011.

  24. Ruiz Goyco, A., Falcón Dvorsky, E. and Ortiz-Zuazaga, H. Assembly of Second Generation Sequencing Data. 31st Puerto Rico Interdisciplinary Meeting (PRISM). Bayamon, Puerto Rico, March 12, 2011.

  25. Medina-Cruz, J.A., Ortiz Ubarri, J. and Ortiz-Zuazaga, H. Automated creation of virtual clusters on a single server for parallel programming education. 5th Computing alliance of hispanic-serving institutions (CAHSI) annual meeting. San Juan, Puerto Rico, March 27-29, 2011.

  26. Ruiz Goyco, A., Falcón Dvorsky, E. and Ortiz-Zuazaga, H. Assembly of next-generation sequences from sea cucumber. Southeast Regional IDeA Meeting. New Orleans, LA, September 22-24, 2011.

  27. Vázquez-Montes, A., Rivera K., Ortiz-Carpena J., Peña de Ortiz, S., and Ortiz-Zuazaga, H. G. Developmental exposure to lead (Pb+2) results in social interaction deficits in D. melanogaster. Southeast Regional IDeA Meeting. New Orleans, LA, September 22-24, 2011.

  28. A.P. Chornyy and H.G. Ortiz Zuazaga. Program of Real Time PCR: DeltaDeltaCT_v02. Southeast Regional IDeA Meeting. New Orleans, LA, September 22-24, 2011.

  29. Roberto Arce, Humberto Ortiz-Zuazaga. Detecting differential expression in public RNASeq data from Drosophila melanogaster. 7th Transdisciplinary Research Conference. San Juan, Puerto Rico, May 3-4, 2012.

  30. Daniel Velez Costas, Eduardo Galindez Cintron, Jorge Ortiz-Carpena, Amneris Hernandez Figueroa, Adrinel Vazquez Montes, Humberto Ortiz-Zuazaga, Sandra Peña de Ortiz. High throughput video tracking of Drosophila melanogaster behaviour. 7th Transdisciplinary Research Conference. San Juan, Puerto Rico, May 3-4, 2012.

  31. León Ricardo B., Planas S., Ortiz H., Papa R. "Using Next Generation 454 Pyrosequencing Technology To Understand Potential Molecular Relations Between Butterfly And Human Eye Development". ABRCMS or Annual Biomedical Research Conference for Minority Students San Jose, California (USA). November 7-10, 2012. Poster.

  32. Jorge Felipe Ortiz-Carpena, Adrinel Vázquez-Montes, Amneris Hernández, Daniel Vélez- Costas, Eduardo Galindez-Cintrón, Sandra Peña de Ortiz, Humberto Ortiz-Zuazaga. Developmental Exposure to Lead (Pb2+) Results in Social Interaction Deficits in D. melanogaster. 21st PR Neuroscience Conference UPR-Rio Piedras Campus December 1st, 2012.

  33. J Morris-Pastrana, BG Nieves, CB Torres-Nieves, E Fernández-Repollet, H Ortiz-Zuazaga, and JG Conde. An e-Ticket System for Tracking Research Support Services. 13th RCMI International Research Symposium in San Juan, Puerto Rico, December 10-13, 2012.

  34. Roberto Arce Corretjer and Humberto Ortiz-Zuazaga. Comparing empirical Bayes and majority logic decoding methods for detecting differential expression in public RNA-Seq data from Drosophila melanogaster. XXVIII Inter University Seminar on Mathematical Sciences Research (SIDIM). Universidad Metropolitana, San Juan, Puerto Rico, March 1-2, 2013.

  35. Jorge F. Ortiz-Carpena; Amneris Hernández-Figueroa; Charlton Díaz; Norma Rodríguez; Guillermo Delgado; Francheska Merced; Beatriz Cardona; José Luis Agosto-Alicea; Sandra Peña de Ortiz; Adrinel Vázquez-Montes; and Humberto Ortiz-Zuazaga. Microarray Gene Expression Analysis of Lead (Pb2+)-exposed Drosophila melanogaster during Development. Accepted to the 2013 Annual Biomedical Research Conference for Minority Students (ABRCMS).

Invited Talks

A Survey of Bioinformatics. University of Puerto Rico School of Medicine RCMI lecture series. May 1997.

``Good'' Markers and ``True'' Maps: Combinatorial Algorithms for Genetic and Radiation Hybrid Mapping. University of Puerto Rico, Biology Department regular seminar series. August 1997.

sambatalk: How to get linux to act as a file and print server to Windows and Macs. Given September 15, 1997 to Dr Isidore Brodsky's Operating Systems class at the UPR.

linux: a brief introduction to the linux way of doing things. Given to the UPR Computer Science undergraduate students on September 8, 2000.

Python: my favorite programming language. Presented at the first Linux-PR Installfest, September 17, 2000.

Bioinformatics at the HPCf an introduction to the bioinformatics services at the HPCf, and our plans for the future. Presented January 31, 2001, at the Institute of Neurobiology, and again at the UPR-RCM for Dr. Carmen Cadilla's genetics course.

