Published in Pac Symp Biocomput on January 01, 2007
Disease candidate gene identification and prioritization using protein interaction networks. BMC Bioinformatics (2009) 3.03
The power of protein interaction networks for associating genes with diseases. Bioinformatics (2010) 1.96
Protein interaction network underpins concordant prognosis among heterogeneous breast cancer signatures. J Biomed Inform (2010) 1.28
Advances in translational bioinformatics: computational approaches for the hunting of disease genes. Brief Bioinform (2009) 1.27
Complex-disease networks of trait-associated single-nucleotide polymorphisms (SNPs) unveiled by information theory. J Am Med Inform Assoc (2012) 1.17
PhenoGO: an integrated resource for the multiscale mining of clinical and biological data. BMC Bioinformatics (2009) 1.01
Multi-dimensional discovery of biomarker and phenotype complexes. BMC Bioinformatics (2010) 0.97
Network analysis of genes regulated in renal diseases: implications for a molecular-based classification. BMC Bioinformatics (2009) 0.96
Translating Mendelian and complex inheritance of Alzheimer's disease genes for predicting unique personal genome variants. J Am Med Inform Assoc (2012) 0.93
Protein-protein interaction networks (PPI) and complex diseases. Gastroenterol Hepatol Bed Bench (2014) 0.93
A quantitative approach to study indirect effects among disease proteins in the human protein interaction network. BMC Syst Biol (2010) 0.86
A vertex similarity-based framework to discover and rank orphan disease-related genes. BMC Syst Biol (2012) 0.81
Natural language query in the biochemistry and molecular biology domains based on cognition search™. Summit on Translat Bioinforma (2009) 0.81
eQTL networks unveil enriched mRNA master integrators downstream of complex disease-associated SNPs. J Biomed Inform (2015) 0.77
Molecular mechanistic associations of human diseases. BMC Syst Biol (2010) 0.77
Integration strategy is a key step in network-based analysis and dramatically affects network topological properties and inferring outcomes. Biomed Res Int (2014) 0.77
Prediction of novel genes associated with negative regulators of toll-like receptors-induced inflammation based on endotoxin tolerance. Inflammation (2012) 0.77
Data driven linear algebraic methods for analysis of molecular pathways: application to disease progression in shock/trauma. J Biomed Inform (2011) 0.76
Formal concept analysis of disease similarity. AMIA Jt Summits Transl Sci Proc (2012) 0.76
Evaluation of an Ontology-anchored Natural Language-based Approach for Asserting Multi-scale Biomolecular Networks for Systems Medicine. AMIA Jt Summits Transl Sci Proc (2010) 0.75
Disease Risk Assessment Using a Voronoi-Based Network Analysis of Genes and Variants Scores. Front Genet (2017) 0.75
Modeling and characterization of disease associated subnetworks in the human interactome using machine learning. Summit on Translat Bioinforma (2009) 0.75
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52
Emergence of scaling in random networks Science (1999) 89.38
KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res (1999) 40.62
The Universal Protein Resource (UniProt). Nucleic Acids Res (2005) 23.66
Reactome: a knowledgebase of biological pathways. Nucleic Acids Res (2005) 20.05
MINT: a Molecular INTeraction database. FEBS Lett (2002) 17.21
GOToolBox: functional analysis of gene datasets based on Gene Ontology. Genome Biol (2004) 15.61
A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (2003) 12.07
BIND--The Biomolecular Interaction Network Database. Nucleic Acids Res (2001) 11.74
DIP: the database of interacting proteins. Nucleic Acids Res (2000) 10.06
A probabilistic functional network of yeast genes. Science (2004) 8.35
The detection and estimation of linkage between the genes for elliptocytosis and the Rh blood type. Am J Hum Genet (1956) 8.34
The small world inside large metabolic networks. Proc Biol Sci (2001) 7.63
Modeling cellular machinery through biological network comparison. Nat Biotechnol (2006) 5.01
A 20-year perspective on the International Fanconi Anemia Registry (IFAR). Blood (2002) 4.59
The emerging genetic and molecular basis of Fanconi anaemia. Nat Rev Genet (2001) 4.07
Probabilistic model of the human protein-protein interaction network. Nat Biotechnol (2005) 3.99
Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. Bioinformatics (2005) 3.70
