This is Penn State

Faculty, Students, Alumni, and Collaborators

 

Faculty

Dr. Vasant Honavar, Professor and Edward Frymoyer Chair of Information Sciences and Technology Professor of Bioinformatics and Genomics, Professor of Neuroscience, Faculty Affiliate: Huck Institutes of the Life Sciences, Faculty Affiliate: Institute for Cyberscience, Co-editor-in-chief: Cognitive Systems Research, Associate Editor: IEEE/ACM Transactions on Computational Biology and Bioinformatics, Editorial Board Member: Journal of Big Data. Dr. Honavar works on Artificial Intelligence; Bioinformatics and Computational Systems Biology, Data Mining, Information Integration, Knowledge Representation, Machine Learning, Semantic Web, Health Informatics, Security Informatics, and Social Informatics.


Current Members

Postdoctoral Fellows

  1. Yasser El-Manzalawy . Research Associate, College of Information Sciences and Technology, Pennsylvania State University. Interests: Machine Learning, Bioinformatics, Immunioinformatics, Big Data. Yasser is supported in part by the Frymoyer Chair in IST held by Vasant Honavar.

PhD Students

  1. Ngot Bui (Information Sciences and Technology, Penn State University). In progress. Interests: Machine Learning, Social Network Analysis, Social Media Analytics. Expected graduation: Fall 2015.
  2. Sanghack Lee (Information Sciences and Technology, Penn State University). In progress. Interests: Machine Learning, Causal Inference. Expected graduation: Fall 2015.
  3. Sam Gur (Neuroscience, Penn State University). In progress. Interests: Computational Neuroscience, Machine Learning. Expected graduation: Fall 2018.
  4. Yong Jung (Bioinformatics and Genomics, Penn State University). In progress: Interests: Bioinformatics, Macromolecular Interactions, Machine Learning. Expected graduation: Fall 2018:
  5. Thanh Le (Information Sciences and Technology, Penn State University). In progress. Interests: Big Data, Machine Learning, Health Informatics. Expected graduation: Fall 2018.
  6. Aria Khademi(Information Sciences and Technology, Penn State University). In progress. Interests: Big Data, Machine Learning. Expected graduation: Fall 2020.

MS Students
None at present.

Undergraduates
None at present.


Alumni

Postdoctoral Fellows

  1. Li Xue (2013-2014) College of Information Sciences and Technology, Pennsylvania State University. Topic: Computational Prediction of Protein-Protein and Protein-RNA Interfaces and Interactions. Li is supported in part by the Frymoyer Chair in IST held by Vasant Honavar and in part by the Huck Institutes of the Life Sciences at Penn State University. Current Position: Research Scientist (Supported by a Veni Grant from the Netherlands Organization for Scientific Research), Utrecht University.
  2. Ganesh Ram Santhanam (2011-2013), Research Associate, Center for Computational Intelligence, Learning, and Discovery, Iowa State University. Topics: Representing and reasoning about preferences. Model checking approaches to finding and reasoning about intervention policies in networks. Current Position: Postdoctoral Research Associate, Electrical and Computer Engineering, Iowa State University.
  3. Jia Tao (2013) Research Associate, Center for Computational Intelligence, Learning, and Discovery. Iowa State University. Topics: Epistemic Description Logics, Secrecy-preserving Query Answering. Current Position: Assistant Professor, College of New Jersey.
  4. Yasser El-Manzalawy (2010-2012). Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Machine learning approaches in Immune Informatics. Yasser was supported in part by CCILD. Current Position: Assistant Professor, Al Azhar University, Egypt, and Research Associate, Center for Big Data Analytics and Discovery Informatics, Penn State University.
  5. Cornelia Caragea (2010) Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Machine Learning in Computational Biology. Cornelia was supported in part on a grant from the NSF and in part by CCILD. Current Position: Assistant Professor, University of North Texas.
  6. George Voutsadakis, Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topics: Federated Knowledge Bases, Semantic Web, Secrecy-Preserving Reasoning. George was supported in part by the ISU NSF Industry-University Cooperative Research Center in Computer and Network Security and in part by CCILD. Current position: Associate Professor of Mathematics and Computer Science, Lake Superior State University.
  7. Jae-Hyung Lee (2008-2009). Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Construction and Analysis of Macromolecular Interaction Networks. Jae-Hyung was supported in part by CCILD. First Position: Research Associate, UCLA. Current Position: Assistant Professor, Kyung Hee University, South Korea.
  8. Jie Bao (2007-2008). Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Representing and Reasoning with Federated Ontologies: Selective Knowledge Reuse, Privacy-preserving reasoning. Jie was supported in part by a grant from the National Science Foundation and in part by CCILD. Current Position: President and CEO, Memect.
  9. Doina Caragea (2004-2006) Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Knowledge Acquisition from Semantically Heterogeneous, Distributed Information Sources. 2004-2006. Doina was supported in part by a grant from the National Institutes of Health and in part by CCILD. Current Position: Associate Professor of Computer Science, Kansas State University.
  10. Byron Olson (2005-2006). Research Associate, Center for Computational Intelligence, Learning, and Discovery (CCILD), Iowa State University. Topic: Discovery of Macromolecular Sequence-Structure-Function Relationships, Transcriptomics, Proteomics, and Interactomics. Byron was supported in part by a grant from the National Institutes of Health and in part by CCILD. Current Position: Research Assistant Professor of Electrical and Computer Engineering, Arizona State University.

Ph.D. Graduates

  1. Rasna Walia (Bioinformatics & Computational Biology; Iowa State University; with Drena Dobbs), 2014. Sequence-based prediction of RNA-protein interactions. Rasna was supported in part by a grant from the National Science Foundation to Vasant Honavar.
  2. Harris Lin (Computer Science, Iowa State University), 2013. Learning Classifiers from Linked Data. Harris was supported in part by a research assistantship funded in part by a grant from the National Science Foundation. Current Employment: Research Scientist, US DOE Ames Laboratory, Ames, Iowa.
  3. Carson Andorf (Bioinformatics & Computational Biology; Iowa State University; with Drena Dobbs), 2013. Discovering meaning from biological sequences: focus on predicting misannotated proteins, binding patterns, and G4-quadruplex secondary structures. Carson was supported by an IGERT fellowship funded by the National Science Foundation and a research assistantship funded by the National Institutes of Health. Current employment: Research Scientist, USDA, Ames, Iowa.
  4. Li Xue (Bioinformatics and Computational Biology, Iowa State University. With Drena Dobbs). Sequence-Homology Based Methods for Protein Interface Prediction and their Application to Ranking Docked Conformations. Graduate Research Excellence Award, Ph.D., 2012. Li was supported in part by research assistantships funded by a grant from the National Institutes of Health and in part by the Iowa State University Center for Computational Intelligence, Learning, and Discovery. Current Employment: Postdoctoral Research Associated, Iowa State University.
  5. Hsien-chao Chou (Bioinformatics & Computational Biology; with Volker Brendel), Local assembly and pre-mRNA splicing analysis by high-throughput sequencing data. Ph.D., 2012.
  6. Raphael Jordan (Computer Science, Iowa State University), Ph.D., 2012. Structure-Based Prediction of Protein-Protein Interaction Sites. Graduate Research Excellence Award. Raphael was supported in part by a research assistantship funded by a grant from the National Science Foundation and in part by a teaching assistantship in Computer Science. Current Employment: Data Mining Research Scientist, Quantcast.
  7. Kewei Tu (Computer Science, Iowa State University), Ph.D., 2012. Unsupervised Learning of Probabilistic Grammars. Kewei was supported by in part by a teaching assistantship in Computer Science and in part by a research assistantship funded by a grant from the National Science Foundation. Initial Employment: Postdoctoral Research Associate, Department of Statistics and Department of Computer Sceince, University of California Los Angeles.
  8. Jia Tao (Computer Science, Iowa State University; with Giora Slutzki). Topics in Knowledge Bases: Epistemic Description Logics and Secrecy-preserving Reasoning. Ph.D., 2012. Initial Employment, Postdoctoral Research Associate, Iowa State University.
  9. Fadi Towfic (Bioinformatics and Computational Biology, Iowa State University; with M. Heather West Greenlee). Ph.D., 2011. Modular Algorithms for Biomolecular Network Alignment. Fadi was supported in part by a fellowship funded by an Integrative Graduate Education and Research Training (IGERT) grant from the National Science Foundation. Initial employment: Postdoctoral Research Associate, The Broad Institute of MIT and Harvard.
  10. Neeraj Koul (Computer Science, Iowa State University). Ph.D., 2011. Learning Predictive Models from Massive, Semantically Disparate Data. Neeraj was supported in part by a research assistantship funded by a grant from the National Science Foundation. Initial Employment: Machine Learning Research Scientist, GILT Group.
  11. Ganesh Ram Santhanam (Computer Science, Iowa State University), Ph.D., 2010. Representing and Reasoning with Qualitative Preferences for Compositional Systems. Ganesh was supported in part by research assistantships funded by a grant from the National Science Foundation. Initial Employment: Postdoctoral Research Associate, Center for Computational Intelligence, Learning, and Discovery, Iowa State University.
  12. George Voutsadakis (Computer Science, Iowa State University; with Giora Slutzki), Ph.D., 2010. Federated Description Logics for the Semantic Web. George was supported in part by research assistantships funded by a grant from the National Science Foundation. Current Position: Associate Professor of Mathematics and Computer Science, Lake Superior State University.
