Cliff Joslyn

Curriculum Vitae

Updated July, 2006

PDF Version
Updated July, 2006


Personal Information

 
Work Address:  Mail Stop B265 
Los Alamos National Laboratory
Los Alamos, NM 87545 USA 
Phone:  (505) 667-9096 
Fax: (505) 665-5220
Email:  joslyn at lanl.gov
URL:  http://www.c3.lanl.gov/~joslyn

Research


Publications


Software Systems

POSet Ontology Categorizer

Categorization algorithm for large taxonomic databases like the Gene Ontology (GO), available at http://www.c3.lanl.gov/posoc

Teaching 


Education

PhD 1994 in Systems Science, SUNY at Binghamton: 
Dissertation: Possibilistic Processes for Complex Systems Modeling
Advisor: George Klir

Possibility measures based on consistent random sets; possibilistic processes and finite automata models; objective semantics and empirical measurement methods for possibilistic states; application to qualitative modeling and model-based diagnosis of spacecraft systems; object-oriented architecture for software implementation in a C++ CAST environment.

MS 1989 in Systems Science, SUNY at Binghamton:

Theory, architecture, and design of information systems: General Information Theory, General Systems, Fuzzy Systems; Systems Optimization; Dynamic Systems; Self-Organizing Systems; Artificial Intelligence; Reconstructibility Analysis; Inductive Modeling Methodologies; Uncertainty in Expert Systems; Stochastic Modeling and Queuing Theory.

BA 1985 in Mathematics and Cognitive Science, Oberlin College:
High Honors:
Cybernetics and Cognitive Science.

Studies in Systems Theory, Semiotics, Linguistics, Philosophy, and Artificial Intelligence; minor in Religion.

Current Positions

Team Leader, Knowledge and Information Systems Sciences
Modeling, Algorithms and Informatics Group (CCS-3)
Computer and Computational Sciences Division
Los Alamos National Laboratory, Los Alamos, New Mexico

Technical, supervisory, and budgetary managerial responsibility for team of research scientists, postdocs, and students; technical and programmatic leadership and liaison with multiple laboratory, academic, government, and corporate partners and customers; research in knowledge systems and computational linguistics; applications in computational biology, homeland defense, defense transformation, intelligence analysis, and digital libraries.

Visiting Professor, Civil Engineering
University of New Mexico, Albuquerque, New Mexico


Research Positions

Acting Team Leader, Distributed Knowledge Systems and Modeling Team, Computer Research and Applications Group (CIC-3)
Los Alamos National Laboratory, Los Alamos, New Mexico, 2000-2002

Leadership in research projects in distributed knowledge systems, bioinformatics, data mining, and agent-based modeling of sociotechnical systems.

Member of the Technical Staff, Computer Research and Applications Group (CIC-3)
Los Alamos National Laboratory, Los Alamos, New Mexico, 1998-1999

Research and development in distributed knowledge systems, data mining applications, and agent-based modeling of sociotechnical systems.

Postdoctoral Research Associate, Computer Research and Applications Group (CIC-3)
Los Alamos National Laboratory, Los Alamos, New Mexico, 1996-1998

Data mining for fraud detection; guided multidimensional discovery in relational databases; generalized information measures.

NSF Postdoctoral Research Associate
So ftware and Automation Systems Branch, NASAGoddard Space Flight Center, 1994-1996 
Possibilistic Qualitative Model-Based Diagnosis and Trend Analysis of Spacecraft Systems

Design and development of qualitative modeling CAST systems: CAST-GIT software system for possibilistic and fuzzy modeling; support for qualitative spacecraft diagnostics and tre nd analysis; Data Analysis and Systems Modeling Environment (DASME) for mixed Discrete EVent (DEVS) and discrete-time modeling.

Graduate Fellow, NASA Goddard Space Flight Center, 1991-1994
Possibilistic Processes for Complex Systems Modeling

Graduate Fellowship in support of dissertation research: possibilistic qualitative modeling, model-based diagnosis of spacecraft systems.

Teaching Appointments

Adjunct Instructor, Computer Science, University of New Mexico, Los Alamos, 1997

Instructor for ``Introduction to UNIX'' and ``Advanced UNIX''.

Instructor, Southern Maine Technical College, South Portland, Maine, Spring 1993

Designed and taught ``Programming in ANSI C''.

Instructor, AGS Information Services, Endwell, New York, 1990

Instructed corporate programming staff in the ANSI C programming language. 

