Evaluating the Structural Quality of Semantic Hierarchy Alignments (2009)
Cliff Joslyn, Alex Donaldson, Patrick Paulson
We present preliminary results of applying a novel method based in metric order theory to provide a measure of the structural quality of some of the test alignments between semantic hierarchies used...
Automated Annotation-Based Bio-Ontology Alignment with Structural Validation (2009)
Cliff Joslyn, Bob Baddeley, Judith Blake, Carol Bult, Mary Dolan, Rick Riensche, ...
We outline the structure of an automated process to both align multiple bio-ontologies in terms of their genomic co-annotations, and then to measure the structural quality of that alignment. We...
POSOLE: Automated Ontological Annotation for Function Prediction (2008)
Karin Verspoor, Judith Cohn, Susan Mniszewski, Cliff Joslyn
We present the methods utilized in a system aimed at predicting the function of protein targets, as
Complex Adaptive Systems, and Artificial Life. Historical Roots (2007)
Cliff Joslyn, Francis Heylighen
Greek "kybernetes", or "steersman", it was defined as "the study of control and communication in the animal and machine". Over time, the meaning...
Towards Semiotic Agent-Based Models Of Socio-Technical Organizations (2007)
Cliff Joslyn And, Cliff Joslyn, Luis M. Rocha
We present an approach to agent modeling of socio-technical organizations based on the principles of semiotics. After reviewing complex systems theory and traditional Artificial Life (ALife) and...
Possibilistic Representations of Measurement Combination Problems (2007)
This proposal is to do basic research on the use of possibility theory to represent uncertainty in measurement combination problems. Possibility theory is a new form of information theory based on...
Trend Analysis of Spacecraft Systems Approvals (2007)
Cliff Joslyn, Troy Ames, Nigel Ziyad, Karl Mueller, Mark Stirling, Kyle Campbell, ...
GSFC BI-ii 08/28/01 This document described the ongoing effort at Goddard Space Flight Center in the TRENDS project to apply advanced technology to the problem of Trend Analysis (TA) of spacecraft....
Francis Heylighen, Cliff Joslyn, V. Cognition
Variety: a measure of the number of possible states or actions Entropy: a probabilistic measure of variety Self-organization: the spontaneous reduction of entropy in a dynamic system Control:...
Norman L. Johnson, Steen Rasmussen, Cliff Joslyn, Luis Rocha, Steven Smith, Marianna Kantor
Through conceptual examples and demonstrations, we argue that the symbiotic combination of the Internet and humans will result in a significant enhancement of the previously existing, self-organizing...
Categorization Approach to Automated Ontological Function Annotation (2006)
Karin Verspoor, Judith Cohn, Susan Mniszewski, Cliff Joslyn
Automated Function Prediction (AFP) methods increasingly use knowledge discovery algorithms to map sequence, structure, literature, and/or pathway information about proteins whose functions are...
A categorization approach to automated ontological function annotation (2006)
Verspoor, Karin, Cohn, Judith, Mniszewski, Susan, Joslyn, Cliff
Automated function prediction (AFP) methods increasingly use knowledge discovery algorithms to map sequence, structure, literature, and/or pathway information about proteins whose functions are...
A categorization approach to automated ontological function annotation (2006)
Verspoor, Karin, Cohn, Judith, Mniszewski, Susan, Joslyn, Cliff
Automated function prediction (AFP) methods increasingly use knowledge discovery algorithms to map sequence, structure, literature, and/or pathway information about proteins whose functions are...
A categorization approach to automated ontological function annotation (2006)
Verspoor, Karin, Cohn, Judith, Mniszewski, Susan, Joslyn, Cliff
Automated function prediction (AFP) methods increasingly use knowledge discovery algorithms to map sequence, structure, literature, and/or pathway information about proteins whose functions are...