  13. Cornelia Caragea (Computer Science, Iowa State University), Ph.D., 2009. Abstraction-Based Probabilistic Models for Sequence Classification. Cornelia was supported in part by research assistantships funded by grants from the National Science Foundation and the National Institutes of Health. Initial Position: Postdoctoral Research Associate, Center for Computational Intelligence, Learning, and Discovery, Iowa State University. Current Position: Assistant Professor, University of North Texas.
  14. Oksana Yakhnenko (Computer Science, Iowa State University), Ph.D., 2009. Learning from Text and Images: Probabilistic Generative and Discriminative Models for Partially Labeled Data. Oksana was supported in part by a graduate teaching assistantship in Computer Science and in part by a research assistantship funded by a grant from the National Science Foundation. Current Position: Postdoctoral Research Associate, INRIA, Rhone-Alpes, France.
  15. Kent Vander Velden (Bioinformatics & Computational Biology, Iowa State University; with Peter Reilly), Ph.D., 2009. Modeling, Simulation, Synthesis, and Optimization of Biochemical Networks. Kent was supported in part by a graduate fellowship funded by an NSF IGERT award and by Pioneer Hi-Bred. Current Position: Senior Research Scientist, Pioneer Hi-Bred.
  16. Yasser El-Manzalawy (Computer Science, Iowa State University), Ph.D., 2008. Thesis: Machine Learning Approaches to Epitope Prediction. Recipient of an Iowa State University Graduate Research Excellence Award. Yasser was supported by a fellowship from the Egyptian Government. Current Position: Assistant Professor, Al-Azhar University, Egypt.
  17. Michael Terribilini (Bioinformatics & Computational Biology, Iowa State University; with Drena Dobbs), Ph.D., 2008. Thesis: Deciphering the Protein-RNA Recognition Code. Michael was supported by a Multidisciplinary Graduate Education and Training (MGET) fellowship funded by the USDA. Current Position: Assistant Professor of Biology, Elon College, North Carolina.
  18. Feihong Wu (Bioinformatics & Computational Biology, Iowa State University; with Robert Jernigan), Ph.D., 2009. Thesis: Protein-Protein Interfaces: Databases, Analysis, and Prediction. Feihong was supported by research assistantships funded by the Iowa State University Graduate College and a grant from the National Institutes of Health. Current Position: Research Scientist, Yahoo! Inc.
  19. Adrian Silvescu (Computer Science, Iowa State University), Ph.D., 2008; Thesis: Inductive Learning Via Abstraction and Superstructuring. Adrian was supported through a teaching assistantship from the Department of Computer Science and research assistantships funded by Pioneer Hi-Bred and the National Science Foundation. Initial Position: Research Scientist, Yahoo! Inc.
  20. LaRon Hughes (Bioinformatics and Computational Biology, Iowa State University; with James Reecy). Ph.D., 2008. Thesis: Design, Implementation, and Some Applications of an Animal Trait Ontology. LaRon was supported in part by an NSF Integrative Graduate Education and Research Training (IGERT) Fellowship in Bioinformatics and Computational Biology. Initial Employment: Research Scientist, Genome Quest.
  21. Jie Bao (Computer Science, Iowa State University). Ph.D., 2007. Thesis: Representing and Reasoning with Modular Ontologies. Jie Bao was supported by a research assistantship in Computer Science funded in part by the National Science Foundation, the Iowa State University Center for Integrative Animal Genomics, and the Center for Computational Intelligence, Learning, and Discovery. Initial Position: Research Associate, Professor Jim Hendler’s group, Department of Computer Science, Rensselaer Polytechnic Institute.
  22. Tyra Dunn (Bioinformatics and Computational Biology, Iowa State University; with M. Heather West Greenlee). Ph.D., 2007. Thesis: Characterizing and Influencing Differentiation of Retinal Progenitor Cells. Tyra was supported in part by an Integrative Graduate Education and Research Training (IGERT) fellowship from the National Science Foundation.
