Towards building a disease-phenotype knowledge base: extracting disease-manifestation relationship from literature

A semi-supervised approach to extract pharmacogenomics-specific drug–gene pairs from biomedical literature for personalized medicine

(2013) Rong Xu et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Computational approaches to disease-gene prediction: rationale, classification and successes

(2012) Rosario M. Piro et al.   FEBS Journal

A knowledge-driven conditional approach to extract pharmacogenomics specific drug–gene relationships from free text

(2012) Rong Xu et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Next-generation phenotyping of electronic health records

(2012) G. Hripcsak et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Recent approaches to the prioritization of candidate disease genes

(2012) Nadezhda T. Doncheva et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Inferring disease and gene set associations with rank coherence in networks

(2011) TaeHyun Hwang et al.   BIOINFORMATICS

Uncover disease genes by maximizing information flow in the phenome-interactome network

(2011) Y. Chen et al.   BIOINFORMATICS

Modularity-based credible prediction of disease genes and detection of disease subtypes on the phenotype-gene heterogeneous network

(2011) Xin Yao et al.   BMC Systems Biology

Network-based methods for human disease gene prediction

(2011) X. Wang et al.   Briefings in Functional Genomics

Interactome Networks and Human Disease

(2011) Marc Vidal et al.   CELL

PhenomeNET: a whole-phenome approach to disease gene discovery

(2011) R. Hoehndorf et al.   NUCLEIC ACIDS RESEARCH

A Computational Method Based on the Integration of Heterogeneous Networks for Predicting Disease-Gene Associations

(2011) Xingli Guo et al.   PLoS One

Inferring Gene-Phenotype Associations via Global Protein Complex Network Propagation

(2011) Peng Yang et al.   PLoS One

Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data

(2011) M. Sirota et al.   Science Translational Medicine

Using Electronic Patient Records to Discover Disease Correlations and Stratify Patient Cohorts

(2011) Francisco S. Roque et al.   PLoS Computational Biology

Genome-wide inferring gene–phenotype relationship by walking on the heterogeneous network

(2010) Yongjin Li et al.   BIOINFORMATICS

A guide to web tools to prioritize candidate genes

(2010) L.-C. Tranchevent et al.   BRIEFINGS IN BIOINFORMATICS

Network medicine: a network-based approach to human disease

(2010) Albert-László Barabási et al.   NATURE REVIEWS GENETICS

Event extraction for systems biology by text mining the literature

(2010) Sophia Ananiadou et al.   TRENDS IN BIOTECHNOLOGY

Associating Genes and Protein Complexes with Disease via Network Propagation

(2010) Oron Vanunu et al.   PLoS Computational Biology

Advances in translational bioinformatics: computational approaches for the hunting of disease genes

(2009) M. G. Kann   BRIEFINGS IN BIOINFORMATICS

PubChem as a Source of Polypharmacology

(2009) Bin Chen et al.   Journal of Chemical Information and Modeling

The impact of cellular networks on disease comorbidity

(2009) Juyong Park et al.   Molecular Systems Biology

Predicting new molecular targets for known drugs

(2009) Michael J. Keiser et al.   NATURE

Human Disease-Drug Network Based on Genomic Expression Profiles

(2009) Guanghui Hu et al.   PLoS One

Linking genes to diseases: it's all in the data

(2009) Nicki Tiffin et al.   Genome Medicine

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

Translational disease interpretation with molecular networks

(2009) Anaïs Baudot et al.   GENOME BIOLOGY

Network-based global inference of human disease genes

(2008) Xuebing Wu et al.   Molecular Systems Biology

The implications of human metabolic network topology for disease comorbidity

(2008) D.- S. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phenome connections

(2008) Martin Oti et al.   TRENDS IN GENETICS