Protein annotation as term categorization in the gene ontology using word proximity networks (2005)
Verspoor, Karin, Cohn, Judith, Joslyn, Cliff, Mniszewski, Sue, Rechtsteiner, Andreas, Rocha, Luis M, ...
Abstract Background We participated in the BioCreAtIvE Task 2, which addressed the annotation of proteins into the Gene Ontology (GO) based on the text of a given document and the selection of...
Protein annotation as term categorization in the gene ontology using word proximity networks (2005)
Karin Verspoor, Judith Cohn, Cliff Joslyn, Sue Mniszewski, Andreas Rechtsteiner, Luis M. Rocha, ...
We addressed BioCreAtIvE Task 2, the problem of annotation of a protein with a node in the Gene Ontology (GO). We approached the task as a problem of categorizing terms derived from the document...
Poset Ontologies and Concept Lattices as Semantic Hierarchies (2004)
Abstract. We describe some aspects of our research in relational knowledge discovery and combinatorial scientific computing [11], with special emphasis on the relation to the research portfolio of...
Combinatorial Approaches to BioOntology Management with Large Partially Ordered Sets (2004)
Cliff Joslyn, Susan Mniszewski
Knowledge structures called “ontologies ” (as an abuse of good philosophical terminology) have become increasingly important in modern knowledge systems. Characterized generally as “machine...
Random intervals are increasingly useful in engineering modeling, but are difficult to measure and elicit from experts. We present a method for constructing random intervals by eliciting simple...
Cliff Joslyn, Vladik Kreinovich
Based on a black box model of a complex system, and on intervals and probabilities describing the known information about the inputs, we want to estimate the system's reliability. Using the...
Cliff Joslyn, Vladik Kreinovich
Based on a black box model of a complex system, and on intervals and probabilities describing the known information about the inputs, we want to estimate the system’s reliability. Using the results...
Link Analysis of Social Meta-Networks (2002)
to bear on counter-terrorism applications. Shortly after the September 11 terrorist attackes, Stewart compiled a network analytical representation of the terrorist cells [16]. The left side of Fig. 1...
Network Worlds: From Link Analysis to Virtual Places (2002)
Significant progress is being made in knowledge systems through recent advances in the science of very large networks. Attention is now turning in many quarters to the potential impact on...
Bounds on Belief and Plausibility of Functionally Propagated Random Sets (2002)
We are interested in improving risk and reliability analysis of complex systems where our knowledge of system performance is provided by large simulation codes, and where moreover input parameters...
Cliff Joslyn, Vladik Kreinovich
Based on a black box model of a complex system, and on intervals and probabilities describing the known information about the inputs, we want to estimate the system’s reliability. This problem is...
Relational Analytical Tools: VisTool and Formal Concept Analysis (2002)
Cliff Joslyn, Susan Mniszewski
this report, we will work with the following example, which we'll call the "simple example". Let N =4andlet 2, 3, 4},X 2 = {Andy,Bob,Cli#,Don},X 3 = {T, F},X 4 = 2,...,9}, where:
We provide a conceptual analysis of ideas and principles from the systems theory discourse which underlie Pattee’s semantic or semiotic closure, which is itself foundational for a school of...
Cybernetics and Second-Order Cybernetics (2001)
Francis Heylighen, Cliff Joslyn
I. Historical Development of Cybernetics....................................................... 1 A. Origins..................................................................................... 1 B....
Assessing the predictive accuracy of complex simulation models (2000)
Timothy Ross, Vladik Kreinovich, Cliff Joslyn
Predictive accuracy is the sum of two kinds of uncertainty–natural variability and modeling uncertainty. This paper addresses the quantification of predictive accuracy of complex simulation models...
Towards Semiotic Agent-Based Models Of Socio-Technical Organizations (2000)
Cliff Joslyn And, Cliff Joslyn, Luis M. Rocha
We present an approach to agent modeling of socio-technical organizations based on the principles of semiotics. After reviewing complex systems theory and traditional Artificial Life (ALife) and...