  23. Jyotishman Pathak (Computer Science, Iowa State University). Ph.D., 2007. Thesis: Interactive and Verifiable Web Service Composition, Reformulation, and Adaptation. Recipient of an Iowa State University Graduate Research Excellence Award. Jyotish was supported by a graduate research assistantship in Computer Science funded in part by grants from the National Science Foundation. Initial Employment: Research Scientist, Division of Biomedical Informatics, Mayo College of Medicine, Rochester, Minnesota. Current Employment: Professor of Biomedical Informatics, Cornell University.
  24. Dae-Ki Kang (Computer Science, Iowa State University). Ph.D., 2007. Abstraction, Aggregation, and Refinement Strategies for Machine Learning. Dae-Ki was funded by a Teaching assistantship from the Department of Computer Science and a Research assistantship funded by the National Science Foundation. Current Employment: Assistant Professor, Department of Computer Engineering, Dongseo University, Pusan, Korea.
  25. Jun Zhang (Computer Science). Ph.D., 2005. Ontology Aware Learning Algorithms. Recipient of an Iowa State University Graduate Research Excellence Award. Jun was supported in part by research assistantship funded by a grant from the National Science Foundation and a teaching assistantship from the ISU Department of Computer Science. Current Employment: Research Scientist, Fair Isaac, San Diego.
  26. Changhui Yan (Bioinformatics and Computational Biology, Iowa State University; with Drena Dobbs). Ph.D., 2004. Computational Approaches to Prediction of Protein-Protein, Protein-DNA and Protein-RNA Interfaces. 2005. Recipient of an Iowa State University Graduate Research Excellence Award. Changhui was supported by a Plant Sciences Fellowship and research assistantships funded by the ISU Graduate College and a grant from the National Institutes of Health. Current Employment: Assistant Professor of Computer Science, Utah State University.
  27. Doina Caragea (Computer Science, Iowa State University). Ph.D., 2004. Learning Classifiers from Semantically Heterogeneous, Distributed, Autonomous Data Sources. 2004. Recipient of an Iowa State University Graduate Research Excellence Award. Initial Employment: Research Associate, Center for Computational Intelligence, Learning, and Discovery, Iowa State University. Current position: Associate Professor of Computer Science, Kansas State University.
  28. Jihoon Yang (Computer Science, Iowa State University). Ph.D., 1999. Learning Agents for Information Retrieval and Knowledge Discovery, 1999. Initial Employment: Research Scientist, Information Sciences Laboratory, Hughes Research Laboratory, Malibu, CA. Current Employment: Assistant Professor of Computer Science, Sogang National University, Korea.
  29. Karthik Balakrishnan (Computer Science, Iowa State University). Ph.D., 1998. Biologically Inspired Computational Structures and Processes for Autonomous Agents and Robots, Recipient of an Iowa State University Graduate Research Excellence Award. Initial Employment: Senior Research Scientist, Datamining Group, Allstate Research and Planning Center, Menlo Park, CA. USA. Current Employment: President and CEO, PurePredictive, Inc.
  30. Rajesh Parekh (Computer Science, Iowa State University). Ph.D., 1998. Recipient of an Iowa State University Graduate Research Excellence Award. Machine Learning of Automata and Neural Network Pattern Classifiers, 1998. Initial Employment: Senior Research Scientist, Data mining Group, Allstate Research and Planning Center, Menlo Park, CA. USA. Current Employment: Vice President of Data Science, Groupon.
  31. Chun-Hsien Chen (Computer Science, Iowa State University). Ph.D., 1997. Neural Architectures for Knowledge Representation and Inference, 1997. Initial Employment: Research Scientist, Advanced Technology Center, Computer and Communication Research Laboratories, Industrial Technology Research Institute, Taiwan. Current Employment: Associate Professor, Department of Information Management, Chang Gung University, Taiwan.
  32. Armin Mikler (Computer Science, Iowa State University; with Johnny Wong), Ph.D., 1995. Quo Vadis – A Framework for Intelligent Routing in Large Communication Networks. Initial Employment: Research Associate, Scalable Computing Laboratory, DOE Ames Lab, Ames, Iowa. Current Employment: Professor of Computer Science, University of North Texas, Denton, TX, USA.

