Published in Nucleic Acids Res on March 14, 2005
ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res (2009) 7.34
Walking the interactome for prioritization of candidate disease genes. Am J Hum Genet (2008) 7.03
Gene ontology analysis of GWA study data sets provides insights into the biology of bipolar disorder. Am J Hum Genet (2009) 5.98
Improved human disease candidate gene prioritization using mouse phenotype. BMC Bioinformatics (2007) 2.56
Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network. Genome Biol (2009) 2.43
ENDEAVOUR update: a web resource for gene prioritization in multiple species. Nucleic Acids Res (2008) 2.31
Analysis of protein sequence and interaction data for candidate disease gene prediction. Nucleic Acids Res (2006) 2.30
Anni 2.0: a multipurpose text-mining tool for the life sciences. Genome Biol (2008) 2.04
Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes. Nucleic Acids Res (2006) 1.95
Building disease-specific drug-protein connectivity maps from molecular interaction networks and PubMed abstracts. PLoS Comput Biol (2009) 1.90
Differential repression of alternative transcripts: a screen for miRNA targets. PLoS Comput Biol (2006) 1.82
PhenoGO: assigning phenotypic context to gene ontology annotations with natural language processing. Pac Symp Biocomput (2006) 1.76
FitSNPs: highly differentially expressed genes are more likely to have variants associated with disease. Genome Biol (2008) 1.58
Computational approaches to phenotyping: high-throughput phenomics. Proc Am Thorac Soc (2007) 1.57
Candidate gene identification approach: progress and challenges. Int J Biol Sci (2007) 1.51
Update of the G2D tool for prioritization of gene candidates to inherited diseases. Nucleic Acids Res (2007) 1.42
Improving disease gene prioritization using the semantic similarity of Gene Ontology terms. Bioinformatics (2010) 1.37
MeInfoText: associated gene methylation and cancer information from text mining. BMC Bioinformatics (2008) 1.34
Semantics in support of biodiversity knowledge discovery: an introduction to the biological collections ontology and related ontologies. PLoS One (2014) 1.31
GLAD4U: deriving and prioritizing gene lists from PubMed literature. BMC Genomics (2012) 1.17
TOM: a web-based integrated approach for identification of candidate disease genes. Nucleic Acids Res (2006) 1.15
Linking genes to diseases: it's all in the data. Genome Med (2009) 1.14
Mapping biomedical concepts onto the human genome by mining literature on chromosomal aberrations. Nucleic Acids Res (2007) 1.14
Hypothesis-driven candidate gene association studies: practical design and analytical considerations. Am J Epidemiol (2009) 1.12
Approaches for recognizing disease genes based on network. Biomed Res Int (2014) 1.06
Mining the pharmacogenomics literature--a survey of the state of the art. Brief Bioinform (2012) 1.02
ProDiGe: Prioritization Of Disease Genes with multitask machine learning from positive and unlabeled examples. BMC Bioinformatics (2011) 1.00
Evaluation of genome-wide association study results through development of ontology fingerprints. Bioinformatics (2009) 0.99
Biomarker identification for prostate cancer and lymph node metastasis from microarray data and protein interaction network using gene prioritization method. ScientificWorldJournal (2012) 0.93
Prioritization and evaluation of depression candidate genes by combining multidimensional data resources. PLoS One (2011) 0.93
Computational selection and prioritization of candidate genes for fetal alcohol syndrome. BMC Genomics (2007) 0.92
Huntingtin-interacting protein 14 is a type 1 diabetes candidate protein regulating insulin secretion and beta-cell apoptosis. Proc Natl Acad Sci U S A (2011) 0.91
Gene prioritization and clustering by multi-view text mining. BMC Bioinformatics (2010) 0.91
Integrating computational biology and forward genetics in Drosophila. PLoS Genet (2009) 0.91
Comparison of automated candidate gene prediction systems using genes implicated in type 2 diabetes by genome-wide association studies. BMC Bioinformatics (2009) 0.89
Integrating human omics data to prioritize candidate genes. BMC Med Genomics (2013) 0.88
Text mining in cancer gene and pathway prioritization. Cancer Inform (2014) 0.85
Candidate gene prioritization based on spatially mapped gene expression: an application to XLMR. Bioinformatics (2010) 0.85