Virtual Environments as Constraints on Decision-Making in Agent Models of Human Organizations (1999)
for 2000 Workshop on Virtual Worlds and Simulation August, 1999 Recentdevelopments in software engineering, artificial intelligence, complex systems, and simulation science have placed an increasing...
Possibilistic Systems Within a General Information Theory (1999)
We survey possibilistic systems theory and place it in the context of Imprecise Probabilities and General Information Theory (git). In particular, we argue that possibilistic systems hold a distinct...
Norman Johnson, Steen Rasmussen, Cliff Joslyn, Luis Rocha, Steven Smith, Marianna Kantor
Through conceptual examples and demonstrations, we argue that the symbiotic combination of the Internet and humans will result in a significant enhancement of the previously existing, self-organizing...
Towards General Information Theoretical Representations of Database Problems (1997)
General database systems are described from the General Systems Theoretical (gst) framework. In this context traditional information theoretical (statistical) and general information theoretical...
Distributional Representations Of Random Interval Measurements (1997)
: The measurement of set-valued and interval data is considered. Their random interval mathematical representations are introduced. The conditions for distributional (probabilistic and possibilistic)...
Towards a Formal Taxonomy of Hybrid Uncertainty Representations (1997)
In this paper we present some preliminary ideas about how to formally relate various uncertainty representations together in a taxonomic structure, capturing both syntactic and semantic...
Possibilistic Normalization of Inconsistent Random Intervals (1997)
this paper we first introduce two new normalization methods for finite random sets. Focused consistent transformations, which have the effect of elevating a particular normalizing element to unity,...
Measurement of Possibilistic Histograms from Interval Data (1996)
Measurement methods are a central requirement for the semantic grounding of any mathematical systems theory. Therefore possibility theory, as a branch of General Information Theory (git), requires...
Semiotic Aspects of Control and Modeling Relations in Complex Systems (1996)
A conceptual analysis of controls and models from a semiotic perspective is provided with the goal of elucidating their nature in complex systems. Atomic control systems and models are described as...
Semantic Webs: A Cyberspatial Representational Form for Cybernetics (1996)
Mathematical systems theory suggests structures which are useful for representing cyberspatial and hypertextual systems. In particular, we introduce semantic webs based on acyclic multirelational...
Hybrid Methods to Represent Incomplete and Uncertain Information (1996)
Decision making is cast in the semiotic context of perception, decision, and action loops. Towards the goal of properly grounding hybrid representations of information and uncertainty from this...
The Process Theoretical Approach to Qualitative DEVS (1996)
Qualitative extensions to the Discrete EVent Systems (devs) formalism are presented based on some new ideas relating general process and automata theory and General Information Theory (git)....
CAST Extensions to DASME to Support Generalized Information Theory (1996)
. The Data Analysis and System Modeling Environment (dasme) is a computer-assisted modeling environment, currently under development at NASA's Goddard Space Flight Center, designed to support...
Strong Probabilistic Compatibility of Possibilistic Histograms (1995)
Some properties of empirical random sets and possibilistic histograms related to strong probabilistic compatibility are described. We will discuss possibilistic histograms and the possibility of...
Semantic Control Systems (1995)
Definitions of "control" and their consequences are considered in the context of cybernetics and systems science, semiotics, Meta-System Transition (MST) Theory, and the Powers school of...
An Object-Oriented Architecture for Possibilistic Models (1994)
. An architecture for the implementation of possibilistic models in an object-oriented programming environment (C++ in particular) is described. Fundamental classes for special and general random...
Aggregation and Completion in Probability and Possibility Theory (1994)
this paper some new ideas about the mathematical relations between probability and possibility are presented in the context of random set theory. Although some of these results are already known, I...
Possibilistic Qualitative Model-Based Diagnosis and Trend Analysis of Spacecraft Systems (1994)
This proposal is to apply possibility theory to the qualitative model-based trend analysis of spacecraft components. Possibility theory is a new form of information theory. In the context of...