M.S. Graduates

  1. Sateesh Kodavalli (Computer Science, Iowa State University). M.S., 2010. Extensible Problem Specific Tutor (xPST): Easy Authoring of Intelligent Tutoring Systems.
  2. Bhavesh Sanghvi (Computer Science, Iowa State University). M.S., 2010. Identifying and eliminating inconsistencies in mappings across hierarchical ontologies. Current Employment: Microsoft.
  3. Sushain Pandit (Computer Science, Iowa State University), M.S., 2010. Ontology-guided extraction of structured information from unstructured text: Identifying and capturing complex relationships. Current Employment: IBM.
  4. Tim Alcon (Bioinformatics & Computational Biology; with Heather Greenlee). Using a Seed-Network to Query Multiple Large-Scale Gene Expression Datasets from the Developing Retina in Order to Identify and Prioritize Experimental Targets. Tim was supported by a Multidisciplinary Graduate Education and Training (MGET) fellowship funded by the USDA.
  5. Lucas Bonansea (Human-Computer Interaction; with Stephen Gilbert), 2009. 3-d hand gesture recognition.
  6. Flavian Vasile (Computer Science, Iowa State University), 2008. Uncovering the structure of hypergraphs through tensor decomposition: An application to folksonomy analysis. Flavian was supported in part by a teaching assistantship in Computer Science, Iowa State University. Current Employment: Software Engineer, Yahoo! Inc.
  7. Oksana Kohutyuk (Computer Science, Iowa State University), 2007. Thesis: Retina Workbench: Database and software tools for comparative analysis and querying of gene and protein networks. Oksana was supported by a research assistantship funded by the National Institutes of Health and a teaching assistantship in Computer Science, Iowa State University. Current position: Software Engineer, Cisco.
  8. Charles Giesler (Computer Science, Iowa State University), A Java Reinforcement Learning Module for the Recursive Porous Agent Simulation Toolkit: Facilitating study and experimentation with reinforcement learning in social science multi-agent simulations. 2003. Current Position: Lawrence Livermore Labs.
  9. Anna Atramentov (Computer Science, Iowa State University), A Multi-Relational Decision Tree Learning Algorithm – Implementation and Experiments. 2003. Current position: Ph.D. Student, University of Illinois at Urbana-Champaign
  10. Zhong Gao (Bioinformatics, Iowa State University), Genome wide recognition of tumor necrosis factor (TNF) like ligands in human and Arabidopsis genomes: A structural genomics approach. 2003 Initial Employment: Post-doctoral fellow, The Center for Cardiovascular Bioinformatics and Modeling, Johns Hopkins University.
  11. Jaime Reinoso-Castillo (Computer Science, Iowa State University), Ontology-Driven Query-Centric Information Integration from Heterogeneous, Distributed, Autonmous Data Sources for Computer Assisted Scientific Discovery. 2002. Initial Employment: Universidad Javeriana, Colombia.
  12. Hector Leiva (Computer Science, Iowa State University), Learning Classifiers from Relational Data. 2002. Initial Employment: Research Scientist, Research Scientist, Universidad Nacional de San Luis. Argentina.
  13. Xiaosi Zhang (Bioinformatics, Iowa State University), Identification of Functionally Related Genes from Gene Expression Data. 2002.Initial Employment: Papajohn Center for Entreprenuership, Ames, Iowa.
  14. Xiangyun Wang (Bioinformatics, Iowa State University), Data Mining Approach to Discovery of Protein Sequence-Structure-Function Relationships. 2002. Initial Employment: Astra-Zeneca Inc.
  15. Kent Vander Velden (Bioinformatics, Iowa State University, joint supervision with Gavin Naylor), Spatial Clustering of Differences in Measured Homoplasy with Respect to Protein Structure. 2002. Initial Employment: Pioneer Hi-Bred, Inc.
  16. Neeraj Koul (Computer Science, Iowa State University), Clustering With Semi-Metrics, 2001. Initial Employment: Motorola.
  17. Dake Wang (Computer Science, Iowa State University), Data-Driven Generation of Decision Trees for Motif-Based Assignment of Protein Sequences to Functional Families., 2001. Initial Employment: Lumicyte, Inc. Current Employment: Genentech, Inc.
  18. Rushi Bhatt (Computer Science, Iowa State University), Spatial Learning and Localization: A Computational Model and Behavioral Simulations, 2001. Ph.D. Program, Boston University.
  19. Fajun Chen (Computer Science, Iowa State University), Learning Information Extraction Patterns from Text, 2000. Initial Employment: Ericsson.
  20. Tarkeshwari Sharma (Computer Science, Iowa State University), Agent Toolkit for Distributed Knowledge Networks, 2000. Initial Employment: Motorola, Inc.
  21. Asok Tiyyagura (Computer Science, Iowa State University), Alternative Criteria for Association Rule Mining, 2000. Cisco Systems, Inc.
  22. Di Wang (Computer Science, Iowa State University), 1997. Mobile Agents for Information Retrieval.
  23. Shane Konsella (Computer Science, Iowa State University), 1996. Trie Compaction Using Genetic Algorithms. Initial Employment: Hewlett-Packard.
  24. Karthik Balakrishnan (Computer Science, Iowa State University), 1993. Faster Learning Approximations of Backpropagation by Handling Flat-Spots. Continued as a Ph.D. student.
  25. Jayathi Janakiraman (Computer Science, Iowa State University), 1993. Adaptive Learning Rate for Increasing Learning Speed in Backpropagation Networks. Initial Empoyment: Motorola.
  26. Priyamvadha Thambu (Computer Science, Iowa State University), 1993. Automated Knowledge-Base Consistency Maintenance in an Evolving Intelligent Advisory System. Initial Employment: Inference Corporation.
  27. Rajesh Parekh 1993 (Computer Science, Iowa State University). Efficient Learning of Regular Languages Using Teacher-Supplied Positive Examples and Learner-Generated Queries. Continued as a Ph.D. student.
  28. Richard Spartz 1992 (Computer Science, Iowa State University). Speeding Up Backpropagation Using Expected Source Values. Initial Employment: IBM.

