Published in Brief Bioinform on February 04, 2012
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Estimating the number of species with CatchAll. Pac Symp Biocomput (2011) 1.86
Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes. J Microbiol Methods (2010) 1.63
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Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in marker gene phylogenetic trees. PLoS One (2011) 1.56
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Evaluating the fidelity of de novo short read metagenomic assembly using simulated data. PLoS One (2011) 1.39
Metatranscriptomic analysis of autonomously collected and preserved marine bacterioplankton. ISME J (2011) 1.28
Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset. Microb Inform Exp (2011) 1.14
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Metagenomics of the subsurface Brazos-Trinity Basin (IODP site 1320): comparison with other sediment and pyrosequenced metagenomes. ISME J (2011) 1.03
Novel analysis of oceanic surface water metagenomes suggests importance of polyphosphate metabolism in oligotrophic environments. PLoS One (2011) 1.01
Practical application of self-organizing maps to interrelate biodiversity and functional data in NGS-based metagenomics. ISME J (2010) 1.00
Estimating population diversity with unreliable low frequency counts. Pac Symp Biocomput (2012) 0.99
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Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J (2012) 16.84
Missing heritability and strategies for finding the underlying causes of complex disease. Nat Rev Genet (2010) 14.81
A high-density admixture map for disease gene discovery in african americans. Am J Hum Genet (2004) 10.87
The genetic structure and history of Africans and African Americans. Science (2009) 10.65
Multifactor dimensionality reduction software for detecting gene-gene and gene-environment interactions. Bioinformatics (2003) 9.91
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Characterization of microRNA expression levels and their biological correlates in human cancer cell lines. Cancer Res (2007) 6.57
Power of multifactor dimensionality reduction for detecting gene-gene interactions in the presence of genotyping error, missing data, phenocopy, and genetic heterogeneity. Genet Epidemiol (2003) 6.31
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A balanced accuracy function for epistasis modeling in imbalanced datasets using multifactor dimensionality reduction. Genet Epidemiol (2007) 4.15
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Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc Natl Acad Sci U S A (2012) 3.71
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Whole genome association study of brain-wide imaging phenotypes for identifying quantitative trait loci in MCI and AD: A study of the ADNI cohort. Neuroimage (2010) 3.27
Renin-angiotensin system gene polymorphisms and atrial fibrillation. Circulation (2004) 3.02
Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression. Nat Genet (2012) 2.86
Alzheimer's Disease Neuroimaging Initiative biomarkers as quantitative phenotypes: Genetics core aims, progress, and plans. Alzheimers Dement (2010) 2.79
Failure to replicate a genetic association may provide important clues about genetic architecture. PLoS One (2009) 2.72
A global view of epistasis. Nat Genet (2005) 2.71
Estimating the number of species in a stochastic abundance model. Biometrics (2002) 2.62
Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the United States. Science (2013) 2.62
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Optimization of neural network architecture using genetic programming improves detection and modeling of gene-gene interactions in studies of human diseases. BMC Bioinformatics (2003) 2.47
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The Western English Channel contains a persistent microbial seed bank. ISME J (2011) 2.37
Polymerase chain reaction primers miss half of rRNA microbial diversity. ISME J (2009) 2.18
Epigenomic enhancer profiling defines a signature of colon cancer. Science (2012) 2.15
Genetic basis for adverse events after smallpox vaccination. J Infect Dis (2008) 2.09
Concordance of multiple analytical approaches demonstrates a complex relationship between DNA repair gene SNPs, smoking and bladder cancer susceptibility. Carcinogenesis (2005) 2.08
Unlocking the potential of metagenomics through replicated experimental design. Nat Biotechnol (2012) 2.08
Proteomic-based prognosis of brain tumor patients using direct-tissue matrix-assisted laser desorption ionization mass spectrometry. Cancer Res (2005) 2.06
Elevated male European and female African contributions to the genomes of African American individuals. Hum Genet (2006) 1.97
An application of conditional logistic regression and multifactor dimensionality reduction for detecting gene-gene interactions on risk of myocardial infarction: the importance of model validation. BMC Bioinformatics (2004) 1.95
Pathway analysis of genomic data: concepts, methods, and prospects for future development. Trends Genet (2012) 1.86
Multilocus analysis of hypertension: a hierarchical approach. Hum Hered (2004) 1.82
Shadows of complexity: what biological networks reveal about epistasis and pleiotropy. Bioessays (2009) 1.82
A meta-analysis identifies new loci associated with body mass index in individuals of African ancestry. Nat Genet (2013) 1.82
Ideal discrimination of discrete clinical endpoints using multilocus genotypes. In Silico Biol (2004) 1.81
Evidence for a persistent microbial seed bank throughout the global ocean. Proc Natl Acad Sci U S A (2013) 1.78
Recurrent tissue-specific mtDNA mutations are common in humans. PLoS Genet (2013) 1.77
Protistan microbial observatory in the Cariaco Basin, Caribbean. I. Pyrosequencing vs Sanger insights into species richness. ISME J (2011) 1.76
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Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS. Bioinformatics (2010) 1.76
Spatially uniform relieff (SURF) for computationally-efficient filtering of gene-gene interactions. BioData Min (2009) 1.75
