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List of works by Francisco M. Couto

Accurate Filtering of Privacy-Sensitive Information in Raw Genomic Data.

scientific article published on 13 April 2018

AgreementMakerLight 2.0: Towards Efficient Large-Scale Ontology Matching

scientific article published in proceedings of the iswc 2014 posters & demonstrations track

Annotation extension through protein family annotation coherence metrics

scientific article published on 11 October 2013

Application of gene ontology to gene identification.

scientific article published on January 2011

Assessing Public Metabolomics Metadata, Towards Improving Quality.

scientific article published on 13 December 2017

Automatic background knowledge selection for matching biomedical ontologies

scientific article

Automatic concept recognition using the human phenotype ontology reference and test suite corpora

scientific article

BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies

scientific article published on 07 January 2019

Carbohydrate-Active Enzymes Database: Principles and Classification of Glycosyltransferases

Chemical Entity Recognition and Resolution to ChEBI.

scientific article

DNA-SeAl: Sensitivity Levels to Optimize the Performance of Privacy-Preserving DNA Alignment

scientific article published on 28 June 2019

Disjunctive shared information between ontology concepts: application to Gene Ontology ⬇️

scientific article published on August 31, 2011

Enhancement of Chemical Entity Identification in Text Using Semantic Similarity Validation ⬇️

scientific article published on May 2, 2013

Enrichment analysis applied to disease prognosis

scientific article

Exploiting disjointness axioms to improve semantic similarity measures

scientific article published on 03 September 2013

Extracting microRNA-gene relations from biomedical literature using distant supervision

scientific article

Facts from text--is text mining ready to deliver?

scientific article

Finding genomic ontology terms in text using evidence content

scientific article published on 24 May 2005

Friendsourcing the unmet needs of people with dementia

scholarly article published 2014

FunVar: A systematic pipeline to unravel the convergence patterns of genetic variants in ASD, a paradigmatic complex disease

scientific article published on 24 August 2019

Functional coherence metrics in protein families

scientific article

GOAnnotator: linking protein GO annotations to evidence text

scientific article published on 20 December 2006

GRYFUN: a web application for GO term annotation visualization and analysis in protein sets

scientific article published on 20 March 2015

Generating a Tolerogenic Cell Therapy Knowledge Graph from Literature.

scientific article published on 29 November 2017

Hybrid semantic recommender system for chemical compounds in large-scale datasets

scientific article published on 23 February 2021

Identification of biological mechanisms underlying a multidimensional ASD phenotype using machine learning

scientific article published on 28 January 2020

Identifying Human Phenotype Terms by Combining Machine Learning and Validation Rules

scientific article published on 9 November 2017

Identifying bioentity recognition errors of rule-based text-mining systems

Identifying disease genes using machine learning and gene functional similarities, assessed through Gene Ontology

scientific article published in PLoS ONE

Identifying interactions between chemical entities in biomedical text

scientific article published on 23 October 2014

Impact of translation on named-entity recognition in radiology texts

scientific article published in January 2017

Improving chemical entity recognition through h-index based semantic similarity

scientific article

Knowledge Representation and Management: a Linked Data Perspective

scientific article

Linking chemical and disease entities to ontologies by integrating PageRank with extracted relations from literature

scientific article published on 21 September 2020

MER: a shell script and annotation server for minimal named entity recognition and linking

scientific article published on 05 December 2018

Measuring semantic similarity between Gene Ontology terms

article

Metrics for GO based protein semantic similarity: a systematic evaluation

scientific article

Molecular profiling of the human nasal epithelium: A proteomics approach

scientific article published on 18 May 2011

Multi-domain semantic similarity in biomedical research.

scientific article published on 29 May 2019

On the usefulness of ontologies in epidemiology research and practice

scientific article (publication date: May 2013)

Ontology Alignment Repair through Modularization and Confidence-Based Heuristics

scientific article published on 28 December 2015

PPR-SSM: personalized PageRank and semantic similarity measures for entity linking

scientific article published on 29 October 2019

Predicting the Extension of Biomedical Ontologies ⬇️

scientific article published on September 13, 2012

Semantic Similarity for Automatic Classification of Chemical Compounds ⬇️

scientific article published on September 23, 2010

Semantic similarity in biomedical ontologies

scientific article

Semantic similarity over the gene ontology

article

Serum proteomics signature of cystic fibrosis patients: a complementary 2-DE and LC-MS/MS approach.

scientific article

Survey on Recommender Systems for Biomedical Items in Life and Health Sciences

scientific article published in 2024

Tackling the challenges of matching biomedical ontologies

scientific article published on 15 January 2018

The CHEMDNER corpus of chemicals and drugs and its annotation principles

scientific article

The epidemiology ontology: an ontology for the semantic annotation of epidemiological resources

scientific article published on 17 January 2014

The next generation of similarity measures that fully explore the semantics in biomedical ontologies

scientific article published on 18 July 2013

The semantic web in translational medicine: current applications and future directions

scientific article

Toward a Translational Medicine Approach for Hypertrophic Cardiomyopathy

Towards Annotating Potential Incoherences in BioPortal Mappings

scientific article published at ISWC 2014

Using Neural Networks for Relation Extraction from Biomedical Literature

scientific article published on 01 January 2021

What’s in a ‘nym’? Synonyms in Biomedical Ontology Matching

scientific article published at ISWC 2013

Witches' broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo

scientific article published on 23 November 2018

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