Undergraduates and Summer Research Students

  1. Dominic Mirabile, Undergraduate Honors Student, Information Sciences and Technology, Pennsylvania State University, 2015.
  2. Kim Eue, Undergraduate Research Assistant, Computer Science. Topic, Iowa State University. 2009. Comparative Analysis of Biomolecular Networks. Kim was supported in part by a Research Experiences for Undergraduates (REU) supplement to IIS 0711356.
  3. Kiran Gustavson, Undergraduate Research Assistant, 2009 Computer Science, Iowa State University. Topic: Machine Learning Applications in Bioinformatics. Kiran was supported in part by a Research Experiences for Undergraduates (REU) supplement to IIS 0711356.
  4. Marjorie Volk, Undergraduate Research Assistant, Computer Science, 2009 Iowa State University. Topic: Machine Learning Applications in Bioinformatics. Marjorie was supported in part by a Research Experiences for Undergraduates (REU) supplement to IIS 0711356
  5. Katie Wilkins, Case Western Reserve University, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, Iowa State University, 2009. Graduate School: Cornell University.
  6. Casey Oliver, Penn State University, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, Iowa State University, 2009. Graduate School: Bioinformatics, Iowa State University.
  7. Susan Koons, Texas A&M University, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, Iowa State University, 2009.
  8. Remy Younes. Undergraduate Research Assistant, Topics in Semantic Web and Data Integration. Computer Science, Iowa State University, 2008
  9. Tyson Williams. Undergraduate Research Assistant, Topics in Distributed and Multi-relational Data Mining. 2008. Computer Science, Iowa State University, 2008.
  10. Lalith Polepeddi, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, 2008.
  11. Kevin Yang, Participant, Science Undegraduate Laboratory Internships (SULI) Program, DOE Ames Lab, Iowa State University, 2008.
  12. David Gemperline, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, Iowa State University. 2007.
  13. Keith Callenberg, Participant, Summer Institute in Bioinformatics and Computational Systems Biology, Iowa State University, 2007.
  14. John Leacox, Undergraduate Research Assistant, Computer Science, Iowa State University, 2006.
  15. Matt Miller, Undergraduate Research Assistant, Computer Science, Iowa State University, 2006. Graduate School: MIT.
  16. Peter Wong, Undergraduate Research Assistant, Computer Science, Iowa State University, 2006.
  17. Ryan Bruce, Undergraduate Research Assistant. Interests: Machine Learning, Bioinformatics. Iowa State University, 2004.
  18. Tim Goodman, Duke University, Participant, Summer Institute in Bioinformatics and Computational Biology, Iowa State University, 2004.
  19. Oksana Yakhnenko. 2004. Interests: Artificial Intelligence, Machine Learning, Data Mining, Data and Knowledge Visualization. Undergraduate Researcher, Computer Science, Iowa State University, 2003-2004. Graduate School: Computer Science, Iowa State University.
  20. Amy Nienaber, Participant, Summer Institute in Bioinformatics and Computational Biology, Iowa State University, Summer 2003.
  21. Matthew Beard, Participant, Summer Institute in Bioinformatics and Computational Biology, Iowa State University, Summer 2003.
  22. Diane Schroeder. 2002. Undergraduate research assistant, Computer Science, Iowa State University. 2000-2002. Graduate School: Genetics, Stanford University.
  23. Carl Pecinovsky, 1997. Undergraduate Research Assistant 1996-1997. Iowa State University. Employed at IBM Rochester, MN.
  24. Jeremy Ludwig, 1997. Undergraduate Research Assistant, Iowa State University, 1996-97. Graduate School: University of Pittsburgh.
  25. Todd Lindsey, 1996. Undergraduate Research Assistant, Iowa State University, 1995-1996.
  26. Eric Barsness, Undergraduate Honors Student, Iowa State University, 1993. Employed at IBM Rochester, MN.