Instructor and Teaching Assistant, SUNY at Binghamton, 1987-1991


Advising

Student Supervision, Los Alamos National Laboratory 1996-present:

Instructed, supervised, and advised graduate and undergraduate students for software systems development in research projects

Director of Central Intelligence (DCI) Postdoctoral Fellowship:

The proposal ``Semantic Interoperability Technologies in Security Organizations'' succesfully secured funding for researcher within the Trusted Information Sharing Research Program Area, 2005-present.

PhD Committee:

Margaret Heath, Department of Psychology, Free University of Brussels, 2004-present.

PhD Committee:

Sunil Donald, The Development of Empirical Possibility Distributions in Risk Analysis, Department of Civil Engineering, University of New Mexico, 2003

PhD Committee:

Kari Sentz, Department of Systems Science and Industriral Engineering, Binghamton University, 2002-2003.

MS Committee:

Gregory Chavez, Optimization of Possibility Distribution Algorithms, Department of Civil Engineering, University of New Mexico, 2002.

PhD Committee:

Johan Bollen, A Cognitive Model of Adaptive Web Design and Navigation, Department of Psychology, Free University of Brussels, 2001.

MS Committee:

Thomas Prang, Unsupervised Data Mining in Nominally Supported Databases, Department of Systems Science and Industriral Engineering, Binghamton University, 1998.

Funding History

Los Alamos National Laboratory Directed Research and Development:

Host-Pathogen Interactions (Pathomics) in Avian Influenza, 2006 to present.

Department of Homeland Security, Science and Technology:

Generalized Data-Driven Analysis and Integration, 2005 to present

Department of Homeland Security, Science and Technology:

Knowledge extraction, ontology management, and machine learning technology for semantic networks, 2005-present.

Los Alamos National Laboratory Directed Research and Development:

Protein Function Inference, 2002 to present.

Sandia National Laboratory, ASCI Program:

Epistemic Uncertainty Modeling, September, 2000 to present

Los Alamos National Laboratory, ASCI Verification and Validation:

Generalized Uncertainty Quantification for Engineering Modeling, 2003-2005

USS STRATCOM:

Integrated  Knowledge Engine (IKE), 2004-200

Department of Homeland Security, Science and Technology:

Critical Infrastructure Protection/Decision Support System (CIP/DSS), 2003-2004.

Defense Advanced Research Projects Agency (DARPA):

Program development for bio-ontologies, principal investigator, 2004.

Engineering and Physical Sciences Research Council, Great Britain:

LSI Study Group for Discovery, REAsoning and Modelling of Knowledge Applied to GEnomics (DREAMKAGE), 2003-2004.

Los Alamos National Laboratory, Industrial Business Development:

Cooperative Research And Development Agreement on Knowledge Systems for Bioinformatics, Proctor & Gamble Corp., Principle Investigator for Knowledge Systems, 2002-2004.

Los Alamos National Laboratory Research Library:

Active Recommendation Systems for a Library Without Walls, 1999-2003.

Los Alamos National Laboratory Directed Research and Development

Advanced Knowledge Integration In Assessing Terrorist Threats, 2002.

Los Alamos National Laboratory, Industrial Business Development:

Cooperative Research And Development Agreement on Knowledge Management, Xerox Corporation, Principle Investigator, January, 2000 to 2001

Physical Science Laboratory, New Mexico State University:

Decision Structures Of Socio-Technical Organizations, Principle Investigator, March, 1999.

National Academy of Sciences Postdoctoral Research Awards:

NASA Goddard Space Flight Center

Possibilistic Qualitative Model-Based Diagnosis and Trend Analysis of Spacecraft Systems, Contract # NASW 4352, 1994-1996.

NIST Statistical Engineering Laboratory

Possibilistic Representations of Measurement Combination Problems, awarded simultaneously, declined.

Honors and Awards

Nomination, Best Paper Award:

2004 Intelligent Systems for Molecular Biology Conference (ISMB 04), ``The Gene Ontology Categorizer'', with SM Mniszewski, AG Fulmer, and GH Heaton
Distinguished Performance Award:
 Large Team Award for IRS Fraud Detection Projects, Los Alamos National Laboratory, September, 1997.

NRC Research Associateship:

NASA Goddard Space Flight Center, 1994-present. Advisor: Walter Truszkowski.

