K. Bretonnel Cohen

According to our database1, K. Bretonnel Cohen authored at least 108 papers between 2002 and 2019.

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Bibliography

2019
Special Issue on the Curative Power of Medical Data.
Data, 2019

2018
Improving precision in concept normalization.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

A Modular Ontology for Modeling Service Provision in a Communication Network for Coordination of Care.
Proceedings of the Building Continents of Knowledge in Oceans of Data: The Future of Co-Created eHealth, 2018

Three Dimensions of Reproducibility in Natural Language Processing.
Proceedings of the Eleventh International Conference on Language Resources and Evaluation, 2018

The Curative Power of Medical Data.
Proceedings of the 18th ACM/IEEE on Joint Conference on Digital Libraries, 2018

De l'intérêt des ontologies modulaires. Application à la modélisation de la prise en charge de la SLA.
Proceedings of the IC 2018 : 29es Journées francophones d'Ingénierie des Connaissances (Proceedings of the 29th French Knowledge Engineering Conference), 2018

Trigger Words Detection by Integrating Attention Mechanism into Bi-LSTM Neural Network - A Case Study in PubMED-Wide Trigger Words Detection for Pancreatic Cancer.
Proceedings of the Chinese Computational Linguistics and Natural Language Processing Based on Naturally Annotated Big Data, 2018

Guideline Design of an Active Gene Annotation Corpus for the Purpose of Drug Repurposing.
Proceedings of the 11th International Congress on Image and Signal Processing, 2018

CRF-LSTM Text Mining Method Unveiling the Pharmacological Mechanism of Off-target Side Effect of Anti-Multiple Myeloma Drugs.
Proceedings of the BioNLP 2018 workshop, Melbourne, Australia, July 19, 2018, 2018

2017
Erratum to: Replicability and reproducibility of research results for human language technology: introducing an LRE special section.
Language Resources and Evaluation, 2017

Replicability and reproducibility of research results for human language technology: introducing an LRE special section.
Language Resources and Evaluation, 2017

A nonparametric Bayesian method of translating machine learning scores to probabilities in clinical decision support.
BMC Bioinformatics, 2017

Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles.
BMC Bioinformatics, 2017

Semantic Relations in Compound Nouns: Perspectives from Inter-Annotator Agreement.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

Translational Morphosyntax: Distribution of Negation in Clinical Records and Biomedical Journal Articles.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

Inter-Annotator Agreement and the Upper Limit on Machine Performance: Evidence from Biomedical Natural Language Processing.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

CLEF eHealth 2017 Multilingual Information Extraction task Overview: ICD10 Coding of Death Certificates in English and French.
Proceedings of the Working Notes of CLEF 2017, 2017

A semantic knowledge-base approach to drug-drug interaction discovery.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

Reproducibility in Biomedical Natural Language Processing.
Proceedings of the AMIA 2017, 2017

2016
Introduction.
TAL, 2016

Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition.
J. Biomedical Semantics, 2016

Crowdsourcing and curation: perspectives from biology and natural language processing.
Database, 2016

SuperCAT: The (New and Improved) Corpus Analysis Toolkit.
Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016

Clinical Information Extraction at the CLEF eHealth Evaluation lab 2016.
Proceedings of the Working Notes of CLEF 2016, 2016

Replicability of Research in Biomedical Natural Language Processing: a pilot evaluation for a coding task.
Proceedings of the Seventh International Workshop on Health Text Mining and Information Analysis, 2016

2015
Training the Next Generation of Quantitative Biologists in the Era of Big Data.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

Measuring the readability of medical research journal abstracts.
Proceedings of the Workshop on Biomedical Natural Language Processing, BioNLP@IJCNLP 2015, 2015

2014
Research and applications: Assessing the similarity of surface linguistic features related to epilepsy across pediatric hospitals.
JAMIA, 2014

Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters.
BMC Bioinformatics, 2014

BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.
J. Biomedical Semantics, 2014

BioCreative-IV virtual issue.
Database, 2014

Session introduction.
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014

Combining Heterogenous Data for Prediction of Disease Related and Pharmacogenes.
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014

Ontology Translation: A Case Study on Translating the Gene Ontology from English to German.
Proceedings of the Natural Language Processing and Information Systems, 2014

