Publications

Students who are co-authors in my publications and I mentored since joining UNM have their name underlined.

Book Chapters

  1. T. Estrada, M Taufer. Challenges in Designing Scheduling Policies in Volunteer Computing. Chap. in C. Cerin and G. Fedak, Desktop Grid Computing. CRC Press. 2012.

Journal Papers

  1. H. Carrillo-Cabada, J. Benson, A. M. Razavi, B. Mulligan, M. A. Cuendet, H. Weinstein, M. Taufer, and T. Estrada. A Graphic Encoding Method for Quantitative~Classification of Protein Structure and Representation of Conformational Changes. To appear in IEEE/ACM Transactions on Computational Biology and Bioinformatics
  2. J. Benson, H. A. Carrillo-Cabada, J. Wigdahl, S. Nemeth, J. Maynard, G. Zamora, S. Barriga, T. Estrada, P. Soliz, Transfer Learning for Diabetic Retinopathy. The International Society for Optics and Photonics (SPIE) 10574: Medical Imaging 2018: Image Processing, 105741Z, 2 March, 2018.
  3. J. Benson, S. Barriga, J. Wigdahl, S. Nemeth, J. Maynard, T. Estrada, P. Soliz. Ensemble Effect of Spatial Representations of Features and A Deep Architecture for Automatic Diabetic Retinopathy Screening, To appear Journal of Investigative Ophthalmology & Visual Science (ARVO journal), 2018.
  4. M. Perez-Arriaga, S. Abad-Mota, T. Estrada, Construction of Semantic Data Models. To appear in Communications in Computer and Information Science (CCIS), 2018.
  5. B. Zhang, T. Estrada, P. Cicotti, P. Balaji, and M. Taufer. Enabling Scalable and Accurate Clustering of Distributed Ligand Geometries on Supercomputers. Journal of Parallel Computing (ParCo), 63: 38-60, 2017.
  6. N. Manivannan, J. Benson, S. C. Nemeth, Z. Jarry, T. Estrada, E. S. Barriga, P. Soliz. Minimizing inter-camera image variation effects on retinal image screening algorithms with autoencoder. Journal of Investigative Ophthalmology & Visual Science (ARVO journal), Vol.58, 4833, June 2017.
  7. K. Benson, S. Schlachter, T. Estrada, M. Taufer, E. Cochran, and J. Lawrence, On the Powerful Use of Simulations in the Quake-Catcher Network to Efficiently Position Low-cost Earthquake Sensors. Future Generation Computer Systems, 2013.
  8. T. Estrada, B. Zhang, P. Cicotti, R. Armen, and M. Taufer: Accurate Analysis of Large Datasets of Protein-ligand Binding Geometries using a Linear Clustering Method based on MapReduce. Computers in Biology and Medicine, 2012.
  9. K. Benson, S. Schlachter, T. Estrada, M. Taufer, E. Cochran, and J. Lawrence: On the Powerful Use of Simulations in the Quake-Catcher Network to Efficiently Position Low-cost Earthquake Sensors. Future Generation Computer Systems, 2012.
  10. O. Rahaman, T. Estrada, D. Doren, M. Taufer, C. L. Brooks III, R.S. Armen: Evaluation of Several Two-Step Scoring Functions Based on Linear Interaction Energy, Effective Ligand Size, and Empirical Pair Potentials for Prediction of Protein-Ligand Binding Geometry and Free Energy. Journal of Chemical Information and Modeling, Volume: 51, Issue 9, Pages: 2047 – 65, 2011.
  11. T. Estrada, M. Taufer, and D.P. Anderson: Performance Prediction and Analysis of BOINC Projects: An Empirical Study with EmBOINC. Journal of Grid Computing, Volume: 7, Pages: 537–554, 2009.
  12. T. Estrada, O. Fuentes, and M. Taufer: A Distributed Evolutionary Method to Design Scheduling Policies for Volunteer Computing. ACM SIGMETRICS Performance Evaluation Review Journal, Volume: 36, Issue: 3, Pages: 40 – 49, 2008.