Identification of highly related references about gene-disease association. BMC Bioinformatics (2014) 0.85
Systematic genotype-phenotype analysis of autism susceptibility loci implicates additional symptoms to co-occur with autism. Eur J Hum Genet (2009) 0.84
Recent Advances and Emerging Applications in Text and Data Mining for Biomedical Discovery. Brief Bioinform (2015) 0.84
Bioinformatics methods for identifying candidate disease genes. Hum Genomics (2006) 0.84
BICEPP: an example-based statistical text mining method for predicting the binary characteristics of drugs. BMC Bioinformatics (2011) 0.82
Gene-disease relationship discovery based on model-driven data integration and database view definition. Bioinformatics (2008) 0.82
A computational approach to candidate gene prioritization for X-linked mental retardation using annotation-based binary filtering and motif-based linear discriminatory analysis. Biol Direct (2011) 0.81
Gene prioritization of resistant rice gene against Xanthomas oryzae pv. oryzae by using text mining technologies. Biomed Res Int (2013) 0.81
A vertex similarity-based framework to discover and rank orphan disease-related genes. BMC Syst Biol (2012) 0.81
Finding potentially new multimorbidity patterns of psychiatric and somatic diseases: exploring the use of literature-based discovery in primary care research. J Am Med Inform Assoc (2013) 0.79
Associating disease-related genetic variants in intergenic regions to the genes they impact. PeerJ (2014) 0.79
In silico prioritisation of candidate genes for prokaryotic gene function discovery: an application of phylogenetic profiles. BMC Bioinformatics (2009) 0.77
Pinpointing disease genes through phenomic and genomic data fusion. BMC Genomics (2015) 0.77
Using genome-wide expression profiling to define gene networks relevant to the study of complex traits: from RNA integrity to network topology. Int Rev Neurobiol (2012) 0.77
Systematic Analysis of Integrated Gene Functional Network of Four Chronic Stress-related Lifestyle Disorders. Genome Integr (2015) 0.76
PsRNA: a computing engine for the comparative identification of putative small RNA locations within intergenic regions. Genomics Proteomics Bioinformatics (2010) 0.76
MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring. EURASIP J Bioinform Syst Biol (2015) 0.75
Gene-Disease Interaction Retrieval from Multiple Sources: A Network Based Method. Biomed Res Int (2016) 0.75
Mimvec: a deep learning approach for analyzing the human phenome. BMC Syst Biol (2017) 0.75
The Unified Medical Language System (UMLS): integrating biomedical terminology. Nucleic Acids Res (2004) 25.99
Searching for genetic determinants in the new millennium. Nature (2000) 17.50
Textpresso: an ontology-based information retrieval and extraction system for biological literature. PLoS Biol (2004) 15.72
Discovering genotypes underlying human phenotypes: past successes for mendelian disease, future approaches for complex disease. Nat Genet (2003) 13.60
Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments. Nucleic Acids Res (2004) 12.19
The allelic architecture of human disease genes: common disease-common variant...or not? Hum Mol Genet (2002) 10.08
Finding genes that underlie complex traits. Science (2002) 7.39
Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics. Proc Natl Acad Sci U S A (2003) 6.87
Association of genes to genetically inherited diseases using data mining. Nat Genet (2002) 5.78
eVOC: a controlled vocabulary for unifying gene expression data. Genome Res (2003) 5.41
Candidate-gene approaches for studying complex genetic traits: practical considerations. Nat Rev Genet (2002) 4.76
Information access. Building a "GenBank" of the published literature. Science (2001) 3.95
The Gene Ontology Annotation (GOA) Database--an integrated resource of GO annotations to the UniProt Knowledgebase. In Silico Biol (2003) 3.86
Automated extraction of information in molecular biology. FEBS Lett (2000) 3.28
A similarity-based method for genome-wide prediction of disease-relevant human genes. Bioinformatics (2002) 3.04
Ontologies in biology: design, applications and future challenges. Nat Rev Genet (2004) 3.02
Getting to the (c)ore of knowledge: mining biomedical literature. Int J Med Inform (2002) 2.94
Ontologies for molecular biology and bioinformatics. In Silico Biol (2002) 2.93