Graduate Fellowship:

NASA Goddard Space Flight Center, 1991 1994. Advisor: Walter Truszkowski.

Dissertation Year Fellowship:

SUNY at Binghamton, 1991, declined.

Vickers Memorial Award:

International Society for the Systems Sciences, 1991; Member, Vickers Memorial Honorary Society, Vickers Award Selection Committee

Conference Scholarship:

Gordon Research Conference on Control and Communications in Complex Systems, 1990.

Travel Scholarship:

Annual Conference of the American Society for Cybernetics, 1989.

Teaching Assistantship:

 Systems Science Department, SUNY at Binghamton, 1987-1991.

High Honors:

Studies in Systems Science and Cognitive Science, Oberlin College, 1985.

Independent Major:

Cognitive Science, Oberlin College, 1983-1985.


Peer Review

Journals

Editorial Board:

Reviewer:

Panels and Committees

National Science Foundation:

Science and Engineering Information Integration and Informatics (SEIII) Program, 2005-2006

Department of Homeland Security:

Institute for Discrete Sciences, University Affiliate Centers, 2006

Los Alamos National Laboratory:

Laboratory Directed Research and Development (LDRD) Exploratory Research (ER) panels:

DARPA Workshop on Computable Semantics for Complex Biological Systems:

Participant, March, 2005.
First and Second DARPA Workshops on Bio-Ontologies:
Chair, February and June, 2004.
UL Engineering and Physical Sciences Research Council:
Grant reviewer, 2004.
University of California Discovery Grants:
Life Sciences and Information Technology Program, 2003.
Pacific Northwest National Laboratory:  Laboratory Directed Research and Development (LDRD)
External reviewer in Computational Science and Engineering Initiative, 2002.
Netherlands Organisation for Scientific Research:
Research Programme for the Cognitive Sciences, 2002.
National Science Foundation:
Information Technology Research (ITR) Initiative, 2001.

Conferences

Program Committee:
2007 Joint Conference on AI, Simulation and Planning in High Autonomy Systems (AIS) and Conceptual Modeling and
Simulation (CMS), Buenos Aires, February 8-10, 2007
Program Committee:
2006 IEEE International Conference on Systems, Man, and Cybernetics, Taipei, October, 2006.

Program Committee:

2006 Joint Biolink and 9th Bio-Ontologies Meeting (JBB), 2006 Conference on Intelligent Systems for Molecular Biology (ISMB 06), Fortaleza, Brazil, August, 2006

Program Committee:

2006 Conference on Intelligent Systems for Molecular Biology (ISMB 06), Fortaleza, Brazil, August, 2006

Organizing Committee:

Workshop on Machine Self-Replication, 10th International Conference on the Simulation and Synthesis of Living Systems (ALife X), Bloomington, Indiana, June, 2006
Program Committee:
Workshop on the Semantic Web for the Life Sciences, 2006 Pacific Symposium on Biocomputing (PSB 06), Hawaii, January, 2006.

Organizing Committee:

DHS Institute for Discrete Sciences (IDS) Workshop on Data Integration and Dissemination, Washington, DC,  November, 2005
Program Committee:
Fourth European Conference on Computational Biolgoy (ECCB 05), Madrid, September, 2005.
Program Committee:
2005 Conference on Intelligent Systems for Molecular Biology (ISMB 05), Detroit, July, 2005.
Program Committee:
2005 International Conference on Human-Computer Interface Advances for Modeling and Simulation (SIMCHI 05)
Program Committee:
2005 IEEE International Conference on Systems, Man, and Cybernetics, Hawaii, October, 2005.
Program Committee:
2004 IEEE International Conference on Computational Cybernetics (ICCC 04), Vienna, September, 2004.
International Advisory Board:
2004 Workshop on Performance Metrics for Intelligent Systems (PERMIS 04), National Institute of Standards and Technology, Gaithersburg, MD, August, 2004.
Program Committee:
2004 Conference on Intelligent Systems for Molecular Biology (ISMB 04), Glasgow, July, 2004.
Program Committee:
2003 International Symposium of Uncertainty Modeling and Analysis (ISUMA 03), University of Maryland, September, 2003.
Program Committee:
Workshop on ``Distributed Computing Architectures for Digital Libraries'',  31th International Conference on Parallel Processing (ICPP), August, 2002.
International Advisory Board:
2002 Workshop on Performance Metrics for Intelligent Systems, National Institute of Standards and Technology, Gaithersburg, MD, August, 2002.
Program Committee:
Workshop on Epistemic Uncertainty, Sandia National Laboratory, August, 2002
Program Committee:
2002 Conference on AI, Simulation and Planning, Lisbon, April, 2002

