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Lista de obras de Michel Dumontier

3D topography of noncompact zone Golgi tubules in rat spermatids: A computer-assisted serial section reconstruction study

3D topography of noncompact zone Golgi tubules in rat spermatids: a computer-assisted serial section reconstruction study

artículo científico publicado en 1998

A Novel Ensemble-Based Machine Learning Algorithm to Predict the Conversion From Mild Cognitive Impairment to Alzheimer's Disease Using Socio-Demographic Characteristics, Clinical Information, and Neuropsychological Measures

scientific article published on 16 July 2019

A Privacy-Preserving Infrastructure for Analyzing Personal Health Data in a Vertically Partitioned Scenario

scientific article published on 01 August 2019

A Web API Ecosystem through Feature-Based Reuse

scholarly article by Ruben Verborgh published in May 2018

A common layer of interoperability for biomedical ontologies based on OWL EL.

artículo científico publicado en 2011

A comprehensive comparison of automated FAIRness Evaluation Tools ⬇️

A design framework and exemplar metrics for FAIRness

article published in 2017

A design framework and exemplar metrics for FAIRness

artículo científico publicado en 2018

A model for capturing provenance of assertions about chemical substances ⬇️

Achieving human and machine accessibility of cited data in scholarly publications

artículo científico publicado en 2015

Achieving human and machine accessibility of cited data in scholarly publications

Achieving human and machine accessibility of cited data in scholarly publications

Achieving human and machine accessibility of cited data in scholarly publications

Achieving human and machine accessibility of cited data in scholarly publications

Achieving human and machine accessibility of cited data in scholarly publications

article published in 2015

Addendum: The FAIR Guiding Principles for scientific data management and stewardship

article by Mark D Wilkinson et al published 19 March 2019 in Scientific Data

Advancing Discovery Science with FAIR Data Stewardship: Findable, Accessible, Interoperable, Reusable

An Ebola virus-centered knowledge base

artículo científico publicado en 2015

An RDF/OWL knowledge base for query answering and decision support in clinical pharmacogenetics

artículo científico

An evidence-based approach to identify aging-related genes in Caenorhabditis elegans

artículo científico publicado en 2015

Analysis of In Vitro Aptamer Selection Parameters

artículo científico publicado en 2015

Analyzing SPARQL query logs: A study on schema coverage and query content ⬇️

conference paper

Annotation of Existing Databases using Semantic Web Technologies: Making Data more FAIR ⬇️

Aptamer Base: a collaborative knowledge base to describe aptamers and SELEX experiments

artículo científico publicado en 2012

Armadillo: domain boundary prediction by amino acid composition.

artículo científico publicado en 2005

Author Correction: Evaluating FAIR maturity through a scalable, automated, community-governed framework

scientific article published on 21 October 2019

Authors’ Response to Peer Reviews of “Representing Physician Suicide Claims as Nanopublications: Proof-of-Concept Study Creating Claim Networks”

artículo científico publicado en 2022

Automated Identification of Food Substitutions Using Knowledge Graph Embeddings ⬇️

Automated identification of healthier food substitutions through a combination of graph neural networks and nutri-scores

artículo científico publicado en 2024

Automatically exposing OpenLifeData via SADI semantic Web Services

artículo científico publicado en 2014

Automating Identification of Multiple Chronic Conditions in Clinical Practice Guidelines

artículo científico publicado en 2015

Bio2RDF Release 2: Improved Coverage, Interoperability and Provenance of Life Science Linked Data

article by Alison Callahan et al published 2013 in Lecture Notes in Computer Science

Bio2RDF Release 3: A larger, more connected network of Linked Data for the Life Sciences

artículo científico publicado en 2014

BioHackathon 2015: Semantics of data for life sciences and reproducible research

artículo científico publicado en 2020

BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains

artículo científico publicado en 2014

BioSearch: a semantic search engine for Bio2RDF.

artículo científico publicado en 2017

Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science ⬇️

artículo científico publicado en 2022

Bioschemas: schema.org for the Life Sciences

artículo científico publicado en 2018

Biotea, semantics for Pubmed Central

Biotea, semantics for Pubmed Central

Biotea: semantics for Pubmed Central

artículo científico publicado en 2018

Bridging islands of information to establish an integrated knowledge base of drugs and health outcomes of interest

artículo científico publicado en 2014

Building an HIV data mashup using Bio2RDF.