POCUS: mining genomic sequence annotation to predict disease genes. Genome Biol (2003) 2.93
Elevated rates of protein secretion, evolution, and disease among tissue-specific genes. Genome Res (2004) 2.58
A new web-based data mining tool for the identification of candidate genes for human genetic disorders. Eur J Hum Genet (2003) 2.32
Tough mining: the challenges of searching the scientific literature. PLoS Biol (2003) 2.14
Mining the bibliome: searching for a needle in a haystack? New computing tools are needed to effectively scan the growing amount of scientific literature for useful information. EMBO Rep (2002) 2.01
Structural rearrangements of the WT1 gene in Wilms' tumour cells. Oncogene (1991) 1.14
New methods for finding disease-susceptibility genes: impact and potential. Genome Biol (2003) 1.11
Dragon TF Association Miner: a system for exploring transcription factor associations through text-mining. Nucleic Acids Res (2004) 1.09
High-throughput SNP analysis for genetic association studies. Curr Opin Drug Discov Devel (2003) 1.04
A computational/functional genomics approach for the enrichment of the retinal transcriptome and the identification of positional candidate retinopathy genes. Proc Natl Acad Sci U S A (2002) 1.03
Genetic dissection of diseases: design and methods. Curr Opin Genet Dev (2004) 0.99
Single nucleotide polymorphisms and disease gene mapping. Arthritis Res (2002) 0.86
Genome-wide prediction of disease-relevant genes and variants. Curr Opin Drug Discov Devel (2003) 0.82
Identification of candidate disease genes by EST alignments, synteny, and expression and verification of Ensembl genes on rat chromosome 1q43-54. Genome Res (2004) 0.81
Linkage mapping of quantitative trait loci in humans: an overview. Ann Hum Genet (2002) 0.81
Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet (2006) 17.19
Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis. Nat Genet (2010) 16.96
EGASP: the human ENCODE Genome Annotation Assessment Project. Genome Biol (2006) 7.06
A promoter-level mammalian expression atlas. Nature (2014) 6.25
An atlas of combinatorial transcriptional regulation in mouse and man. Cell (2010) 6.24
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
Complex Loci in human and mouse genomes. PLoS Genet (2006) 3.74
Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals. PLoS Genet (2012) 3.21
Lack of ventral striatal response to positive stimuli in depressed versus normal subjects. Am J Psychiatry (2006) 2.84
Association between genetic variation of CACNA1H and childhood absence epilepsy. Ann Neurol (2003) 2.79
Discovery of estrogen receptor alpha target genes and response elements in breast tumor cells. Genome Biol (2004) 2.77
Genomic anatomy of the hippocampus. Neuron (2008) 2.37
Failure of frontolimbic inhibitory function in the context of negative emotion in borderline personality disorder. Am J Psychiatry (2007) 2.20
Transcriptional network dynamics in macrophage activation. Genomics (2006) 1.72
A genome-wide association search for type 2 diabetes genes in African Americans. PLoS One (2012) 1.72
Top-down reorganization of activity in the visual pathway after learning a shape identification task. Neuron (2005) 1.60
Differential time courses and specificity of amygdala activity in posttraumatic stress disorder subjects and normal control subjects. Biol Psychiatry (2005) 1.57
Computational methods for prediction of T-cell epitopes--a framework for modelling, testing, and applications. Methods (2004) 1.55
Orbitofrontal cortex activity related to emotional processing changes across the menstrual cycle. Proc Natl Acad Sci U S A (2005) 1.55
On the classification of long non-coding RNAs. RNA Biol (2013) 1.53
Dragon PolyA Spotter: predictor of poly(A) motifs within human genomic DNA sequences. Bioinformatics (2011) 1.50
Hippocampal structural changes across the menstrual cycle. Hippocampus (2008) 1.49
Pseudo-messenger RNA: phantoms of the transcriptome. PLoS Genet (2006) 1.46
HOCOMOCO: a comprehensive collection of human transcription factor binding sites models. Nucleic Acids Res (2012) 1.45
INDIGO - INtegrated data warehouse of microbial genomes with examples from the red sea extremophiles. PLoS One (2013) 1.36
Classifying the estrogen receptor status of breast cancers by expression profiles reveals a poor prognosis subpopulation exhibiting high expression of the ERBB2 receptor. Hum Mol Genet (2003) 1.34