Clustering Microarray Expression Data: a survey, with some examples, of clustering techniques for microarray expression data. Presented March 15, 2001, at the UPR-RRP for Dr. Sandra Peña's Functional Genomics course.

Inferring Gene Regulation Networks From Microarray Expression Data: a survey of gene regulatory network inference techniques for microarray expression data. Presented March 29, 2001, at UPR-RRP for Dr. Sandra Peña's Functional Genomics course.

Ethical issues in bioinformatics: a list of recent cases that illustrate the ethical issues confronting bioinformatics. These cases are taken from the bioinformatics.org news items. Presented May 8, 2001 as part of the UPR-RCM bioethics course held by Dr. Emma Fernandez.

Sequence analysis using seqweb at the HPCf: a workshop on the GCG web interface seqweb. Presented November 1, 2001 at the HPCf, and again November 15, 2001 at UPR-RUM .

Bootstrapping into Bioinformatics: the outline of a 5 week crash course on bioinformatics being developed for Dr. Fernando Gonzalez, UPR-RRP.

Sequence Analysis Using SeqWeb at the High Performance Computing Facility a seminar illustrating the use of seqweb and GCG to perform simple sequence analysis tasks. Presented Tuesday, March 21, 2002 at the UPR-RCM, sponsored by the RCMI program.

Probe-level microarray analysis. Presented November 12, 2008, at the UPR-RRP Biology Department regular seminar.

The Reverse Engineering Problem in Genetic Networks. Oscar Moreno (UPR-Río Piedras) Maria Alicia Aviño (UPR- Cayey) Dorothy Bollman (UPR- Mayaguez) Humberto Ortiz (UPR HPCf), Presented at the BRIN-PR 1st Annual Symposium Biotechnology and Modern Medicine, October 11, 2002 San Juan Puerto Rico.

Finite Fields and Microarrays. (175 KB PDF file) Presented January 29, 2003 at the HPCf and UPR-RUM, in fulfillment of the doctoral seminar. The latex source for the talk.

Genes for Geeks: an introduction to molecular biology for computer scientists (138 KB PDF file). Given as part of Dr. Janwa's Introduction to Information Theory and Bioinformatics course, February 11, 2003, UPR-RRP. Revised September 7, 2005 for Dr. Oscar Moreno's Bioinformatics course UPR-RRP. The latex source for the talk.

A Survey of Bioinformatics: a look at some problems in bioinformatics I find intereseting (835 KB PDF file, updated from the 1997 talk). Given as part of Dr. Janwa's Introduction to Information Theory and Bioinformatics course, February 18, 2003, UPR-RRP. Many of the source files for the illustrations were lost, Maria Mergal was kind enough to scan some old transparencies, and those are included in the PDF file. The latex source for the talk.

Linux at the HPCf: given Monday, June 9, 2003 at the Desarollo de Linux en Puerto Rico conference, San Juan Marriott Hotel. The above link is the PDF of the slides, here is the latex source to the slides.

Two talks given as part of my interview for a position in the computer science department at UPR-RRP "Bioinformatics and Computational Biology" for the undergraduate student seminar on August 18, and "Analysis Techniques for Probe-level Microarray Data" for the faculty on August 20, 2009. Latex here and here.

Clustering and reverse engineering: from genes to the metabolome. given September 18, 2009 for Dr. Nataliya Chorna's Metabolomics class in UPR-RRP. The slides were supposed to update and combine my clustering and reverse engineering talks on microarrays, but I didn't quite succeed (latex source).

Network Tuning at the UPR for Transmission of Multispectral Images in Support of Relief Efforts in Haiti, Presented at the Internet2 Member Meeting, Arlington, Virginia, April 27, 2010.

Network Tuning for Rapid Transmission of Multispectral Images for Relief Efforts in Haiti Presented at the Caribbean Regional Interest Group, Internet2 Member Meeting, Arlington, Virginia, April 29, 2010.

Bioinformatics: Principles and Applications, workshop held Thursday, May 27, 2010 at the Centro de Educacion Virtual in the Encarnacion Valdez Library of the Pontificial Catholic University of Puerto Rico.

Research Networking in Puerto Rico. Presented at the Caribbean Telecommunications Union Caribbean Information Communication Technology Roadshow, San Juan, Puerto Rico, April 15, 2011.

Microarray analysis of oral cancer samples (slides, handout). Presented at An Introduction to Microarray Data Analysis workshop, Puerto Rico Comprehensive Cancer Center, San Juan, Puerto Rico, April 27, 2011. (Sweave sources: slides, manual)

Introduction to nanocomputation (20 contact hours). In Workshops for Science Teachers in the K-12 Level, Mayaguez, PR, November 12-13, 2011.

Introduction to Python (course page), an AECC workshop on the python programming language, San Juan, PR, March 17, 24 and 31, and again in October 2012.

Using limma for microarray and RNA-Seq analysis. A workshop for the Research Design, Biostatistics and Clinical Research Ethics (DBE) key function of the PRCTRC, San Juan, PR, March 7, 2013. (Handout)


Troglodita approved!

Humberto Ortiz Zuazaga
humberto@hpcf.upr.edu

Most recent change: 2013/10/2 at 09:08
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