Qualitative Model-Based Diagnosis Using Possibility Theory (1994)
The potential for the use of possibility theory in the qualitative model-based diagnosis of spacecraft systems is described. The first sections of the paper briefly introduce the Model-Based...
A Possibilistic Approach to Qualitative Model-Based Diagnosis (1994)
The potential for the use of possibility theory in the qualitative model-based diagnosis of spacecraft systems is described. The first sections of the paper briefly introduce the Model-Based...
On Possibilistic Automata (1993)
. General automata are considered with respect to normalization over semirings. Possibilistic automata are defined as normal pessimistic fuzzy automata. Possibilistic automata are analogous to...
Some New Results on Possibilistic Measurement (1993)
Further results on possibilistic measurement [5, 8, 9] are presented, including the introduction of possibilistic histograms, their interpretation as fuzzy numbers, and their continuous...
Some New Results on Possibilistic Measurement (1993)
Further results on possibilistic measurement [5] are presented, including the introduction of possibilistic histograms, their interpretation as fuzzy numbers, and their continuous approximations. 1...
Possibilistic Semantics and Measurement Methods in Complex Systems (1993)
Possibility theory is a new mathematical theory for the representation of uncertainty. It is related to, but distinct from, probability theory, Dempster-Shafer evidence theory, and fuzzy set theory....
Synopsys of the Principia Cybernetica Project (1993)
Cliff Joslyn, Francis Heylighen, Valentin Turchin
this article, who are responsible for implementation of the system and the collection and development of the material. Similar to a journal, it may rely on an Editorial Advisory Board, and other...
Minimal Information Loss Possibilistic Approximations of Random Sets (1992)
We suggest an empirical measuring procedure which yields data governed by possibility theory. Such methods are needed in order to successfully apply possibility theory to the study of physical...
Possibilistic Measurement and Set Statistics (1992)
Set-based statistics are necessary to generate possibility distributions from measured data. Methods by which physical measurements can generate statistical data on real intervals are considered,...
Control Theory and Cybernetic Ontology (1992)
, invariant relationships among sequences, transitions, and other lower level perceptual events. Programs: Logical plans, sequences of relationships in a specific order, such as carrying out a...
Software Support For The Development Of Consensually Based Philosophical Systems (1991)
Researchers are involved in a project [24] to develop a collaborative, consensually based, constructive, philosophical system. Essential to such a project are computerized tools to aid in system...
Towards an Empirical Semantics of Possibility Through Maximum Uncertainty (1991)
31.81> fx i g with power set 2 U = fA ae Ug; m: 2 U 7! [0; 1] is a function on the subsets of U with m(;) = 0 and P AaeU m(A) = 1. Denote a random set as S = fh A j ; m j i : m j ? 0g, where h...
On the Semantics of Entropy Measures of Emergent Phenomena (1990)
Cliff Joslyn, Mr. Cliff Joslyn
This paper is an attempt to perform some semantic analysis of the concept of "entropy" as it is used in both thermodynamic and non-thermodynamic contexts. We will first consider the...
Norman Johnson, Steen Rasmussen, Cliff Joslyn, Luis Rocha, Steve Smith, Marianna Kantor
Through conceptual examples and demonstrations, we argue that the symbiotic combination of the Internet and humans will result in a significant enhancement of the previously existing, self-organizing...
Protein annotation as term categorization in the gene ontology using word proximity networks
Verspoor, Karin, Cohn, Judith, Joslyn, Cliff, Mniszewski, Sue, Rechtsteiner, Andreas, Rocha, Luis M, ...
A categorization approach to automated ontological function annotation
Verspoor, Karin, Cohn, Judith, Mniszewski, Susan, Joslyn, Cliff
Automated function prediction (AFP) methods increasingly use knowledge discovery algorithms to map sequence, structure, literature, and/or pathway information about proteins whose functions are...