Prediction of promiscuous peptides that bind HLA class I molecules. Immunol Cell Biol (2002) 1.33
Toward a functional neuroanatomy of premenstrual dysphoric disorder. J Affect Disord (2007) 1.33
Information for the Coordinates of Exons (ICE): a human splice sites database. Genomics (2004) 1.24
DAMPD: a manually curated antimicrobial peptide database. Nucleic Acids Res (2011) 1.24
ERGDB: Estrogen Responsive Genes Database. Nucleic Acids Res (2004) 1.23
Cell-specific translational profiling in acute kidney injury. J Clin Invest (2014) 1.23
Database for exploration of functional context of genes implicated in ovarian cancer. Nucleic Acids Res (2008) 1.21
Sex differences in the recognition of and innate antiviral responses to Seoul virus in Norway rats. Brain Behav Immun (2007) 1.20
Neural substrates of the interaction of emotional stimulus processing and motor inhibitory control: an emotional linguistic go/no-go fMRI study. Neuroimage (2007) 1.19
An early response regulatory cluster induced by low temperature and hydrogen peroxide in seedlings of chilling-tolerant japonica rice. BMC Genomics (2007) 1.18
Toward an understanding of the molecular mechanisms of barnacle larval settlement: a comparative transcriptomic approach. PLoS One (2011) 1.17
Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress. BMC Plant Biol (2010) 1.17
Enhancement of plant-microbe interactions using a rhizosphere metabolomics-driven approach and its application in the removal of polychlorinated biphenyls. Plant Physiol (2003) 1.17
Increased brainstem volume in panic disorder: a voxel-based morphometric study. Neuroreport (2006) 1.15
Deciphering the transcriptional circuitry of microRNA genes expressed during human monocytic differentiation. BMC Genomics (2009) 1.14
Parkinson's disease spatial covariance pattern: noninvasive quantification with perfusion MRI. J Cereb Blood Flow Metab (2010) 1.14
The transcription factor ZBP-89 suppresses p16 expression through a histone modification mechanism to affect cell senescence. FEBS J (2009) 1.09
Dragon TF Association Miner: a system for exploring transcription factor associations through text-mining. Nucleic Acids Res (2004) 1.09
DDPC: Dragon Database of Genes associated with Prostate Cancer. Nucleic Acids Res (2010) 1.07
Dragon Plant Biology Explorer. A text-mining tool for integrating associations between genetic and biochemical entities with genome annotation and biochemical terms lists. Plant Physiol (2005) 1.06
Sex differences in mental rotation: top-down versus bottom-up processing. Neuroimage (2006) 1.05
TcoF-DB: dragon database for human transcription co-factors and transcription factor interacting proteins. Nucleic Acids Res (2010) 1.05
Symbiotic adaptation drives genome streamlining of the cyanobacterial sponge symbiont "Candidatus Synechococcus spongiarum". MBio (2014) 1.04
Anti-HDGF targets cancer and cancer stromal stem cells resistant to chemotherapy. Clin Cancer Res (2013) 1.04
The response and recovery of the Arabidopsis thaliana transcriptome to phosphate starvation. BMC Plant Biol (2012) 1.03
E2F5 status significantly improves malignancy diagnosis of epithelial ovarian cancer. BMC Cancer (2010) 1.02
Systems biology of innate immunity. Cell Immunol (2007) 1.01
Conotoxins that confer therapeutic possibilities. Mar Drugs (2012) 1.00
Assessment of the parallelization approach of d2_cluster for high-performance sequence clustering. J Comput Chem (2002) 0.99
Detection and preliminary analysis of motifs in promoters of anaerobically induced genes of different plant species. Ann Bot (2005) 0.99
Protein domain recurrence and order can enhance prediction of protein functions. Bioinformatics (2012) 0.97
Independent component analysis based on nonparametric density estimation. IEEE Trans Neural Netw (2004) 0.97
DDEC: Dragon database of genes implicated in esophageal cancer. BMC Cancer (2009) 0.97
MR imaging of tumor angiogenesis using sterically stabilized Gd-DTPA liposomes targeted to CD105. Eur J Radiol (2008) 0.96
Changes of brain activation pre- post short-term psychodynamic inpatient psychotherapy: an fMRI study of panic disorder patients. Psychiatry Res (2010) 0.95
HCVpro: hepatitis C virus protein interaction database. Infect Genet Evol (2011) 0.95
Supra-optimal expression of the cold-regulated OsMyb4 transcription factor in transgenic rice changes the complexity of transcriptional network with major effects on stress tolerance and panicle development. Plant Cell Environ (2010) 0.94
