linguistically motivated perspective (2009)
Bmc Bioinformatics, Halil Kilicoglu, Sabine Bergler
This is an open access article distributed under the terms of the Creative Commons Attribution License
Kilicoglu, Halil, Bergler, Sabine
Abstract Background Due to the nature of scientific methodology, research articles are rich in speculative and tentative statements, also known as hedges. We explore a linguistically motivated...
Medical Facts to Support Inferencing in Natural Language Processing (2008)
Thomas C. Rindflesch, B Marcelo Fiszman, Halil Kilicoglu
We report on the use of medical facts to support the enhancement of natural language processing of biomedical text. Inferencing in semantic interpretation depends on a fact repository as well as an...
Masseroli, Marco, Kilicoglu, Halil, Lang, François-Michel, Rindflesch, Thomas C
Abstract Background Genomic functional information is valuable for biomedical research. However, such information frequently needs to be extracted from the scientific literature and structured in...
Susanne M. Humphrey, Willie J. Rogers, Halil Kilicoglu, Dina Demner-fushman, Thomas C. Rindflesch
An experiment was performed at the National Library of Medicine ® (NLM ® ) in word sense disambiguation (WSD) using the Journal Descriptor Indexing (JDI) methodology. The motivation is the need to...
Susanne M. Humphrey, Willie J. Rogers, Halil Kilicoglu, Dina Demner-fushman, Thomas C. Rindflesch
An experiment was performed at the National Library of Medicine ® (NLM ® ) in word sense disambiguation (WSD) using the Journal Descriptor Indexing (JDI) methodology. The motivation is the need to...
Bmc Bioinformatics, Marco Masseroli, Halil Kilicoglu, François-michel Lang, Thomas C Rindflesch
Research article Argument-predicate distance as a filter for enhancing precision in extracting predications on the genetic etiology of disease
Abstraction summarization for managing the biomedical research literature (2004)
Marcelo Fiszman, Thomas C. Rindflesch, Halil Kilicoglu
We explore a semantic abstraction approach to automatic summarization in the biomedical domain. The approach relies on a semantic processor that functions as the source interpreter and produces a...
Abstraction summarization for managing the biomedical research literature (2004)
Marcelo Fiszman, Thomas C. Rindflesch, Halil Kilicoglu
We explore a semantic abstraction approach to automatic summarization in the biomedical domain. The approach relies on a semantic processor that functions as the source interpreter and produces a...
Abstraction Summarization for Managing the Biomedical (2004)
Research Literature Marcelo, Marcelo Fiszman, Thomas C. Rindflesch, Halil Kilicoglu
We explore a semantic abstraction approach to automatic summarization in the biomedical domain. The approach relies on a semantic processor that functions as the source interpreter and produces a...
Summarization of an Online Medical Encyclopedia (2004)
Marcelo Fiszman, Marcelo Fiszman, Thomas C. Rindflesch, Thomas C. Rindflesch, Halil Kilicoglu, ...
We explore a knowledge-rich (abstraction) approach to summarization and apply it to multiple documents from an online medical encyclopedia. A semantic processor functions as the source interpreter...
Semantic knowledge representation project: A report to the board of scientific counselors (1998)
Thomas C. Rindflesch, Marcelo Fiszman, Halil Kilicoglu, Bisharah Libbus
Integrating a Hypernymic Proposition Interpreter into a Semantic Processor for Biomedical Texts
Fiszman, Marcelo, Rindflesch, Thomas C., Kilicoglu, Halil
Semantic processing provides the potential for producing high quality results in natural language processing (NLP) applications in the biomedical domain. In this paper, we address a specific semantic...
Interpreting Hypernymic Propositions in an Online Medical Encyclopedia
Fiszman, Marcelo, Rindflesch, Thomas C., Kilicoglu, Halil
Interpretation of semantic propositions from biomedical texts documents would provide valuable support to natural language processing (NLP) applications. We are developing a methodology to interpret...
Semantic Relations Asserting the Etiology of Genetic Diseases
Rindflesch, Thomas C., Libbus, Bisharah, Hristovski, Dimitar, Aronson, Alan R., Kilicoglu, Halil
Considerable research is being directed at extracting molecular biology information from text. Particularly challenging in this regard is to identify relations between entities, such as...
Integrating a Hypernymic Proposition Interpreter into a Semantic Processor for Biomedical Texts
Fiszman, Marcelo, Rindflesch, Thomas C., Kilicoglu, Halil
Semantic processing provides the potential for producing high quality results in natural language processing (NLP) applications in the biomedical domain. In this paper, we address a specific semantic...
Interpreting Hypernymic Propositions in an Online Medical Encyclopedia
Fiszman, Marcelo, Rindflesch, Thomas C., Kilicoglu, Halil
Interpretation of semantic propositions from biomedical texts documents would provide valuable support to natural language processing (NLP) applications. We are developing a methodology to interpret...
Semantic Relations Asserting the Etiology of Genetic Diseases
Rindflesch, Thomas C., Libbus, Bisharah, Hristovski, Dimitar, Aronson, Alan R., Kilicoglu, Halil
Considerable research is being directed at extracting molecular biology information from text. Particularly challenging in this regard is to identify relations between entities, such as...
Summarizing Drug Information in Medline Citations
Fiszman, Marcelo, Rindflesch, Thomas C., Kilicoglu, Halil
Adverse drug events and drug-drug interactions are a major concern in patient care. Although databases exist to provide information about drugs, they are not always up-to-date and complete...
Medical Facts to Support Inferencing in Natural Language Processing
Rindflesch, Thomas C., Pakhomov, Serguei V., Fiszman, Marcelo, Kilicoglu, Halil, Sanchez, Vincent R.
We report on the use of medical facts to support the enhancement of natural language processing of biomedical text. Inferencing in semantic interpretation depends on a fact repository as well as an...
Towards Automatic Recognition of Scientifically Rigorous Clinical Research Evidence
Kilicoglu, Halil, Demner-Fushman, Dina, Rindflesch, Thomas C., Wilczynski, Nancy L., Haynes, R. Brian
The growing numbers of topically relevant biomedical publications readily available due to advances in document retrieval methods pose a challenge to clinicians practicing evidence-based medicine. It...
Using the Literature-Based Discovery Paradigm to Investigate Drug Mechanisms
Ahlers, Caroline B., Hristovski, Dimitar, Kilicoglu, Halil, Rindflesch, Thomas C.
Drug therapies are often used effectively without their underlying mechanism being completely understood. We exploit the literature-based discovery paradigm to investigate these mechanisms and...
Toward Automatic Recognition of High Quality Clinical Evidence
Kilicoglu, Halil, Demner-Fushman, Dina, Rindflesch, Thomas C., Wilczynski, Nancy L., Haynes, R. Brian
Automatic methods for recognizing topically relevant documents supported by high quality research can assist clinicians in practicing evidence-based medicine. We approach the challenge of identifying...