Peer-reviewed Papers in Conferences

  1. J. Benson, S. Nemeth, T. Estrada, P. Soliz. Self-Segmentation Strategies for Unsupervised Clustering and Visualization of Retinal Images, The Association for Research in Vision and Ophthalmology, Investigative Ophthalmology & Visual Science, Imaging in the Eye, 2019
  2. T. Estrada, J. Benson, H. Carrillo-Cabada, A. Razavi, M. Cuendet, H. Weinstein, E. Deelman, M. Taufer. Graphic Encoding of Macromolecules for Efficient High-Throughput Analysis. In Proc. of 9th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2018
  3. X. Chen, Q. Guan, L. Lo, S. Su, Z. Ren, J. Ahrens, T. Estrada. In Situ TensorView: In Situ Visualization of Convolutional Neural Networks. In Proc. of IEEE International Conference on Big Data, 2018
  4. X. Chen, M. Peterson, J. Benson, M. Taufer, and T. Estrada: KeyBin2: Distributed Clustering for Scalable and In-Situ Analysis. In Proc. of 47th International Conference on Parallel Processing. (ICPP), 2018
  5. X. Chen, J. Benson, and T. Estrada: Keybin: Key-based Binning for Distributed Clustering. In Proc. of IEEE Cluster Conference, 2017.
  6. M. Perez-Arriaga, T. Estrada, and S. Abad-Mota: Table Interpretation and Extraction of Semantic Relationships to Synthesize Digital Documents. In Proc. of 7th International Conference on Data Science, Technology and Applications (DATA), 2017.
  7. X. Chen and T. Estrada: Index Clustering: A map-reduce clustering approach using Numba. In Proc. of 7th International Conference on Data Science, Technology and Applications (DATA) 2017
  8. J. Benson, T. Estrada, A. Rosenberg, and M. Taufer: Scheduling Matters: Area-Oriented Schedulers for Resource Management. In Proc. of 28th International Symposium on Computer Architecture and High Performance Computing, 2016.
  9. T. R. Balasubramanian, and T. Estrada: Crowdlearning: A Framework for Collaborative and Personalized Learning. In Proc. 46th Frontiers in Education (FIE) Conference, 2016.
  10. M. Perez-Arriaga, T. Estrada, and S. Abad-Mota: TAO: Automatic Table Detection and Extraction from PDF Documents. In Proc. of 29th International Florida Artificial Intelligence Research Society Conference, 2016.
  11. T. Estrada, M. Wyatt, and M. Taufer: A Genetic Programming Approach to Design Resource Allocation Policies for Heterogeneous Workflows in the Cloud. In Proc. of 21st IEEE International Conference on Parallel and Distributed Systems, 2015.
  12. B. Zhang, T. Estrada, P. Cicotti, P. Balaji, and M. Taufer. Accurate Scoring of Drug Conformations at the Extreme Scale. In Proc. of 8th IEEE International Scalable Computing Challenge - Co-located with IEEE/ACM CCGrid, (1st Place), 2015.
  13. V. Pallipuram, T. Estrada, and M. Taufer. A Resource-selection Heuristic for High-performance and Cost-effective Workflow Execution on the Cloud. In Proc. of the International Conference on Parallel Processing (ICPP), Beijing, China, 2015.
  14. B. Zhang, T. Estrada, P. Cicotti, and M. Taufer: Enabling in-situ data analysis for large protein folding trajectory datasets. In Proc. of the 28th IEEE International Parallel & Distributed Processing Symposium (IPDPS), Phoenix (Arizona) USA, 2015 Acceptance rate: 21.1%.
  15. J. Cohoon, F. Raoking, T. Estrada, M. Taufer: Gender and Volunteer Computing. In Proc. Frontiers in Education Conference (FIE), 2014.
  16. B. Zhang, T. Estrada, P. Cicotti, and M. Taufer. On Efficiently Capturing Scientific Properties in Distributed Big Data without Moving the Data - A Case Study in Distributed Structural Biology using MapReduce. In Proc. of the 16th IEEE International Conference on Computational Science and Engineering. Sydney, Australia, 2013.