Sublanguage Corpus Analysis Toolkit: A tool for assessing the representativeness and sublanguage characteristics of corpora.
Proceedings of the Ninth International Conference on Language Resources and Evaluation, 2014

A repository of semantic types in the MIMIC II database clinical notes.
Proceedings of BioNLP, Baltimore, Maryland, USA, 2014

Temporal Expression Recognition for Cell Cycle Phase Concepts in Biomedical Literature.
Proceedings of BioNLP, Baltimore, Maryland, USA, 2014

Proceedings of BioNLP 2014.
Proceedings of BioNLP, Baltimore, Maryland, USA, 2014

2013
Chapter 16: Text Mining for Translational Bioinformatics.
PLoS Computational Biology, 2013

Mining FDA drug labels for medical conditions.
BMC Med. Inf. & Decision Making, 2013

BioC: a minimalist approach to interoperability for biomedical text processing.
Database, 2013

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task.
Database, 2013

UColorado_SOM: Extraction of Drug-Drug Interactions from Biomedical Text using Knowledge-rich and Knowledge-poor Features.
Proceedings of the 7th International Workshop on Semantic Evaluation, 2013

Closure Properties of Bulgarian Clinical Text.
Proceedings of the Recent Advances in Natural Language Processing, 2013

Measuring Closure Properties of Patent Sublanguages.
Proceedings of the Recent Advances in Natural Language Processing, 2013

Session introduction.
Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

Recognizing Sublanguages in Scientific Journal Articles through Closure Properties.
Proceedings of the 2013 Workshop on Biomedical Natural Language Processing, 2013

Earlier Identification of Epilepsy Surgery Candidates Using Natural Language Processing.
Proceedings of the 2013 Workshop on Biomedical Natural Language Processing, 2013

Evaluation of SPARQL query generation from natural language questions.
Proceedings of the Joint Workshop on NLP&LOD and SWAIE: Semantic Web, 2013

2012
The state of the art in text mining and natural language processing for pharmacogenomics.
Journal of Biomedical Informatics, 2012

A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools.
BMC Bioinformatics, 2012

Concept annotation in the CRAFT corpus.
BMC Bioinformatics, 2012

BioCreative-2012 Virtual Issue.
Database, 2012

Text mining for the biocuration workflow.
Database, 2012

Mining the pharmacogenomics literature - a survey of the state of the art.
Briefings in Bioinformatics, 2012

Session introduction.
Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012

Assessment of Software Testing and Quality Assurance in Natural Language Processing Applications and a Linguistically Inspired Approach to Improving It.
Proceedings of the Trustworthy Eternal Systems via Evolving Software, Data and Knowledge, 2012

2011
U-Compare: A modular NLP workflow construction and evaluation system.
IBM Journal of Research and Development, 2011

Amazon Mechanical Turk: Gold Mine or Coal Mine?
Computational Linguistics, 2011

High-Precision Biological Event Extraction: Effects of System and of Data.
Computational Intelligence, 2011

U-Compare bio-event meta-service: compatible BioNLP event extraction services.
BMC Bioinformatics, 2011

Overview of the BioCreative III Workshop.
BMC Bioinformatics, 2011

MetaMap is a Superior Baseline to a Standard Document Retrieval Engine for the Task of Finding Patient Cohorts in Clinical Free Text.
Proceedings of The Twentieth Text REtrieval Conference, 2011

Workshop Introduction.
Proceedings of the Biocomputing 2011: Proceedings of the Pacific Symposium, 2011

Hypothesis and Evidence Extraction from Full-Text Scientific Journal Articles.
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, 2011

Fast and simple semantic class assignment for biomedical text.
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, 2011

A scaleable automated quality assurance technique for semantic representations and proposition banks.
Proceedings of the Fifth Linguistic Annotation Workshop, 2011

2010
Exploring Species-Based Strategies for Gene Normalization.
IEEE/ACM Trans. Comput. Biology Bioinform., 2010

The structural and content aspects of abstracts versus bodies of full text journal articles are different.
BMC Bioinformatics, 2010

Integrating text mining into high-throughput assay analysis.
BMC Bioinformatics, 2010