artículo científico publicado en 2011

CO: A chemical ontology for identification of functional groups and semantic comparison of small molecules

artículo científico

Chemical Entity Semantic Specification: Knowledge representation for efficient semantic cheminformatics and facile data integration

artículo científico publicado en 2011

Chemical Knowledge for the Semantic Web

Cleaning by clustering: methodology for addressing data quality issues in biomedical metadata

artículo científico publicado en 2017

Cloudy, increasingly FAIR; revisiting the FAIR Data guiding principles for the European Open Science Cloud

artículo científico publicado en 2017

Columbia Open Health Data, clinical concept prevalence and co-occurrence from electronic health records

article

Comparing Drug-Disease Associations in Clinical Practice Guideline Recommendations and Drug Product Label Indications

artículo científico publicado en 2015

Computational approaches toward the design of pools for the in vitro selection of complex aptamers

artículo científico publicado en 2010

Computational methods for predicting protein-protein interactions

artículo científico publicado en 2008

Considerations for the Conduction and Interpretation of FAIRness Evaluations

Construction of a knowledge graph for food health claims ⬇️

conference paper

Controlled vocabularies and semantics in systems biology

artículo científico publicado en 2011

CrowdED 1.0: Statistical Guideline for Designing Optimal Crowdsourcing Experiments ⬇️

artículo científico publicado en 2024

Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis

artículo científico publicado en 2016

Data Science – Methods, infrastructure, and applications

artículo científico publicado en 2017

Data2Services: enabling automated conversion of data to services ⬇️

article published in 2018

Decentralized provenance-aware publishing with nanopublications

preprint from 2016

Decentralized provenance-aware publishing with nanopublications

peer-reviewed article from August 2016

Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop

artículo científico publicado en 2017

Development of Small-Molecule Ligands and Inhibitors

article

Discovering associations between adverse drug events using pattern structures and ontologies.

artículo científico publicado en 2017

Disruption of fungal cell wall by antifungal Echinacea extracts

artículo científico publicado en 2010

Domain-based small molecule binding site annotation

artículo científico publicado en 2006

Drug-drug Interaction Extraction via Hierarchical RNNs on Sequence and Shortest Dependency Paths

artículo científico publicado en 2017

Drug-drug interaction data source survey and linking

artículo científico publicado en 2014

Drug-drug interaction discovery and demystification using Semantic Web technologies

artículo científico

Enhanced GAT: Expanding Receptive Field with Meta Path-Guided RDF Rules for Two-Hop Connectivity ⬇️

artículo científico publicado en 2023

Erratum: Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis

artículo científico publicado en 2016

Evaluating FAIR maturity through a scalable, automated, community-governed framework

artículo científico publicado en 2019

Evaluating FAIR-Compliance Through an Objective, Automated, Community-Governed Framework

Evaluating Scientific Hypotheses Using the SPARQL Inferencing Notation

article

Evaluation of knowledge graph embedding approaches for drug-drug interaction prediction in realistic settings

artículo científico publicado en 2019

Evaluation of knowledge graph embedding approaches for drug-drug interaction prediction using Linked Open Data ⬇️

Evaluation of research in biomedical ontologies ⬇️

artículo científico publicado el 8 de septiembre de 2012

Evaluation of the OQuaRE framework for ontology quality

article

Experience: Automated Prediction of Experimental Metadata from Scientific Publications

Explaining Graph Neural Network predictions for drug repurposing ⬇️

conference paper

Exploring the role of generative AI in constructing knowledge graphs for drug indications with medical context ⬇️

conference paper

Exposing Provenance Metadata Using Different RDF Models ⬇️

FAIR Principles for Clinical Practice Guidelines in a Learning Health System

scientific article published on 01 August 2019

FAIR Principles: Interpretations and Implementation Considerations

scholarly article

FAIRsharing, a cohesive community approach to the growth in standards, repositories and policies

FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation

artículo científico publicado en 2016

Feasibility of Prioritizing Drug-Drug-Event Associations Found in Electronic Health Records

artículo científico publicado en 2015

Finding melanoma drugs through a probabilistic knowledge graph

Finding melanoma drugs through a probabilistic knowledge graph

Finding our way through phenotypes

artículo científico publicado en 2015

Finding the Evidence Base Using Citation Networks: Do 300 to 400 US Physicians Die by Suicide Annually?

artículo científico publicado en 2020

Formalizing drug indications on the road to therapeutic intent.

artículo científico publicado en 2017

GFVO: the Genomic Feature and Variation Ontology

artículo científico publicado en 2015

Genuine semantic publishing

artículo científico publicado en 2017

Global investigation of protein-protein interactions in yeast Saccharomyces cerevisiae using re-occurring short polypeptide sequences.