  17. T. Estrada and Michela Taufer, On the effectiveness of application-aware self-management for scientific discovery in volunteer computing systems. In Proc. Of the ACM/IEEE International Conference for High Performance Computing, Networking, Storage and Analysis (SC). Salt Lake City (Utah), USA, 2012. (Acceptance Rate: 21%)
  18. T. Estrada, B. Zhang, P. Cicotti, R. Armen, and M. Taufer. Reengineering high-throughput molecular datasets for scalable clustering using MapReduce. In Proc. of the 14th IEEE International Conference on High Performance Computing and Communications (HPCC-2012). Liverpool, UK, June 20012.
  19. K. Benson, T. Estrada, M. Taufer, E. Cochran, and J. Lawrence: On the Powerful Use of Simulations in the Quake-Catcher Network to Efficiently Position Low-cost Earthquake Sensors. In Proc. of the 7h IEEE International Conference on e-Science and Grid Technologies (eScience). Stockholm, Sweden, December 2011.
  20. T. Estrada and M. Taufer: Providing Application-Level Quality of Science in Volunteer Computing. In Proc. of the 13th IEEE High Performance Computing and Communications Conference (HPCC). Banff, Canada, September 2011. (Acceptance Rate: 59/271, 21.7%)
  21. T. Estrada, R. Armen, and M. Taufer: Automatic Selection of Near-Native Protein-Ligand Conformations using a Hierarchical Clustering and Volunteer Computing. In Proc. of the 2nd ACM International Conference on Bioinformatics and Computational Biology (ACM-BCB),  Buffalo, USA, August 2010. (Acceptance Rate: 37/136, 28%)
  22. T. Estrada, K. Reed, and M. Taufer: Modeling Job Lifespan Delays in Volunteer Computing Projects. In Proc. of to the 9th IEEE International Symposium on Cluster Computing and Grid (CCGrid). Shanghai, China, May 2009.
  23. J. Atlas, T. Estrada, K. Decker, and M. Taufer: Balancing Scientist Needs and Volunteer Preferences in Volunteer Computing using Constraint Optimization. In Proc. of the International Conference on Computational Science (ICCS). Baton Rouge, Louisiana, USA, May 2009. (Acceptance Rate: ~30%)
  24. T. Estrada, O. Fuentes, and M. Taufer: A Distributed Evolutionary Method to Design Scheduling Policies for Volunteer Computing. In Proc. of the 5th ACM International Conference on Computing Frontiers. Ischia, Italy, 2008. (Acceptance Rate: 30/110, 27%)
  25. T. Estrada, D.A. Flores, M. Taufer, P.J. Teller, A. Kerstens, and D. Anderson: The Effectiveness of Threshold-based Scheduling Policies in BOINC Projects. In Proc. of the 2nd IEEE International Conference on e-Science and Grid Technologies (eScience). Amsterdam, The Netherlands, 2006. (Acceptance Rate:  60/160, 37.5%)
  26. T. Estrada, A. Licon, and M. Taufer: CompPknots: a Framework for Parallel Prediction and Comparison of RNA Secondary Structures with Pseudoknots. In Proc. of the 1st Workshop on High Performance Computing in Genomic, Proteomic and Transcriptomic (ISPA). Sorrento, Italy, December 2006.
  27. T. Estrada and O. Fuentes: Identification of Stellar Population in Galactic Spectra using the Hierarchical Decision Ensemble. In Proc. of the 18th International Florida Artificial Intelligence Research Society Conference. Tampa Bay, Florida, USA, May 2005.
  28. E. Terlevich, R. Terlevich, J. P. Torres-Papaqui, T. Estrada, O. Fuentes, T. Solorio, and S. Bressan: Computer Science Approach to the Stellar Fabric of Violent Starforming Regions in AGN. The Interplay among Black Holes, Stars and ISM in Galactic Nuclei. In Proc. of the International Astronomical Union Symposium. Cambridge, UK, 2004.
  29. T. Estrada, J. P. Torres-Papaqui, R. Terlevich, O. Fuentes, E. Terlevich: Age determination of the Nuclear Stellar Population of Active Galactic Nuclei using Locally Weighted Regression. In Proc. of the 13th Astronomical Data Analysis Software and Systems Conference. Strasbourg, France, September 2003.