Characterization of the complete mitochondrial genomes of five Eimeria species from domestic chickens. Gene (2011) 0.94
Cyclic Arg-Gly-Asp peptide-labeled liposomes for targeting drug therapy of hepatic fibrosis in rats. J Pharmacol Exp Ther (2007) 0.93
RNAi-induced down-regulation of Mecp2 expression in the rat brain. Int J Dev Neurosci (2008) 0.92
Computational selection and prioritization of candidate genes for fetal alcohol syndrome. BMC Genomics (2007) 0.92
Vitamin D stimulates apoptosis in gastric cancer cells in synergy with trichostatin A /sodium butyrate-induced and 5-aza-2'-deoxycytidine-induced PTEN upregulation. FEBS J (2010) 0.92
Unique prokaryotic consortia in geochemically distinct sediments from Red Sea Atlantis II and discovery deep brine pools. PLoS One (2012) 0.92
Comparing memory-efficient genome assemblers on stand-alone and cloud infrastructures. PLoS One (2013) 0.92
Exploration of miRNA families for hypotheses generation. Sci Rep (2013) 0.92
Genotype and early development in Rett syndrome: the value of international data. Brain Dev (2005) 0.91
Recently confirmed apoptosis-inducing lead compounds isolated from marine sponge of potential relevance in cancer treatment. Mar Drugs (2011) 0.91
New variants in the CACNA1H gene identified in childhood absence epilepsy. Neurosci Lett (2006) 0.91
dPORE-miRNA: polymorphic regulation of microRNA genes. PLoS One (2011) 0.91
Genome sequence of Haloplasma contractile, an unusual contractile bacterium from a deep-sea anoxic brine lake. J Bacteriol (2011) 0.89
Differential activity of subgenual cingulate and brainstem in panic disorder and PTSD. J Anxiety Disord (2010) 0.89
DLC1-dependent parathyroid hormone-like hormone inhibition suppresses breast cancer bone metastasis. J Clin Invest (2014) 0.89
Promoter modeling: the case study of mammalian histone promoters. Bioinformatics (2005) 0.89
Transcriptome changes affecting Hedgehog and cytokine signalling in the umbilical cord: implications for disease risk. PLoS One (2012) 0.88
FRAGS: estimation of coding sequence substitution rates from fragmentary data. BMC Bioinformatics (2004) 0.87
Low-dose propofol-induced amnesia is not due to a failure of encoding: left inferior prefrontal cortex is still active. Anesthesiology (2008) 0.87
DDESC: Dragon database for exploration of sodium channels in human. BMC Genomics (2008) 0.87
Analysis of the parental origin of de novo MECP2 mutations and X chromosome inactivation in 24 sporadic patients with Rett syndrome in China. J Child Neurol (2010) 0.87
Computational method for discovery of estrogen responsive genes. Nucleic Acids Res (2004) 0.87
Structural basis for the assembly and gate closure mechanisms of the Mycobacterium tuberculosis 20S proteasome. EMBO J (2010) 0.86
Diurnal cortisol amplitude and fronto-limbic activity in response to stressful stimuli. Psychoneuroendocrinology (2009) 0.86
Information and sequence extraction around the 5'-end and translation initiation site of human genes. In Silico Biol (2002) 0.86
HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data. Bioinformatics (2013) 0.86
Simplified method to predict mutual interactions of human transcription factors based on their primary structure. PLoS One (2011) 0.86
Gibberellic acid and cGMP-dependent transcriptional regulation in Arabidopsis thaliana. Plant Signal Behav (2010) 0.86
Cytotoxicity and apoptosis induced by a plumbagin derivative in estrogen positive MCF-7 breast cancer cells. Anticancer Agents Med Chem (2014) 0.85
Clinical features and gene mutational spectrum of CDKL5-related diseases in a cohort of Chinese patients. BMC Med Genet (2014) 0.85
Cationic polypeptide micelle-based antigen delivery system: a simple and robust adjuvant to improve vaccine efficacy. J Control Release (2013) 0.85
Comparison of ablation zones among different tissues using 2450-MHz cooled-shaft microwave antenna: results in ex vivo porcine models. PLoS One (2013) 0.84
Frontolimbic function and cortisol reactivity in response to emotional stimuli. Neuroreport (2009) 0.84
KBERG: KnowledgeBase for Estrogen Responsive Genes. Nucleic Acids Res (2006) 0.84
Distribution and accumulation of heavy metals in surface sediments from a subtropical bay affected by the Special Economic Zone, China. Water Sci Technol (2013) 0.84