artículo científico publicado en 2008

GridCell: a stochastic particle-based biological system simulator

artículo científico publicado en 2008

Hardware-accelerated protein identification for mass spectrometry

artículo científico publicado en 2005

HyQue: evaluating hypotheses using Semantic Web technologies ⬇️

artículo científico publicado en 2011

Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data

artículo científico publicado en 2017

Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data

artículo científico publicado en 2017

Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics ⬇️

artículo científico publicado el 17 de junio de 2012

Improved Dataset Coverage and Interoperability with Bio2RDF Release 2 ⬇️

In-silico Prediction of Synergistic Anti-Cancer Drug Combinations Using Multi-omics Data

scientific article published on 20 June 2019

Integrating findings of traditional medicine with modern pharmaceutical research: the potential role of linked open data

artículo científico publicado en 2010

Integrating systems biology models and biomedical ontologies

artículo científico publicado en 2011

Integration and publication of heterogeneous text-mined relationships on the Semantic Web ⬇️

artículo científico publicado en 2011

Interoperability and FAIRness through a novel combination of Web technologies ⬇️

artículo científico publicado en 2017

Interoperability and FAIRness through a novel combination of Web technologies

Interoperability and FAIRness through a novel combination of Web technologies

Interoperability and FAIRness through a novel combination of Web technologies

Interoperability between biomedical ontologies through relation expansion, upper-level ontologies and automatic reasoning

artículo científico publicado en 2011

Interoperability of text corpus annotations with the semantic web.

artículo científico publicado en 2015

Is Crowdsourcing Patient-Reported Outcomes the Future of Evidence-Based Medicine? A Case Study of Back Pain

article

Is the crowd better as an assistant or a replacement in ontology engineering? An exploration through the lens of the Gene Ontology

artículo científico publicado en 2016

Knowledge Graph Completeness: A Systematic Literature Review

LSQ 2.0: A linked dataset of SPARQL query logs ⬇️

artículo científico publicado en 2024

LUCE: A blockchain-based data sharing platform for monitoring data license accoUntability and CompliancE

artículo científico publicado en 2022

Link Analysis of Life Science Linked Data

article

Linked Data in Drug Discovery

article

Machine Learning Based Drug Indication Prediction Using Linked Open Data ⬇️

scholarly article by Remzi Çelebí et al published 10 January 2018 in Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences

Making Digital Artifacts on the Web Verifiable and Reliable ⬇️

Making Linked Data SPARQL with the InterMine Biological Data Warehouse ⬇️

Mining Electronic Health Records using Linked Data

artículo científico publicado en 2015

MoSuMo: A Semantic Web service to generate electrostatic potentials across solvent excluded protein surfaces and binding pockets

Modeling and querying graphical representations of statistical data

Modeling tryptic digestion on the Cell BE processor

Mondo: Unifying diseases for the world, by the world

Mouse model phenotypes provide information about human drug targets

scientific article published on 24 October 2013

NBLAST: a cluster variant of BLAST for NxN comparisons

artículo científico publicado en 2002

Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked Data ⬇️

article published in 2018

Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked Data

Nanotate: Semantically annotating experimental protocols with nanopublications ⬇️

Network Ranking Assisted Semantic Data Mining

Ontology-Based Querying with Bio2RDF's Linked Open Data

artículo científico publicado en 2013

Overlap in drug-disease associations between clinical practice guidelines and drug structured product label indications

artículo científico publicado en 2016

Pharmacogenomic knowledge representation, reasoning and genome-based clinical decision support based on OWL 2 DL ontologies

artículo científico publicado en 2015

Predicting biomedical metadata in CEDAR: A study of Gene Expression Omnibus (GEO).

artículo científico publicado en 2017

Predicting structured metadata from unstructured metadata

artículo científico publicado en 2016

Predicting structured metadata from unstructured metadata.

artículo científico publicado en 2016

Predicting the need for a reduced drug dose, at first prescription

artículo científico publicado en 2018

Prototype semantic infrastructure for automated small molecule classification and annotation in lipidomics

artículo científico publicado en 2011

Provenance-Centered Dataset of Drug-Drug Interactions

scientific article published at ISWC 2015

PubChemRDF: towards the semantic annotation of PubChem compound and substance databases ⬇️

artículo científico

Publishing DisGeNET as Nanopublications

preprint on biorXiv

Publishing DisGeNET as nanopublications

article

Publishing Without Publishers: A Decentralized Approach to Dissemination, Retrieval, and Archiving of Data

article

Putting FAIR Evidence into Practice

article

RKB: a Semantic Web knowledge base for RNA.