Peer-reviewed Papers in Workshops

Peer-reviewed Papers in Workshops

  1. M. Taufer, S. Thomas, M. Wyatt, T. M. Anh Do, L. Pottier, R. Ferreira da Silva, H. Weinstein, M. A. Cuendet, T. Estrada, and E. Deelman. Characterizing In Situ and In Transit Analytics of Molecular Dynamics Simulations for Next Generation Supercomputers. In Proc. of 15th International Conference on eScience, 2019
  2. X. Chen, Q. Guan, X. Liang, L. Lo, S. Su, T. Estrada, J. Ahrens; Visualizing the Training of Convolutional Neural Networks Using Paraview, Workshop on Distributed Infrastructures for Deep Learning (DIDL), 2017
  3. M. Matheny, S. Schlachter, L. Crouse, E. Kimmel, T. Estrada, M. Schumann, R. Armen, G. Zoppetti, and M. Taufer: ExSciTecH: Expanding Volunteer Computing to Explore Science, Technology, and Health. In Proc. of the 2nd workshop on Analyzing and Improving Collaborative eScience with Social Networks (eSoN 12), October 2012,
  4. T. Estrada, K. Reed, D. Anderson, and M. Taufer: EmBOINC: An Emulator for Performance Analysis of BOINC Projects. In Proc. of the 3rd Workshop on Large-Scale, Volatile Desktop Grids (PCGrid) in conjunction with IPDPS, May 2009, Rome, Italy.
  5. M. Taufer, A. Kerstens, T. Estrada, D.A. Flores, and P.J. Teller: SimBA: a Discrete Event Simulator for Performance Prediction of Volunteer Computing Projects. In Proc. of the 21st International Workshop on Principles of Advanced and Distributed Simulation (PADS), June 2007, San Diego, California, USA. (Acceptance Rate: 37/24, 65%)
  6. M. Taufer, A. Kerstens, T. Estrada, D.A. Flores, R. Zamudio, P.J. Teller, R. Armen, and C.L. Brooks III: Moving Volunteer Computing towards Knowledge-Constructed, Dynamically-Adaptive Modeling and Scheduling. In Proc. of the 1st Workshop on Large-Scale, Volatile Desktop Grids (PCGrid), in conjunction with IPDPS'07, March 2007, Long Beach, California, USA
  7. T. Estrada and O. Fuentes: Identification of Stellar Population in Galactic Spectra using the Hierarchical Decision Ensemble. In Proc. of the 1st Iberoamerican Workshop for Scientific Applications, November 2004, Puebla, Mexico.

Peer-reviewed Posters

  1. T. Estrada and M. Taufer: Docking@Home: Searching for New Drugs using Volunteer's Computers. In Proc. of the Grace Hopper Conference, October 2009, Tucson, Arizona, USA.
  2. T. Estrada, M. Taufer, and K. Reed: Performance analysis of Volunteer Computing Traces. In Proc. of the ACM/IEEE Supercomputing 07, November 2007. Reno, Nevada, USA. (Acceptance Rate: 24.5%)
  3. D. A. Flores, T. Estrada, M. Taufer, P. Teller, and A. Kerstens: SimBA: a Discrete Event Simulator for Performance Prediction of Volunteer Computing Projects. In Proc. of the ACM/IEEE Supercomputing 06, November 2006, USA. (Acceptance Rate: 25%)