Novel disease syndromes unveiled by integrative multiscale network analysis of diseases sharing molecular effectors and comorbidities

[1]  C. Muir,et al.  International Classification of Diseases for Oncology , 1990 .

[2]  Ian T. Foster,et al.  Convergent downstream candidate mechanisms of independent intergenic polymorphisms between co-classified diseases implicate epistasis among noncoding elements§ , 2017, PSB.

[3]  Nicola J. Rinaldi,et al.  Genetic effects on gene expression across human tissues , 2017, Nature.

[4]  Abhijeet R. Sonawane,et al.  Exploring regulation in tissues with eQTL networks , 2017, Proceedings of the National Academy of Sciences.

[5]  E. Guney,et al.  Genetic and functional characterization of disease associations explains comorbidity , 2017, Scientific Reports.

[6]  Eric E Schadt,et al.  Large-Scale Identification of Common Trait and Disease Variants Affecting Gene Expression. , 2017, American journal of human genetics.

[7]  Helen E. Parkinson,et al.  The new NHGRI-EBI Catalog of published genome-wide association studies (GWAS Catalog) , 2016, Nucleic Acids Res..

[8]  E. Schadt,et al.  Large-Scale Identification of Common Trait and Disease Variants Affecting Gene Expression. , 2017, American journal of human genetics.

[9]  Jaebum Kim,et al.  Identification of disease comorbidity through hidden molecular mechanisms , 2016, Scientific Reports.

[10]  M. Gonzalez-Garay,et al.  Biomechanisms of Comorbidity: Reviewing Integrative Analyses of Multi-omics Datasets and Electronic Health Records , 2016, Yearbook of Medical Informatics.

[11]  P. Visscher,et al.  Genetic pleiotropy in complex traits and diseases: implications for genomic medicine , 2016, Genome Medicine.

[12]  Lorenzo L. Pesce,et al.  Integrative genomics analyses unveil downstream biological effectors of disease-specific polymorphisms buried in intergenic regions , 2016, npj Genomic Medicine.

[13]  Russ B. Altman,et al.  Constraints on Biological Mechanism from Disease Comorbidity Using Electronic Medical Records and Database of Genetic Variants , 2016, PLoS Comput. Biol..

[14]  Jeanne M O Eloundou-Mbebi,et al.  Gene regulatory network inference using fused LASSO on multiple data sets , 2016, Scientific Reports.

[15]  Pak Chung Sham,et al.  GWASdb v2: an update database for human genetic variants identified by genome-wide association studies , 2015, Nucleic Acids Res..

[16]  Joseph K. Pickrell,et al.  Detection and interpretation of shared genetic influences on 42 human traits , 2015, Nature Genetics.

[17]  Mitchell J. Machiela,et al.  LDlink: a web-based application for exploring population-specific haplotype structure and linking correlated alleles of possible functional variants , 2015, Bioinform..

[18]  G. Kempermann.  Faculty Opinions recommendation of Human genomics. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans. , 2015 .

[19]  Jun S. Liu,et al.  The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans , 2015, Science.

[20]  Kevin J. Emmett,et al.  Genetic similarity between cancers and comorbid Mendelian diseases identifies candidate driver genes , 2015, Nature Communications.

[21]  A. Butte,et al.  Disease Risk Factors Identified Through Shared Genetic Architecture and Electronic Medical Records , 2014, Science Translational Medicine.

[22]  Jianxin Shi,et al.  Genetic relationship between five psychiatric disorders estimated from genome-wide SNPs , 2013, Nature Genetics.

[23]  Y. Bae,et al.  The adhesion protein IgSF9b is coupled to neuroligin 2 via S-SCAM to promote inhibitory synapse development , 2013, The Journal of cell biology.

[24]  C. De Simone,et al.  Psoriatic patients have an increased risk of polycystic ovary syndrome: results of a cross-sectional analysis. , 2013, Fertility and sterility.

[25]  Data production leads,et al.  An integrated encyclopedia of DNA elements in the human genome , 2012 .

[26]  ENCODEConsortium,et al.  An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.

[27]  S. Wyke,et al.  Epidemiology of multimorbidity and implications for health care, research, and medical education: a cross-sectional study , 2012, The Lancet.

[28]  Alexander A. Morgan,et al.  Coanalysis of GWAS with eQTLs reveals disease-tissue associations , 2012, AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science.

[29]  Yves A. Lussier,et al.  Complex-disease networks of trait-associated single-nucleotide polymorphisms (SNPs) unveiled by information theory , 2012, J. Am. Medical Informatics Assoc..

[30]  David Sánchez,et al.  Ontology-based information content computation , 2011, Knowl. Based Syst..

[31]  Yves A. Lussier,et al.  Protein interaction network underpins concordant prognosis among heterogeneous breast cancer signatures , 2010, J. Biomed. Informatics.

[32]  A. Barabasi,et al.  Network medicine : a network-based approach to human disease , 2010 .

[33]  A. Barabasi,et al.  Molecular Systems Biology 5; Article number 262; doi:10.1038/msb.2009.16 Citation: Molecular Systems Biology 5:262 , 2022 .

[34]  Gary King,et al.  Toward a Common Framework for Statistical Analysis and Development , 2008 .

[35]  Krin A. Kay,et al.  The implications of human metabolic network topology for disease comorbidity , 2008, Proceedings of the National Academy of Sciences.

[36]  N. Siva.  1000 Genomes project , 2008, Nature Biotechnology.

[37]  Pall I. Olason,et al.  A human phenome-interactome network of protein complexes implicated in genetic disorders , 2007, Nature Biotechnology.

[38]  Nir Friedman,et al.  Inferring Cellular Networks Using Probabilistic Graphical Models , 2004, Science.

[39]  Olivier Bodenreider,et al.  The Unified Medical Language System (UMLS): integrating biomedical terminology , 2004, Nucleic Acids Res..

[40]  Toshihiro Tanaka.  The International HapMap Project , 2003, Nature.

[41]  P. Shannon,et al.  Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.

[42]  W. Dietz,et al.  Prevalence of the metabolic syndrome among US adults: findings from the third National Health and Nutrition Examination Survey. , 2002, JAMA.

[43]  Elizabeth M. Smigielski,et al.  dbSNP: the NCBI database of genetic variation , 2001, Nucleic Acids Res..

[44]  Dekang Lin,et al.  An Information-Theoretic Definition of Similarity , 1998, ICML.

[45]  Y. Lussier,et al.  The SNOMED Model: A Knowledge Source for the Controlled Terminology of the Computerized Patient Record , 1998, Methods of Information in Medicine.

[46]  Kent A. Spackman,et al.  SNOMED RT: a reference terminology for health care , 1997, AMIA.

[47]  R. Tibshirani.  Regression Shrinkage and Selection via the Lasso , 1996 .

[48]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[49]  P. Trott,et al.  International Classification of Diseases for Oncology , 1977 .