Pre-College Students

  1. John Farragher. Summer program for gifted pre-college students 1992.
  2. Stephen Lee. Summer program for gifted pre-college students 1993.
  3. Anna Keyte, Angel Sheriff, Kellan Brumback, Sara Karbeling, 1997. Adventures in Supercomputing (AIS 1997) Team.
  4. Eric Solan, Nic Dayton, Luke Rolfes, and Julian Sheldahl. Adventures in Supercomputing (AIS 1998) Team.


Visiting Researchers

  1. Professor Mokdong Chung, on sabbatical from Pukyong National University, Korea: August 1999 through July 2000. Iowa State University.
  2. Olivier Bousquet from Ecole Polytechnique. France: April - July 1997. Olivier is working on biologically inspired computational architectures for intelligent agents during his visit. Olivier's research is funded by Ecole Polytechnique. Iowa State University.
  3. Codrin Nichitiu from ENS Lyon, France: June - September 1996. Codrin worked on machine learning of grammars during his visit. Iowa State University.
  4. Vadim Kirillov, from Institute of Agricultural Informatics, Kharkov, Ukraine: 1995. Vadim works on temporal and spatial inference under uncertainty. Iowa State University.
  5. Brian Walenz (formerly of Iowa State University). Brian is now at Sandia National Lab. Iowa State University.


Collaborators

  1. Dr. John Yen, Information Sciences and Technology, Penn State University. John is interested in Social Network Analysis.
  2. Dr. Ping Li, Psychology, Penn State University. Ping is interested in language learning.
  3. Dr. Marylyn Ritchie, Biochemisty and Molecular Biology, Penn State University. Marylyn is interested in Genomics.
  4. Dr. Santhosh Girirajan, Biochemistry and Molecular Biology, Penn State University. Santhosh is interested in Genomics.
  5. Dr. Eric Harvill, Molecular Biology and Infectious Diseases, Penn State University. Eric is interested in vaccine design.
  6. Dr. Reka Albert, Physics, Penn State University. Reka is interested in Network Analysis.
  7. Dr. Scott Lindner, Biochemistry and Molecular Biology, Penn State University. Scott is interested in Genomics.
  8. Dr. Nanyin Zhang, Biomedical Engineering, Penn State University. Nanyin is interested in Brain Imaging.
  9. Dr. Peter Molenaaar, Human Development and Family Studies, Penn State University. Peter is interested in Structural Equation Modeling, Dynamical Systems.
  10. Dr. Peng Liu, Information Sciences and Technology, Penn State University. Peng is interested in Data Privacy and Security.
  11. Dr. Michele Diaz, Psychology, Penn State University. Michele is interested in Brain Imaging.
  12. Dr. Suzy Scherf, Pyschology, Penn State University. Suzy is interested in Developmental Psychology.
  13. Dr. Lawrence Sinoway, College of Medicine, Penn State University. Lawrence is interested in Cardiovascular Health, and Translational Research.
  14. Dr. Cynthia Chuang, College of Medicine, Penn State University. Cynthia is interested in Population Health and Electronic Health Records.
  15. Dr. Wenke Hwang, College of Medicine, Penn State University. Wenke is interested in Population Health.
  16. Dr. Runze Li, Statistics, Penn State University. Runze is interested in high dimensional data analysis.
  17. Dr. Aleksandra Slavkovic, Statistics, Penn State University. Aleksandra is interested in data privacy.
  18. Dr. Soundara Kumara, Industrial Engineering, Penn State University. Soundara is interested in Informatics.
  19. Dr. Orfeu Buxton, Biobehavioral Health, Penn State University. Orfeu is interested in Behavior and Health.
  20. Dr. Vittal Prabhu, Industrial Engineering, Penn State University. Vittal is interested in Distributed Systems, Sensing, and Control.
  21. Dr. Michelle Newman, Psychology, Penn State University. Michelle Newman is interested in Information Technology Applications in Mental Health.
  22. Dr. Jairam Vanamala, Food Science, Penn State University. Jairam is interested in Genomics and Health.
  23. Dr. Amy Sawyer, Nursing, Penn State University. Amy is interested in Sleep Disorders.
  24. Dr. Matthew Ferrari, Biology, Penn State University. Matthew is interested in Infectious Disease Dynamics.
  25. Dr. Jyotishman Pathak, College of Medicine, Cornell University. Jyotish is interested in Big Data Analytics and Health Informatics.
  26. Dr. Fadi Towfic, Immuneering, Boston, MA. Fadi is interested in Computational Biology, Genomics, and Bioinformatics.
  27. Dr. Kathleen McKeown, Computer Science, Columbia University. Kathy is interested in Natural Language Processing and Big Data Analytics.
  28. Dr. Claire Cardie, Computer Science, Northeastern University. Claire is interested in Machine Learning.
  29. Dr. Andrew McCallum, Computer Science, University of Massachusetts, Amherst. Andrew is interested in Machine Learning.
  30. Dr. Howard Wactlar, Computer Science, Carnegie Mellon University. Howard is interested in Big Data, Smart and Connected Health.
  31. Dr. James Hendler, Computer Science, RPI. James is interested in Semantic Web and Data Science education.
  32. Dr. George Hripcsak, Biomedical Informatics, Columbia University. George is interested in Health Informatics and Personalized Medicine.
  33. Dr. Kewei Tu, Computer Science, Shanghai Tech. Kewei is interested in stochastic grammars and machine learning.
  34. Dr. Hridesh Rajan, Computer Science, Iowa State University. Hridesh is interested in Software Engineering.
  35. Dr. Gary Leavens, Computer Science, University of Central Florida. Gary is interested in Programming Languages and Software Engineering.
  36. Dr. Tien Nguen, Electrical and Computer Engineering, Iowa State University. Tien is interested in Software Engineering.
  37. Dr. Robert Dyer, Computer Science, Bowling Green State University. Robert is interested in Programming Langugages and Software Engineering.
  38. Dr. Li Xue, Biomolecular Sciences, Utrecht University. Li is interested in Bioinformatics and Computational Biology.
  39. Dr. Drena Dobbs, Department of Genetics, Cell, and Developmental Biology, Iowa State University. Drena is interested in protein structure prediction, molecular mechanisms of regulation, and bioinformatics. Iowa State University.
  40. Dr. Volker Brendel, School of Informatics and Computing, Indiana University. Interests: Bioinformatics, Genomics.
  41. Dr. Doina Caragea, Department of Computer Science, Kansas State University. Doina is interested in information integration and distributed data mining.
  42. Dr. Samik Basu, Associate Professor of Computer Science. Dr. Basu works on Model Checking, Formal Methods, and Service Composition.
  43. Dr. Giora Slutzki, Professor of Computer Science. Dr. Slutzki works on Description Logics and Semantic Web.
  44. Heather Greenlee, Biomedical Sciences, Iowa State University. Heather is interested in developmental neuroscience of the retina and proteomics.
  45. Robert Jernigan, Director, Laurence H. Baker Center for Bioinformatics and Biological Statistics, Iowa State University. Robert is interested in computational and biophysical characterizations of protein sequence-structure-function relationships.
  46. Shankar Subramaniam, University of California, San Diego. Interests: Pathway Analysis, Systems Biology.
  47. Chris Tuggle, Animal Science, Iowa State University. Interests: Functional Genomics.
  48. Dr. Leonard Uhr, Computer Sciences Department, University of Wisconsin, Madison. Leonard Uhr, until his untimely death in October 2000, worked on machine learning, neural networks, and parallel architectures for artificial intelligence (among other things).
  49. Dr. Dan Voytas, formerly of the Department of Genetics, Development, and Cell Biology, Iowa State University. Currently at: University of Minnesota. Dan is interested in plant genomics and bioinformatics (among other things).
  50. Dr. Karthik Balakrishnan, PurePredictive, Inc.
  51. Richard Bradford, Rockwell Collins, Cedar Rapids, IA.
  52. Bill Fulkerson, Deere and Company, Moline, IL.
  53. Guy Helmer, Palisade Systems, Ames, IA.
  54. Dr. Ellen Maxon, Power Domain, Inc.
  55. Dr. Rajesh Parekh, Groupon
  56. Dr. Jun Zhang, Fair Isaac.

Collaborating Labs and Groups