Combining biological networks to predict genetic interactions. Proc Natl Acad Sci U S A (2004) 3.18
Subpathways of nucleotide excision repair and their regulation. Oncogene (2002) 2.92
From syndrome families to functional genomics. Nat Rev Genet (2004) 2.86
Computation with the KEGG pathway database. Biosystems (1998) 2.79
Preferential attachment in the protein network evolution. Phys Rev Lett (2003) 2.23
Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplications. BMC Evol Biol (2004) 2.01
Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome. Bioinformatics (2001) 1.84
PhenoGO: assigning phenotypic context to gene ontology annotations with natural language processing. Pac Symp Biocomput (2006) 1.76
Autoimmune lymphoproliferative syndrome: molecular basis of disease and clinical phenotype. Br J Haematol (2006) 1.49
Combining functional and topological properties to identify core modules in protein interaction networks. Proteins (2006) 1.36
The GRID: The General Repository for Interaction Datasets. Genome Biol (2002) 0.98
Molecular evidence that AEC syndrome and Rapp-Hodgkin syndrome are variable expression of a single genetic disorder. Clin Genet (2004) 0.89
The many faces of Cockayne syndrome. Proc Natl Acad Sci U S A (2004) 0.87
p53 heterozygosity results in an increased 2-acetylaminofluorene-induced urinary bladder but not liver tumor response in DNA repair-deficient Xpa mice. Cancer Res (2004) 0.83
Evidence that AEC syndrome and Bowen--Armstrong syndrome are variable expressions of the same disease. Pediatr Dermatol (1999) 0.82
AEC syndrome: further evidence of a common genetic etiology with Rapp-Hodgkin syndrome. Eur J Med Genet (2006) 0.82
The polythetic (phenotypic community) system of classifying human malformation syndromes. Birth Defects Orig Artic Ser (1977) 0.79
Systemic lupus erythematosus-associated lymphoproliferative disorder: report of a case and discussion in light of the literature. Hum Pathol (1997) 0.79
Transcriptional Adaptation of Mycobacterium tuberculosis within Macrophages: Insights into the Phagosomal Environment. J Exp Med (2003) 10.67
Annual report to the nation on the status of cancer, 1975-2002, featuring population-based trends in cancer treatment. J Natl Cancer Inst (2005) 8.36
Subcellular localization of the yeast proteome. Genes Dev (2002) 7.93
Genetic and immunologic heterogeneity among persons who control HIV infection in the absence of therapy. J Infect Dis (2008) 6.43
Use of natural language processing to translate clinical information from a database of 889,921 chest radiographic reports. Radiology (2002) 5.52
CD24 and Siglec-10 selectively repress tissue damage-induced immune responses. Science (2009) 5.00
TSC-mTOR maintains quiescence and function of hematopoietic stem cells by repressing mitochondrial biogenesis and reactive oxygen species. J Exp Med (2008) 4.76
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J Biomed Inform (2004) 4.57
Mouse brain organization revealed through direct genome-scale TF expression analysis. Science (2004) 4.55
Automatic resolution of ambiguous terms based on machine learning and conceptual relations in the UMLS. J Am Med Inform Assoc (2002) 4.24
Proton pump inhibitors and risk for recurrent Clostridium difficile infection among inpatients. Am J Gastroenterol (2013) 4.10
Neutralizing antibody responses drive the evolution of human immunodeficiency virus type 1 envelope during recent HIV infection. Proc Natl Acad Sci U S A (2005) 3.94
mTOR regulation and therapeutic rejuvenation of aging hematopoietic stem cells. Sci Signal (2009) 3.94
Active computerized pharmacovigilance using natural language processing, statistics, and electronic health records: a feasibility study. J Am Med Inform Assoc (2009) 3.62
The therapeutic effect of anti-HER2/neu antibody depends on both innate and adaptive immunity. Cancer Cell (2010) 3.52
Panmicrobial oligonucleotide array for diagnosis of infectious diseases. Emerg Infect Dis (2007) 3.51
FOXP3 is an X-linked breast cancer suppressor gene and an important repressor of the HER-2/ErbB2 oncogene. Cell (2007) 3.46
ErbB2 is essential in the prevention of dilated cardiomyopathy. Nat Med (2002) 3.36
Mapping abbreviations to full forms in biomedical articles. J Am Med Inform Assoc (2002) 3.29
Defects in caveolin-1 cause dilated cardiomyopathy and pulmonary hypertension in knockout mice. Proc Natl Acad Sci U S A (2002) 3.13
Automated acquisition of disease drug knowledge from biomedical and clinical documents: an initial study. J Am Med Inform Assoc (2007) 3.09
Comparing ICD9-encoded diagnoses and NLP-processed discharge summaries for clinical trials pre-screening: a case study. AMIA Annu Symp Proc (2008) 3.00
System architecture for temporal information extraction, representation and reasoning in clinical narrative reports. AMIA Annu Symp Proc (2005) 2.93
In vivo evidence for a dependence on interleukin 15 for survival of natural killer cells. Blood (2002) 2.85
Characterization of human immunodeficiency virus type 1 (HIV-1) envelope variation and neutralizing antibody responses during transmission of HIV-1 subtype B. J Virol (2005) 2.83
Targeting HIF1α eliminates cancer stem cells in hematological malignancies. Cell Stem Cell (2011) 2.80
Gene name ambiguity of eukaryotic nomenclatures. Bioinformatics (2004) 2.72
A multi-aspect comparison study of supervised word sense disambiguation. J Am Med Inform Assoc (2004) 2.67
Exosomes mediate the cell-to-cell transmission of IFN-α-induced antiviral activity. Nat Immunol (2013) 2.64
Runx1 determines nociceptive sensory neuron phenotype and is required for thermal and neuropathic pain. Neuron (2006) 2.60
Diagnosis and treatment of patients with stroke in a mobile stroke unit versus in hospital: a randomised controlled trial. Lancet Neurol (2012) 2.59
A selective TrkB agonist with potent neurotrophic activities by 7,8-dihydroxyflavone. Proc Natl Acad Sci U S A (2010) 2.57
A study of abbreviations in clinical notes. AMIA Annu Symp Proc (2007) 2.48
Extracting information on pneumonia in infants using natural language processing of radiology reports. J Biomed Inform (2005) 2.48
Isolation and culture of rat and mouse oligodendrocyte precursor cells. Nat Protoc (2007) 2.46
A study of abbreviations in MEDLINE abstracts. Proc AMIA Symp (2002) 2.44
Early use of noninvasive positive pressure ventilation for acute lung injury: a multicenter randomized controlled trial. Crit Care Med (2012) 2.43
ESTs, cDNA microarrays, and gene expression profiling: tools for dissecting plant physiology and development. Plant J (2004) 2.42
A broad-spectrum antiviral targeting entry of enveloped viruses. Proc Natl Acad Sci U S A (2010) 2.41
Extracting phenotypic information from the literature via natural language processing. Stud Health Technol Inform (2004) 2.36
Translational bioinformatics: linking knowledge across biological and clinical realms. J Am Med Inform Assoc (2011) 2.36
Optical methodology for detecting histologically unapparent nanoscale consequences of genetic alterations in biological cells. Proc Natl Acad Sci U S A (2008) 2.33
Facilitating cancer research using natural language processing of pathology reports. Stud Health Technol Inform (2004) 2.28
De novo induction of a cancer/testis antigen by 5-aza-2'-deoxycytidine augments adoptive immunotherapy in a murine tumor model. Cancer Res (2006) 2.27
Leptin exacerbates collagen-induced arthritis via enhancement of Th17 cell response. Arthritis Rheum (2012) 2.26
Dendritic cells in the thymus contribute to T-regulatory cell induction. Proc Natl Acad Sci U S A (2008) 2.26
Limitations of remotely sensed aerosol as a spatial proxy for fine particulate matter. Environ Health Perspect (2009) 2.23
Ancestral antibiotic resistance in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A (2005) 2.21
Mining multi-item drug adverse effect associations in spontaneous reporting systems. BMC Bioinformatics (2010) 2.17
Matrix metalloproteinase 2 expression and survival of patients with osteosarcoma: a meta-analysis. Tumour Biol (2013) 2.16
Exploiting semantic relations for literature-based discovery. AMIA Annu Symp Proc (2006) 2.15
Information theory applied to the sparse gene ontology annotation network to predict novel gene function. Bioinformatics (2007) 2.15
CIITA-regulated plexin-A1 affects T-cell-dendritic cell interactions. Nat Immunol (2003) 2.13
Gene symbol disambiguation using knowledge-based profiles. Bioinformatics (2007) 2.13
Role of the toll-like receptor 4 in neuroinflammation in Alzheimer's disease. Cell Physiol Biochem (2007) 2.12
Somatic single hits inactivate the X-linked tumor suppressor FOXP3 in the prostate. Cancer Cell (2009) 2.10
