Literature mining, ontologies and information visualization for drug repurposing

Relations as patterns: bridging the gap between OBO and OWL

(2010) Robert Hoehndorf et al.   BMC BIOINFORMATICS

Mining connections between chemicals, proteins, and diseases extracted from Medline annotations

(2010) Nancy C. Baker et al.   JOURNAL OF BIOMEDICAL INFORMATICS

A Semantic Web Ontology for Small Molecules and Their Biological Targets

(2010) JooYoung Choi et al.   Journal of Chemical Information and Modeling

Automated Network Analysis Identifies Core Pathways in Glioblastoma

(2010) Ethan Cerami et al.   PLoS One

Discovery of drug mode of action and drug repositioning from transcriptional responses

(2010) F. Iorio et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unveiling the role of network and systems biology in drug discovery

(2010) Albert Pujol et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Drug Discovery in a Multidimensional World: Systems, Patterns, and Networks

(2010) Joel T. Dudley et al.   Journal of Cardiovascular Translational Research

WENDI: A tool for finding non-obvious relationships between compounds and biological properties, genes, diseases and scholarly publications

(2010) Qian Zhu et al.   Journal of Cheminformatics

COMPUTATIONAL APPROACHES FOR DRUG REPOSITIONING AND COMBINATION THERAPY DESIGN

(2010) EKATERINA KOTELNIKOVA et al.   Journal of Bioinformatics and Computational Biology

Biomedical word sense disambiguation with ontologies and metadata: automation meets accuracy

(2009) Dimitra Alexopoulou et al.   BMC BIOINFORMATICS

Systematic Evaluation of Drug–Disease Relationships to Identify Leads for Novel Drug Uses

(2009) A P Chiang et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Visualizing the drug target landscape

(2009) Stephen J. Campbell et al.   DRUG DISCOVERY TODAY

Drug repositioning summit: Finding new routes to success

(2009) C. Campàs   DRUG NEWS & PERSPECTIVES

Gaining Insight into Off-Target Mediated Effects of Drug Candidates with a Comprehensive Systems Chemical Biology Analysis

(2009) Josef Scheiber et al.   Journal of Chemical Information and Modeling

Predicting new molecular targets for known drugs

(2009) Michael J. Keiser et al.   NATURE

The Universal Protein Resource (UniProt) in 2010

(2009)   NUCLEIC ACIDS RESEARCH

Human Disease-Drug Network Based on Genomic Expression Profiles

(2009) Guanghui Hu et al.   PLoS One

Semantic Similarity in Biomedical Ontologies

(2009) Catia Pesquita et al.   PLoS Computational Biology

Drug Discovery Using Chemical Systems Biology: Repositioning the Safe Medicine Comtan to Treat Multi-Drug and Extensively Drug Resistant Tuberculosis

(2009) Sarah L. Kinnings et al.   PLoS Computational Biology

Building Disease-Specific Drug-Protein Connectivity Maps from Molecular Interaction Networks and PubMed Abstracts

(2009) Jiao Li et al.   PLoS Computational Biology

IDMap: facilitating the detection of potential leads with therapeutic targets

(2008) S. Ha et al.   BIOINFORMATICS

Literature mining in support of drug discovery

(2008) P. Agarwal et al.   BRIEFINGS IN BIOINFORMATICS

Literature mining method RaJoLink for uncovering relations between biomedical concepts

(2008) Ingrid Petriĕ et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH

Getting Started in Text Mining

(2008) K. Bretonnel Cohen et al.   PLoS Computational Biology

Drug Target Identification Using Side-Effect Similarity

(2008) M. Campillos et al.   SCIENCE

Automated Acquisition of Disease-Drug Knowledge from Biomedical and Clinical Documents: An Initial Study

(2007) E. S. Chen et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION