Published in Mol Biol Evol on September 18, 2006
Most rare missense alleles are deleterious in humans: implications for complex disease and association studies. Am J Hum Genet (2007) 10.92
The new mutation theory of phenotypic evolution. Proc Natl Acad Sci U S A (2007) 1.97
Estimating the distribution of selection coefficients from phylogenetic data using sitewise mutation-selection models. Genetics (2011) 1.45
Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations. Genome Res (2009) 1.26
Intergenic, gene terminal, and intragenic CpG islands in the human genome. BMC Genomics (2010) 1.13
Statistics and truth in phylogenomics. Mol Biol Evol (2011) 1.12
Divergence and polymorphism under the nearly neutral theory of molecular evolution. J Mol Evol (2008) 1.01
Extensive parallelism in protein evolution. Biol Direct (2007) 1.00
Hypermutable non-synonymous sites are under stronger negative selection. PLoS Genet (2008) 0.98
Stoichiogenomics: the evolutionary ecology of macromolecular elemental composition. Trends Ecol Evol (2010) 0.94
Diversity and evolution of 11 innate immune genes in Bos taurus taurus and Bos taurus indicus cattle. Proc Natl Acad Sci U S A (2009) 0.93
Evolution of the bovine TLR gene family and member associations with Mycobacterium avium subspecies paratuberculosis infection. PLoS One (2011) 0.83
CpG site degeneration triggered by the loss of functional constraint created a highly polymorphic macaque drug-metabolizing gene, CYP1A2. BMC Evol Biol (2011) 0.81
Methods for incorporating the hypermutability of CpG dinucleotides in detecting natural selection operating at the amino acid sequence level. Mol Biol Evol (2009) 0.81
Toll-like receptors (TLRs) and mannan-binding lectin (MBL): on constant alert in a hostile environment. Ups J Med Sci (2011) 0.75
Initial sequence of the chimpanzee genome and comparison with the human genome. Nature (2005) 25.67
Patterns of single-nucleotide polymorphisms in candidate genes for blood-pressure homeostasis. Nat Genet (1999) 17.09
Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution. Genome Res (2003) 11.12
Natural selection on protein-coding genes in the human genome. Nature (2005) 10.84
A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proc Natl Acad Sci U S A (2006) 10.63
Statistical methods for detecting molecular adaptation. Trends Ecol Evol (2000) 10.10
A scan for positively selected genes in the genomes of humans and chimpanzees. PLoS Biol (2005) 8.32
Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution. Proc Natl Acad Sci U S A (2004) 7.42
Codon-substitution models for detecting molecular adaptation at individual sites along specific lineages. Mol Biol Evol (2002) 7.21
Large-scale structure of genomic methylation patterns. Genome Res (2005) 4.11
Preponderance of synonymous changes as evidence for the neutral theory of molecular evolution. Nature (1977) 4.00
Molecular evolution of mRNA: a method for estimating evolutionary rates of synonymous and amino acid substitutions from homologous nucleotide sequences and its application. J Mol Evol (1980) 3.61
Neighboring-nucleotide effects on the rates of germ-line single-base-pair substitution in human genes. Am J Hum Genet (1998) 3.12
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol (2005) 2.94
Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers. Mol Biol Evol (2005) 2.85
The signature of selection mediated by expression on human genes. Genome Res (2003) 2.56
Selection on human genes as revealed by comparisons to chimpanzee cDNA. Genome Res (2003) 2.48
Distribution of the strength of selection against amino acid replacements in human proteins. Hum Mol Genet (2005) 2.34
Why do human diversity levels vary at a megabase scale? Genome Res (2005) 2.33
Neutral substitutions occur at a faster rate in exons than in noncoding DNA in primate genomes. Genome Res (2003) 1.94
Weak selection revealed by the whole-genome comparison of the X chromosome and autosomes of human and chimpanzee. Proc Natl Acad Sci U S A (2005) 1.67
CpG mutation rates in the human genome are highly dependent on local GC content. Mol Biol Evol (2004) 1.59
The covariation between TpA deficiency, CpG deficiency, and G+C content of human isochores is due to a mathematical artifact. Mol Biol Evol (2000) 1.48
DNA methylation de novo. Science (1999) 1.39
An evolutionary approach reveals a high protein-coding capacity of the human genome. Trends Genet (2003) 1.12
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol (2011) 220.97
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol (2007) 168.76
MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol (2013) 112.81
Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci U S A (2004) 20.53
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
Precision of molecular time estimates. Trends Genet (2004) 15.94
Estimating divergence times in large molecular phylogenies. Proc Natl Acad Sci U S A (2012) 13.49
TimeTree: a public knowledge-base of divergence times among organisms. Bioinformatics (2006) 10.24
Heterogeneity of nucleotide frequencies among evolutionary lineages and phylogenetic inference. Mol Biol Evol (2003) 7.78
Fast and slow implementations of relaxed-clock methods show similar patterns of accuracy in estimating divergence times. Mol Biol Evol (2011) 6.93
Temporal patterns of fruit fly (Drosophila) evolution revealed by mutation clocks. Mol Biol Evol (2003) 5.30
Performance of relaxed-clock methods in estimating evolutionary divergence times and their credibility intervals. Mol Biol Evol (2010) 5.13
Evolutionary diagnosis method for variants in personal exomes. Nat Methods (2012) 3.32
Constraint and turnover in sex-biased gene expression in the genus Drosophila. Nature (2007) 3.04
Genomic clocks and evolutionary timescales. Trends Genet (2003) 2.83
Gene expression intensity shapes evolutionary rates of the proteins encoded by the vertebrate genome. Genetics (2004) 2.63
Evolutionary distance estimation under heterogeneous substitution pattern among lineages. Mol Biol Evol (2002) 2.23
Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree. J Exp Zool B Mol Dev Evol (2005) 2.22
Neutral substitutions occur at a faster rate in exons than in noncoding DNA in primate genomes. Genome Res (2003) 1.94
Evolutionary anatomies of positions and types of disease-associated and neutral amino acid mutations in the human genome. BMC Genomics (2006) 1.87
Bone and Joint day - India. Indian J Orthop (2013) 1.84
Nullomers: really a matter of natural selection? PLoS One (2007) 1.67
Clinical and laboratory features and response to treatment in patients presenting with vitamin B12 deficiency-related neurological syndromes. Neurol India (2005) 1.66
Identifying spatially similar gene expression patterns in early stage fruit fly embryo images: binary feature versus invariant moment digital representations. BMC Bioinformatics (2004) 1.64
Genomics. Vertebrate genomes compared. Science (2002) 1.57
Evolution of modern birds revealed by mitogenomics: timing the radiation and origin of major orders. Mol Biol Evol (2011) 1.55
Zinc oxide nanoparticles selectively induce apoptosis in human cancer cells through reactive oxygen species. Int J Nanomedicine (2012) 1.54
Automated annotation of Drosophila gene expression patterns using a controlled vocabulary. Bioinformatics (2008) 1.50
Performance of computational tools in evaluating the functional impact of laboratory-induced amino acid mutations. Bioinformatics (2012) 1.46
Decompressive surgery for severe cerebral venous sinus thrombosis. Neurol India (2010) 1.46
Drosophila Gene Expression Pattern Annotation Using Sparse Features and Term-Term Interactions. KDD (2009) 1.45
Taxon sampling, bioinformatics, and phylogenomics. Syst Biol (2003) 1.44
Improved lignocellulose conversion to biofuels with thermophilic bacteria and thermostable enzymes. Bioresour Technol (2012) 1.40
Quantitative analysis of the Drosophila segmentation regulatory network using pattern generating potentials. PLoS Biol (2010) 1.40
Bilateral anterior shoulder dislocation: a case report. Eur J Emerg Med (2005) 1.35
A bag-of-words approach for Drosophila gene expression pattern annotation. BMC Bioinformatics (2009) 1.34
Classification of Drosophila embryonic developmental stage range based on gene expression pattern images. Comput Syst Bioinformatics Conf (2006) 1.33
Comparison of embryonic expression within multigene families using the FlyExpress discovery platform reveals more spatial than temporal divergence. Dev Dyn (2011) 1.27
Genomic sequence of a ranavirus (family Iridoviridae) associated with salamander mortalities in North America. Virology (2003) 1.27
Sharing and re-use of phylogenetic trees (and associated data) to facilitate synthesis. BMC Res Notes (2012) 1.24
Local or general anesthesia for open hernia repair: a randomized trial. Ann Surg (2003) 1.20
The origin of Metazoa: a transition from temporal to spatial cell differentiation. Bioessays (2009) 1.16
Patterns of transitional mutation biases within and among mammalian genomes. Mol Biol Evol (2003) 1.13
Maximum likelihood outperforms maximum parsimony even when evolutionary rates are heterotachous. Mol Biol Evol (2005) 1.12
Signatures of ecological resource availability in the animal and plant proteomes. Mol Biol Evol (2006) 1.10
Outcome of laparoscopic cholecystectomy in patients 80 years and older. World J Surg (2004) 1.09
Branding: a harmful practice. Indian Pediatr (2005) 1.07
More reliable estimates of divergence times in Pan using complete mtDNA sequences and accounting for population structure. Philos Trans R Soc Lond B Biol Sci (2010) 1.05
Nanotoxicity of pure silica mediated through oxidant generation rather than glutathione depletion in human lung epithelial cells. Toxicology (2010) 1.05
Contamination levels and spatial distribution of organochlorine pesticides in soils from India. Ecotoxicol Environ Saf (2011) 1.04
The spectrum of human rhodopsin disease mutations through the lens of interspecific variation. Gene (2004) 1.04
Human genomic disease variants: a neutral evolutionary explanation. Genome Res (2012) 1.02
Relationship between gene co-expression and sharing of transcription factor binding sites in Drosophila melanogaster. Bioinformatics (2009) 1.02
Isolated dorsal dislocation of the intermediate cunieform: a case report and review of the literature. Arch Orthop Trauma Surg (2003) 1.02
Developmental Stage Annotation of Drosophila Gene Expression Pattern Images via an Entire Solution Path for LDA. ACM Trans Knowl Discov Data (2008) 1.02
Magnetic resonance evaluation of tubercular lesion in spine. Int Orthop (2011) 1.01
Isolated bilateral ptosis as the presentation of midbrain tuberculoma. Neurol India (2008) 1.01
The role of simultaneous gap arthroplasty and distraction osteogenesis in the management of temporo-mandibular joint ankylosis with mandibular deformity in children. J Craniomaxillofac Surg (2004) 1.01
DNA vaccines encoding viral envelope proteins confer protective immunity against WSSV in black tiger shrimp. Vaccine (2007) 1.01
Ecological nitrogen limitation shapes the DNA composition of plant genomes. Mol Biol Evol (2009) 1.00
Drosophila Gene Expression Pattern Annotation through Multi-Instance Multi-Label Learning. IJCAI (U S) (2009) 0.99
Evolutionary balancing is critical for correctly forecasting disease-associated amino acid variants. Mol Biol Evol (2013) 0.99
Multifocal skeletal tuberculosis in children: a retrospective study of 18 cases. Scand J Infect Dis (2003) 0.97
Structural dynamics flexibility informs function and evolution at a proteome scale. Evol Appl (2013) 0.95
Drosophila gene expression pattern annotation through multi-instance multi-label learning. IEEE/ACM Trans Comput Biol Bioinform (2011) 0.95
Kaempferol has osteogenic effect in ovariectomized adult Sprague-Dawley rats. Mol Cell Endocrinol (2008) 0.95
Reversible electrophysiological abnormalities in hypokalemic periodic paralysis. Indian Pediatr (2008) 0.95
Stoichiogenomics: the evolutionary ecology of macromolecular elemental composition. Trends Ecol Evol (2010) 0.94
Effects of Egb 761 on bone mineral density, bone microstructure, and osteoblast function: Possible roles of quercetin and kaempferol. Mol Cell Endocrinol (2009) 0.92
Evolutionary meta-analysis of association studies reveals ancient constraints affecting disease marker discovery. Mol Biol Evol (2012) 0.92
Behaviour problems in children and adolescents with seizure disorder: associations and risk factors. Seizure (2005) 0.91
Rampant purifying selection conserves positions with posttranslational modifications in human proteins. Mol Biol Evol (2011) 0.91
IPS multicentric study: Antidepressant prescription patterns. Indian J Psychiatry (2013) 0.90
A survey of prescribing pattern for osteoarticular tuberculosis: orthopaedic surgeons' and infectious disease experts' perspective. Indian J Tuberc (2009) 0.90
Gsdma3(I359N) is a novel ENU-induced mutant mouse line for studying the function of Gasdermin A3 in the hair follicle and epidermis. J Dermatol Sci (2012) 0.90
Snake venom: a potent anticancer agent. Asian Pac J Cancer Prev (2012) 0.90
Differential diagnosis of scrub typhus meningitis from bacterial meningitis using clinical and laboratory features. Neurol India (2013) 0.89
Efficacy of extended DOTS category I chemotherapy in spinal tuberculosis based on MRI-based healed status. Indian J Orthop (2012) 0.89
Genotoxicity assessment of acute exposure of chlorpyrifos to freshwater fish Channa punctatus (Bloch) using micronucleus assay and alkaline single-cell gel electrophoresis. Chemosphere (2008) 0.88
Laparoscopic totally extraperitoneal mesh repair for femoral hernia. J Laparoendosc Adv Surg Tech A (2004) 0.88
Purifying selection modulates the estimates of population differentiation and confounds genome-wide comparisons across single-nucleotide polymorphisms. Mol Biol Evol (2012) 0.88
Assessment of health risks with reference to oxidative stress and DNA damage in chromium exposed population. Sci Total Environ (2012) 0.88
Y Chromosome microdeletion and altered sperm quality in human males with high concentration of seminal hexachlorocyclohexane (HCH). Chemosphere (2010) 0.88
POSSUM scoring for laparoscopic cholecystectomy in the elderly. ANZ J Surg (2005) 0.88
Macrophage migration inhibitory factor: a potential marker for cancer diagnosis and therapy. Asian Pac J Cancer Prev (2012) 0.87
MEGA-MD: molecular evolutionary genetics analysis software with mutational diagnosis of amino acid variation. Bioinformatics (2014) 0.87
Interlaminar discectomy and selective foraminotomy in lumbar disc herniation. J Orthop Surg (Hong Kong) (2001) 0.87
Effect of dust aerosol in patients with asthma. J Asthma (2012) 0.87
Awake fibreoptic intubation in the sitting position in a patient with a huge goitre. Case Rep Anesthesiol (2011) 0.87
Learning sparse representations for fruit-fly gene expression pattern image annotation and retrieval. BMC Bioinformatics (2012) 0.86
Constraining fossil calibrations for molecular clocks. Bioessays (2006) 0.85
Guillain-Barre syndrome occurring in the course of dengue fever. Neurol India (2005) 0.84
A case study: biomedical waste management practices at city hospital in Himachal Pradesh. Waste Manag Res (2011) 0.84
Genome-wide profiling of human cap-independent translation-enhancing elements. Nat Methods (2013) 0.84
Phylogenetic placement of metagenomic reads using the minimum evolution principle. BMC Genomics (2015) 0.83
Signatures of nitrogen limitation in the elemental composition of the proteins involved in the metabolic apparatus. Proc Biol Sci (2009) 0.83
Adverse effects due to poor patient understanding of anti-epileptic medication prescriptions. Indian Pediatr (2003) 0.83
Cytotoxicity and apoptosis induction by nanoscale talc particles from two different geographical regions in human lung epithelial cells. Environ Toxicol (2012) 0.83
Phylogenetic construction of 17 bacterial phyla by new method and carefully selected orthologs. Gene (2008) 0.83
Assessment of genotoxic and mutagenic effects of chlorpyrifos in freshwater fish Channa punctatus (Bloch) using micronucleus assay and alkaline single-cell gel electrophoresis. Food Chem Toxicol (2008) 0.83