Lack of neutralizing antibody response to HIV-1 predisposes to superinfection. Virology (2006) 2.07
The intra-S phase checkpoint targets Dna2 to prevent stalled replication forks from reversing. Cell (2012) 2.07
Sertoli cells from non-obstructive azoospermia and obstructive azoospermia patients show distinct morphology, Raman spectrum and biochemical phenotype. Hum Reprod (2013) 2.06
The Mycobacterium tuberculosis regulatory network and hypoxia. Nature (2013) 2.04
Partial-wave microscopic spectroscopy detects subwavelength refractive index fluctuations: an application to cancer diagnosis. Opt Lett (2009) 2.04
Role of Serotonin in MODS: Deficiency of Serotonin Protects Against Zymosan-Induced Multiple Organ Failure in Mice. Shock (2015) 2.00
microRNA 17/20 inhibits cellular invasion and tumor metastasis in breast cancer by heterotypic signaling. Proc Natl Acad Sci U S A (2010) 1.97
Cancer mortality surveillance--United States, 1990-2000. MMWR Surveill Summ (2004) 1.94
Colorectal cancer in U.S. adults younger than 50 years of age, 1998-2001. Cancer (2006) 1.94
Machine learning and word sense disambiguation in the biomedical domain: design and evaluation issues. BMC Bioinformatics (2006) 1.93
Network modeling identifies molecular functions targeted by miR-204 to suppress head and neck tumor metastasis. PLoS Comput Biol (2010) 1.92
B7DC/PDL2 promotes tumor immunity by a PD-1-independent mechanism. J Exp Med (2003) 1.92
Amelioration of sepsis by inhibiting sialidase-mediated disruption of the CD24-SiglecG interaction. Nat Biotechnol (2011) 1.91
Structure of a CENP-A-histone H4 heterodimer in complex with chaperone HJURP. Genes Dev (2011) 1.87
Use of consomic rats for genomic insights into ventilator-associated lung injury. Am J Physiol Lung Cell Mol Physiol (2007) 1.86
Information Visualization Techniques in Bioinformatics during the Postgenomic Era. Drug Discov Today Biosilico (2004) 1.85
Doxorubicin and paclitaxel-loaded lipid-based nanoparticles overcome multidrug resistance by inhibiting P-glycoprotein and depleting ATP. Cancer Res (2009) 1.81
Four-dimensional elastic light-scattering fingerprints as preneoplastic markers in the rat model of colon carcinogenesis. Gastroenterology (2004) 1.79
B7-H3 enhances tumor immunity in vivo by costimulating rapid clonal expansion of antigen-specific CD8+ cytolytic T cells. J Immunol (2004) 1.78
Associations between outpatient heart failure process-of-care measures and mortality. Circulation (2011) 1.77
Characterization of oligomeric human half-ABC transporter ATP-binding cassette G2. J Biol Chem (2004) 1.76
PhenoGO: assigning phenotypic context to gene ontology annotations with natural language processing. Pac Symp Biocomput (2006) 1.76
FOXP3 is a novel transcriptional repressor for the breast cancer oncogene SKP2. J Clin Invest (2007) 1.76
Decreased expression of long noncoding RNA AC096655.1-002 in gastric cancer and its clinical significance. Tumour Biol (2013) 1.76
In situ atomic-scale imaging of electrochemical lithiation in silicon. Nat Nanotechnol (2012) 1.74
Antitumor T-cell responses contribute to the effects of dasatinib on c-KIT mutant murine mastocytoma and are potentiated by anti-OX40. Blood (2012) 1.74
Constraints on HIV-1 evolution and immunodominance revealed in monozygotic adult twins infected with the same virus. J Exp Med (2006) 1.72
VisANT 4.0: Integrative network platform to connect genes, drugs, diseases and therapies. Nucleic Acids Res (2013) 1.71
Examination of the cytoplasmic DNA in male reproductive cells to determine the potential for cytoplasmic inheritance in 295 angiosperm species. Plant Cell Physiol (2003) 1.70
The Scurfy mutation of FoxP3 in the thymus stroma leads to defective thymopoiesis. J Exp Med (2005) 1.70
Identification of autoantigens recognized by the 2F5 and 4E10 broadly neutralizing HIV-1 antibodies. J Exp Med (2013) 1.68
Early formation of evolved asteroidal crust. Nature (2009) 1.65
Cutting edge: Broad expression of the FoxP3 locus in epithelial cells: a caution against early interpretation of fatal inflammatory diseases following in vivo depletion of FoxP3-expressing cells. J Immunol (2008) 1.64
Syndromic surveillance using ambulatory electronic health records. J Am Med Inform Assoc (2009) 1.64
Coherent backscattering spectroscopy. Opt Lett (2004) 1.62
Insights into salt tolerance from the genome of Thellungiella salsuginea. Proc Natl Acad Sci U S A (2012) 1.62