Literature DB >> 26582967

Reasoning with Vectors: A Continuous Model for Fast Robust Inference.

Dominic Widdows1, Trevor Cohen2.   

Abstract

This paper describes the use of continuous vector space models for reasoning with a formal knowledge base. The practical significance of these models is that they support fast, approximate but robust inference and hypothesis generation, which is complementary to the slow, exact, but sometimes brittle behavior of more traditional deduction engines such as theorem provers. The paper explains the way logical connectives can be used in semantic vector models, and summarizes the development of Predication-based Semantic Indexing, which involves the use of Vector Symbolic Architectures to represent the concepts and relationships from a knowledge base of subject-predicate-object triples. Experiments show that the use of continuous models for formal reasoning is not only possible, but already demonstrably effective for some recognized informatics tasks, and showing promise in other traditional problem areas. Examples described in this paper include: predicting new uses for existing drugs in biomedical informatics; removing unwanted meanings from search results in information retrieval and concept navigation; type-inference from attributes; comparing words based on their orthography; and representing tabular data, including modelling numerical values. The algorithms and techniques described in this paper are all publicly released and freely available in the Semantic Vectors open-source software package.

Entities:  

Year:  2014        PMID: 26582967      PMCID: PMC4646228          DOI: 10.1093/jigpal/jzu028

Source DB:  PubMed          Journal:  Log J IGPL        ISSN: 1367-0751            Impact factor:   0.861


  15 in total

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Authors:  Thomas C Rindflesch; Marcelo Fiszman
Journal:  J Biomed Inform       Date:  2003-12       Impact factor: 6.317

2.  Predication-based semantic indexing: permutations as a means to encode predications in semantic space.

Authors:  Trevor Cohen; Roger W Schvaneveldt; Thomas C Rindflesch
Journal:  AMIA Annu Symp Proc       Date:  2009-11-14

3.  Representing word meaning and order information in a composite holographic lexicon.

Authors:  Michael N Jones; Douglas J K Mewhort
Journal:  Psychol Rev       Date:  2007-01       Impact factor: 8.934

4.  Toward a scalable holographic word-form representation.

Authors:  Gregory E Cox; George Kachergis; Gabriel Recchia; Michael N Jones
Journal:  Behav Res Methods       Date:  2011-09

5.  Holographic string encoding.

Authors:  Thomas Hannagan; Emmanuel Dupoux; Anne Christophe
Journal:  Cogn Sci       Date:  2010-11-19

6.  Deterministic binary vectors for efficient automated indexing of MEDLINE/PubMed abstracts.

Authors:  Manuel Wahle; Dominic Widdows; Jorge R Herskovic; Elmer V Bernstam; Trevor Cohen
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

7.  Identifying plausible adverse drug reactions using knowledge extracted from the literature.

Authors:  Ning Shang; Hua Xu; Thomas C Rindflesch; Trevor Cohen
Journal:  J Biomed Inform       Date:  2014-07-19       Impact factor: 6.317

8.  Connectionism and cognitive architecture: a critical analysis.

Authors:  J A Fodor; Z W Pylyshyn
Journal:  Cognition       Date:  1988-03

9.  Discovering discovery patterns with Predication-based Semantic Indexing.

Authors:  Trevor Cohen; Dominic Widdows; Roger W Schvaneveldt; Peter Davies; Thomas C Rindflesch
Journal:  J Biomed Inform       Date:  2012-07-26       Impact factor: 6.317

10.  SemMedDB: a PubMed-scale repository of biomedical semantic predications.

Authors:  Halil Kilicoglu; Dongwook Shin; Marcelo Fiszman; Graciela Rosemblat; Thomas C Rindflesch
Journal:  Bioinformatics       Date:  2012-10-08       Impact factor: 6.937

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  11 in total

1.  Literature-Based Discovery of Confounding in Observational Clinical Data.

Authors:  Scott A Malec; Peng Wei; Hua Xu; Elmer V Bernstam; Sahiti Myneni; Trevor Cohen
Journal:  AMIA Annu Symp Proc       Date:  2017-02-10

2.  Embedding of semantic predications.

Authors:  Trevor Cohen; Dominic Widdows
Journal:  J Biomed Inform       Date:  2017-03-08       Impact factor: 6.317

3.  Learning predictive models of drug side-effect relationships from distributed representations of literature-derived semantic predications.

Authors:  Justin Mower; Devika Subramanian; Trevor Cohen
Journal:  J Am Med Inform Assoc       Date:  2018-10-01       Impact factor: 4.497

4.  Exploring Novel Computable Knowledge in Structured Drug Product Labels.

Authors:  Scott A Malec; Richard D Boyce
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2020-05-30

5.  Rapamycin - mTOR + BRAF = ? Using relational similarity to find therapeutically relevant drug-gene relationships in unstructured text.

Authors:  Safa Fathiamini; Amber M Johnson; Jia Zeng; Vijaykumar Holla; Nora S Sanchez; Funda Meric-Bernstam; Elmer V Bernstam; Trevor Cohen
Journal:  J Biomed Inform       Date:  2019-01-04       Impact factor: 6.317

6.  Rediscovering Don Swanson: the Past, Present and Future of Literature-Based Discovery.

Authors:  Neil R Smalheiser
Journal:  J Data Inf Sci       Date:  2017-12

7.  Using computable knowledge mined from the literature to elucidate confounders for EHR-based pharmacovigilance.

Authors:  Scott A Malec; Peng Wei; Elmer V Bernstam; Richard D Boyce; Trevor Cohen
Journal:  J Biomed Inform       Date:  2021-03-11       Impact factor: 6.317

8.  Medical Information Extraction Model for User-generated Content.

Authors:  Fahad Kamal Alsheref
Journal:  Acta Inform Med       Date:  2019-09

9.  An Investigation of Vehicle Behavior Prediction Using a Vector Power Representation to Encode Spatial Positions of Multiple Objects and Neural Networks.

Authors:  Florian Mirus; Peter Blouw; Terrence C Stewart; Jörg Conradt
Journal:  Front Neurorobot       Date:  2019-10-16       Impact factor: 2.650

10.  Broad-coverage biomedical relation extraction with SemRep.

Authors:  Halil Kilicoglu; Graciela Rosemblat; Marcelo Fiszman; Dongwook Shin
Journal:  BMC Bioinformatics       Date:  2020-05-14       Impact factor: 3.169

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