Program Committee:

Workshop on ``Theoretical Fundamentals of Intelligent Systems: Computational Semiotics'', Joint Conference on Information Systems, Duke University, March 2002

Workshop Chair:

Los Alamos Workshop on Novel Approaches to Uncertainty Quantification, February, 2002.
Program Committee:
2002 World Congress on Virtual Worlds and Simulation, San Antonio, January, 2002.
Executive and Scientific Committees:
First International Conference on Intelligent Networks and Social Evolution (Global Brain 0), Brussels, July 2001
International Advisory Board:
2000 Workshop on Performance Metrics for Intelligent Systems, National Instiute of Standards and Technology, Gaithersburg, MD, August, 2000

Program Committee:

2000 World Congress on the Systems Sciences, Toronto, July, 2000.

Program Committee:

2000 Conference on AI, Simulation, and Planning, University of Arizona, Tucson, March, 2000.

Program Committee:

1999 IEEE Symposium on Computational Intelligence in Robotics and Automation, Monterery, California, 1999.

Program Committee, Workshop Co-Chair:

Workshop on "Semiotics of Autonomous Information Systems", 1998 Conference on Intelligent Systems and Semiotics, National Institute of Standards and Technology, Gaithersburg, Maryland, October, 1998. 

Workshop Organizer and Co-Chair:

Workshop on Emergent Semantic and Computational Processes in Distributed Information Systems, Los Alamos National Laboratory, Los Alamos, New Mexico, August, 1998.

International Program Committee, Workshop Chair:

Workshop on "Semiotic Methods of Information and Knowledge Processing", 1997 Conference on Intelligent Systems and Semiotics, National Institute of Standards and Technology, Gaithersburg, Maryland, September, 1997.

Program Committee, Workshop Chair:

Workshop on "Uncertainty Representation in Decision-Making Systems", conference on Intelligent Systems: A Semiotic Perspective, National Institute of Standards and Technology, Gaithersburg, Maryland, October, 1996. 

Program Committee:

Thirteenth European Meeting on Cybernetics and Systems Research; co-chair, Symposium on Systems Methodologies; Vienna, April 1996.

Program Committee:

Conference on AI, Simulation and Planning in High Autonomy Systems, San Diego, March, 1996.

Organizing and Scientific Committees:

International Workshop on the Foundations and Applications of Possibility Theory (FAPT '95), University of Ghent, December, 1995.

Organizing Committee:

 1996 Conference of the Washington Evolutionary Systems Society.


Research Projects


Invited Presentations:


Business Experience

Software Consultant: ABB Environmental, Portland, Maine, Summer 1994.

Design, maintenance, and project management of leading air quality industrial emissions tracking system. FoxPro, DOS

Computer Consultant: Binghamton, New York and Portland, Maine, 1987-present.

Small business information systems design and development.

Computer Manager: Pryme-Line Distributors, Binghamton, New York, 1988-1991.

Software Engineer: Computer Consoles Inc., Reston, Virginia, 1986-1987.

Systems Analyst: Contractors Managment Systems, Reston, Virginia, 1985-1986.


Affiliations


Skills

Languages:

ANSI C, C++; Prolog, LISP, SCHEME; XML; Perl 5, awk, UNIX shells; SQL, Oracle, XBase dialects; HTML, SGML; BASIC; assemblers.

Database and Knowledge Representation Environments:

Protege; OWL-DL; Proclarity Analysis Services; ProC/PL-SQL, Developer 2000 (Oracle Browser); FoxPro
Mathematical Software:
Mathematica; RiskCalc; Matlab 5.0; S+; MathCad; Macsyma.

Development Environments:

X-Windows, MacX; Rogue Wave, Booch Components.

Operating Systems:

Linux 2.4.2; Solaris 2.6, Digital UNIX 4.0, Sun OS 4.1.4, Irix 6.2; Windows NT, 98, 95, 3.1; Mac OS 8.5; DOS 6.0; VM/CMS.

Other Software:

TeX, LaTeX 2e; Visio; MKS Toolkit; CVS, SCCS, RCS; numerous X-Windows, Microsoft Windows, and Macintosh application programs.