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A gene expression fingerprint of C. elegans embryonic motor neurons. BMC Genomics (2005) 1.72
Exploiting the proteome to improve the genome-wide genetic analysis of epistasis in common human diseases. Hum Genet (2008) 1.72
Characterizing genetic interactions in human disease association studies using statistical epistasis networks. BMC Bioinformatics (2011) 1.68
Structure, fluctuation and magnitude of a natural grassland soil metagenome. ISME J (2012) 1.66
A computationally efficient hypothesis testing method for epistasis analysis using multifactor dimensionality reduction. Genet Epidemiol (2009) 1.61
Gut microbial colonisation in premature neonates predicts neonatal sepsis. Arch Dis Child Fetal Neonatal Ed (2012) 1.59
Accelerating epistasis analysis in human genetics with consumer graphics hardware. BMC Res Notes (2009) 1.58
Combinatorial pharmacogenetics. Nat Rev Drug Discov (2005) 1.58
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Genome-wide association analysis of blood-pressure traits in African-ancestry individuals reveals common associated genes in African and non-African populations. Am J Hum Genet (2013) 1.55
Microbial eukaryotes in the hypersaline anoxic L'Atalante deep-sea basin. Environ Microbiol (2008) 1.54
The genomic standards consortium: bringing standards to life for microbial ecology. ISME J (2011) 1.52
Predicting bacterial community assemblages using an artificial neural network approach. Nat Methods (2012) 1.51
Single-nucleotide polymorphisms for diagnosis of salt-sensitive hypertension. Clin Chem (2006) 1.51
Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG. BMC Bioinformatics (2011) 1.48
Next generation analytic tools for large scale genetic epidemiology studies of complex diseases. Genet Epidemiol (2011) 1.47
Evolving hard problems: Generating human genetics datasets with a complex etiology. BioData Min (2011) 1.47
Application of Genetic Algorithms to the Discovery of Complex Models for Simulation Studies in Human Genetics. Proc Genet Evol Comput Conf (2002) 1.46
Renin-angiotensin system gene polymorphisms and coronary artery disease in a large angiographic cohort: detection of high order gene-gene interaction. Atherosclerosis (2006) 1.46
A system-level pathway-phenotype association analysis using synthetic feature random forest. Genet Epidemiol (2014) 1.46
Genome-wide association study for circulating tissue plasminogen activator levels and functional follow-up implicates endothelial STXBP5 and STX2. Arterioscler Thromb Vasc Biol (2014) 1.45
Microeukaryote community patterns along an O2/H2S gradient in a supersulfidic anoxic fjord (Framvaren, Norway). Appl Environ Microbiol (2006) 1.45
Bladder cancer SNP panel predicts susceptibility and survival. Hum Genet (2009) 1.43
Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness. MBio (2014) 1.42
Pyrosequencing of Mytilus galloprovincialis cDNAs: tissue-specific expression patterns. PLoS One (2010) 1.41
Risk estimation using probability machines. BioData Min (2014) 1.40
GAMETES: a fast, direct algorithm for generating pure, strict, epistatic models with random architectures. BioData Min (2012) 1.40
The interaction of four genes in the inflammation pathway significantly predicts prostate cancer risk. Cancer Epidemiol Biomarkers Prev (2005) 1.39
Problems with genome-wide association studies. Science (2007) 1.39
Drinking-water arsenic exposure modulates gene expression in human lymphocytes from a U.S. population. Environ Health Perspect (2008) 1.39
Relative impact of CYP3A genotype and concomitant medication on the severity of atorvastatin-induced muscle damage. Pharmacogenet Genomics (2005) 1.38
A training-testing approach to the molecular classification of resected non-small cell lung cancer. Clin Cancer Res (2003) 1.36
Integrative functional genomics identifies an enhancer looping to the SOX9 gene disrupted by the 17q24.3 prostate cancer risk locus. Genome Res (2012) 1.35
Evidence for epistasis between SLC6A4 and ITGB3 in autism etiology and in the determination of platelet serotonin levels. Hum Genet (2007) 1.35
Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. PLoS One (2012) 1.33
Detecting pathway-based gene-gene and gene-environment interactions in pancreatic cancer. Cancer Epidemiol Biomarkers Prev (2008) 1.33
Genetic Programming Neural Networks: A Powerful Bioinformatics Tool for Human Genetics. Appl Soft Comput (2007) 1.33
Enabling personal genomics with an explicit test of epistasis. Pac Symp Biocomput (2010) 1.33
Cytokine expression patterns associated with systemic adverse events following smallpox immunization. J Infect Dis (2006) 1.29
Protistan diversity in the Arctic: a case of paleoclimate shaping modern biodiversity? PLoS One (2007) 1.28
Genome-wide association study for circulating levels of PAI-1 provides novel insights into its regulation. Blood (2012) 1.26
DNA repair polymorphisms modify bladder cancer risk: a multi-factor analytic strategy. Hum Hered (2007) 1.25
The basis for hyperactivity of antifreeze proteins. Cryobiology (2006) 1.24
Comparison of multiple metagenomes using phylogenetic networks based on ecological indices. ISME J (2010) 1.23
Genetic analysis of quantitative phenotypes in AD and MCI: imaging, cognition and biomarkers. Brain Imaging Behav (2014) 1.23
Studying the microbiology of the indoor environment. Genome Biol (2013) 1.20
A Simple and Computationally Efficient Approach to Multifactor Dimensionality Reduction Analysis of Gene-Gene Interactions for Quantitative Traits. PLoS One (2013) 1.20
Role for protein-protein interaction databases in human genetics. Expert Rev Proteomics (2009) 1.20
An information-gain approach to detecting three-way epistatic interactions in genetic association studies. J Am Med Inform Assoc (2013) 1.19
Environmental rRNA inventories miss over half of protistan diversity. BMC Microbiol (2008) 1.18
Investigating the impact of storage conditions on microbial community composition in soil samples. PLoS One (2013) 1.18
Acceleration of cardiovascular disease by a dysfunctional prostacyclin receptor mutation: potential implications for cyclooxygenase-2 inhibition. Circ Res (2008) 1.17