artículo científico publicado en 2010

Ranking adverse drug reactions with crowdsourcing.

artículo científico publicado en 2015

Relations as patterns: bridging the gap between OBO and OWL

artículo científico publicado en 2010

Report on semantic web for health care and life sciences workshop

Representing Physician Suicide Claims as Nanopublications: Proof-of-Concept Study Creating Claim Networks

artículo científico publicado en 2022

SIENA: Semi-automatic semantic enhancement of datasets using concept recognition

SPARQL-enabled identifier conversion with Identifiers.org

artículo científico publicado en 2015

Selected papers from the 14th Annual Bio-Ontologies Special Interest Group Meeting

artículo científico publicado en 2012

Selected papers from the 15th Annual Bio-Ontologies Special Interest Group Meeting

artículo científico publicado en 2013

Selected papers from the 16th Annual Bio-Ontologies Special Interest Group Meeting.

artículo científico publicado en 2014

Self-organizing ontology of biochemically relevant small molecules

artículo científico publicado en 2012

Semantic Query Answering with Time-Series Graphs

Semantic Systems Biology: Formal Knowledge Representation in Systems Biology for Model Construction, Retrieval, Validation and Discovery

article

Semantic Web integration of Cheminformatics resources with the SADI framework

artículo científico publicado en 2011

Semantic micro-contributions with decentralized nanopublication services

artículo científico publicado en 2021

Semantically enabling pharmacogenomic data for the realization of personalized medicine

artículo científico publicado en 2012

Semantics-Powered Healthcare Engineering and Data Analytics

artículo científico publicado en 2017

SeqHound: biological sequence and structure database as a platform for bioinformatics research

artículo científico publicado en 2002

Special issue on bio-ontologies and phenotypes

artículo científico publicado en 2015

Species-specific protein sequence and fold optimizations

artículo científico publicado en 2002

State of the art and open challenges in community-driven knowledge curation

Target Profiling of Small Molecules

Ten simple rules for making training materials FAIR

Scientific Article

Ten simple rules for making training materials FAIR

The Biomolecular Interaction Network Database and related tools 2005 update

artículo científico publicado en 2005

The Chemical Information Ontology: provenance and disambiguation for chemical data on the biological semantic web

artículo científico publicado en 2011

The FAIR Guiding Principles for scientific data management and stewardship

artículo científico publicado en 2016

The Ontology for Biomedical Investigations

artículo científico publicado en 2016

The SADI Personal Health Lens: A Web Browser-Based System for Identifying Personally Relevant Drug Interactions

artículo científico publicado en 2013

The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery ⬇️

artículo científico publicado en 2014

The SmartAPI Ecosystem for Making Web APIs FAIR

artículo científico publicado en 2017

The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside ⬇️

artículo científico publicado en 2011

The center for expanded data annotation and retrieval

artículo científico publicado en 2015

The digital revolution in phenotyping

artículo científico publicado en 2015

The emergence and evolution of the research fronts in HIV/AIDS research

artículo científico publicado en 2017

The health care and life sciences community profile for dataset descriptions

artículo científico publicado en 2016

The health care and life sciences community profile for dataset descriptions

The health care and life sciences community profile for dataset descriptions

The health care and life sciences community profile for dataset descriptions

article published in 2016

Thematic issue of the Second combined Bio-ontologies and Phenotypes Workshop

artículo científico

Towards an interoperable information infrastructure providing decision support for genomic medicine

artículo científico publicado el 1 de enero de 2011

Towards pharmacogenomics knowledge discovery with the semantic web.

artículo científico

Transformation and Integration of Heterogeneous Health Data in a Privacy-preserving Distributed Learning Infrastructure ⬇️

Trusty URIs: Verifiable, Immutable, and Permanent Digital Artifacts for Linked Data ⬇️

Using LASSO Regression to Predict Rheumatoid Arthritis Treatment Efficacy

artículo científico publicado en 2016

Using the Personal Health Train for Automated and Privacy-Preserving Analytics on Vertically Partitioned Data

Vec2SPARQL: integrating SPARQL queries and knowledge graph embeddings

Vec2SPARQL: integrating SPARQL queries and knowledge graph embeddings ⬇️

smartAPI: Towards a More Intelligent Network of Web APIs

artículo científico publicado en 2017

yOWL: an ontology-driven knowledge base for yeast biologists

artículo científico

Toward a complete dataset of drug-drug interaction information from publicly available sources

artículo científico publicado en 2015

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