Test Suite Design for Biomedical Ontology Concept Recognition Systems.
Proceedings of the International Conference on Language Resources and Evaluation, 2010

Visualization and Language Processing for Supporting Analysis across the Biomedical Literature.
Proceedings of the Knowledge-Based and Intelligent Information and Engineering Systems, 2010

2009
Current issues in biomedical text mining and natural language processing.
Journal of Biomedical Informatics, 2009

Text mining and manual curation of chemical-gene-disease networks for the Comparative Toxicogenomics Database (CTD).
BMC Bioinformatics, 2009

The textual characteristics of traditional and Open Access scientific journals are similar.
BMC Bioinformatics, 2009

Ontology quality assurance through analysis of term transformations.
Bioinformatics, 2009

U-Compare: share and compare text mining tools with UIMA.
Bioinformatics, 2009

High-precision biological event extraction with a concept recognizer.
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, BioNLP@HLT-NAACL 2009, 2009

2008
Getting Started in Text Mining.
PLoS Computational Biology, 2008

OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression.
BMC Bioinformatics, 2008

Themes in biomedical natural language processing: BioNLP08.
BMC Bioinformatics, 2008

Session Introduction.
Proceedings of the Biocomputing 2008, 2008

Intrinsic Evaluation of Text Mining Tools May Not Predict Performance on Realistic Tasks.
Proceedings of the Biocomputing 2008, 2008

iProLINK: A Framework for Linking Text Mining with Ontology and Systems Biology.
Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008

Software Testing and the Naturally Occurring Data Assumption in Natural Language Processing.
Proceedings of the Software Engineering, 2008

2007
Rapid Pattern Development for Concept Recognition Systems: Application to Point mutations.
J. Bioinformatics and Computational Biology, 2007

MutationFinder: a high-performance system for extracting point mutation mentions from text.
Bioinformatics, 2007

Frontiers of biomedical text mining: current progress.
Briefings in Bioinformatics, 2007

Session Introduction.
Proceedings of the Biocomputing 2007, 2007

Generif Quality Assurance as Summary Revision.
Proceedings of the Biocomputing 2007, 2007

A Fault Model for Ontology Mapping, Alignment, and Linking Systems.
Proceedings of the Biocomputing 2007, 2007

BioNLP.
Proceedings of the Human Language Technology Conference of the North American Chapter of the Association of Computational Linguistics, 2007

Manual curation is not sufficient for annotation of genomic databases.
Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007

A shared task involving multi-label classification of clinical free text.
Proceedings of the Biological, translational, and clinical language processing, 2007

2006
Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering.
Proceedings of the Fifteenth Text REtrieval Conference, 2006

A critical review of PASBio's argument structures for biomedical verbs.
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, 2006

Finding GeneRIFs via Gene Ontology Annotations.
Proceedings of the Biocomputing 2006, 2006

Evaluation of Lexical Methods for Detecting Relationships Between Concepts from Multiple Ontologies.
Proceedings of the Biocomputing 2006, 2006

Session Introduction.
Proceedings of the Biocomputing 2006, 2006

Refactoring Corpora.
Proceedings of the Workshop on Linking Natural Language and Biology, 2006

2005
BioCreAtIvE Task1A: entity identification with a stochastic tagger.
BMC Bioinformatics, 2005

Concept Recognition and the TREC Genomics Tasks.
Proceedings of the Fourteenth Text REtrieval Conference, 2005

Implications of Compositionality in the Gene Ontology for Its Curation and Usage .
Proceedings of the Biocomputing 2005, 2005

Corpus Design for Biomedical Natural Language Processing.
Proceedings of the ACL-ISMB Workshop on Linking Biological Literature, 2005

Empirical data on corpus design and usage in biomedical natural language processing.
Proceedings of the AMIA 2005, 2005

2004
Natural Language Processing and Systems Biology.
Proceedings of the Artificial Intelligence Methods And Tools For Systems Biology, 2004

The Compositional Structure of Gene Ontology Terms.
Proceedings of the Biocomputing 2004, 2004

2002
Contrast and variability in gene names.
Proceedings of the ACL 2002 Workshop on Natural Language Processing in the Biomedical Domain, 2002


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