Using disease-associated coding sequence variation to investigate functional compensation by human paralogous proteins
Evolutionary Bioinformatics 2015(11):245-251
A protocol for diagnosing the effect of calibration priors on posterior time estimates: a case study for the Cambrian explosion of animal phyla
Molecular Biology and Evolution 32(7):1907-1912
Conformational dynamics of nonsynonymous variants at protein interfaces reveals disease association
Proteins-Structure Function and Bioinformatics 83(3):428-435
Phylogenetic placement of metagenomic reads using the minimum evolution principle
BMC Genomics 2015(16):9 pp
Evolutionary Diagnosis of non-synonymous variants involved in differential drug response
BMC Medical Genomics 2015(8):6 pp
Tree of life reveals clock-like speciation and diversification
Molecular Biology and Evolution 32(4):835-845
Exceptional reduction of the plastid genome of saguaro cactus (Carnegiea gigantea): Loss of the ndh gene suite and inverted repeat
American Journal of Botany 102(7):1115-1127
Prospects for building large timetrees using molecular data with incomplete gene coverage among species
Molecular Biology and Evolution 31(9):2542-2550
Signatures of natural selection on mutations of residues with multiple posttranslational modifications
Molecular Biology and Evolution 31(7):1641-1645
No positive selection for G allele in a p53 response element in Europeans
Cell 157(7):1497-1499
Reply to: "Proper reporting of predictor performance"
Nature Methods 11(8):781-782
myFX: a turn-key software for laboratory desktops to analyze spatial patterns of gene expression in Drosophila embryos
Bioinformatics 30(9):1319-1321
MEGA-MD: molecular evolutionary genetics analysis software with mutational diagnosis of amino acid variation
Bioinformatics 30(9):1305-1307
Automated annotation of developmental stages of Drosophila embryos in images containing spatial patterns of expression
Bioinformatics 30(2):266-273
Whole-genome sequencing of the snub-nosed monkey provides insights into folivory and evolutionary history
Nature Genetics 46(12):1303-1310
The evolutionary history of amino acid variations mediating increased resistance of S. aureus identifies reversion mutations in metabolic regulators
PLOS ONE 8(2):9 pp
Structural dynamics flexibility informs function and evolution at a proteome scale
Evolutionary Applications 6(3):423-433
GRASP [Genomic Resource Access for Stoichioproteomics]: comparative explorations of the atomic content of 12 Drosophila proteomes
BMC Genomics 14(599):14 pp
Evolutionary balancing is critical for correctly forecasting disease-associated amino acid variants
Molecular Biology and Evolution 30(6):1252-1257
Image-level and group-level models for Drosophila gene expression pattern annotation
BMC Bioinformatics 14(350):13 pp
MEGA6: Molecular Evolutionary Genetics Analysis version 6.0
Molecular Biology and Evolution 30(12):2725-2729
Genome-wide profiling of human cap-independent translation-enhancing elements
Nature Methods 10(8):747-750
A mesh generation and machine learning framework for Drosophila gene expression pattern image analysis
BMC Bioinformatics 2013(14):372-381
Exploring spatial patterns of gene expression from fruit fly embryogenesis on the iPhone
Bioinformatics 28(1):2847-2848
Sharing and re-use of phylogenetic trees (and associated data) to facilitate synthesis
BMC Research Notes 5(574):15 pp
Evolutionary meta-analysis of association studies reveals ancient constraints affecting disease marker discovery
Molecular Biology and Evolution 29(9):2087-2094
Human genomic disease variants: a neutral evolutionary explanation
Genome Research 22(8):1383-1394
Performance of computational tools in evaluating the functional impact of laboratory-induced amino acid mutations
Bioinformatics 28(16):2093-2096
Comparison of embryonic expression within multigene families using the FlyExpress discovery platform reveals more spatial than temporal divergence
Developmental Dynamics 241(1):150-160
Statistics and truth in phylogenomics
Molecular Biology and Evolution 29(2):457-472
Evolutionary diagnosis method for variants in personal exomes
Nature Methods 9(9):855-856
MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis
Bioinformatics 28(20):2685-2686
Drosophila gene expression pattern annotation through multi-instance multi-label learning
IEEE-ACM Transactions on Computational Biology and Bioinformatics 9(1):98-112
Purifying selection modulates the estimates of population differentiation and confounds genome-wide comparisons across single-nucleotide polymorphisms
Molecular Biology and Evolution 29(12):3617-3623
Estimating divergence times in large molecular phylogenies
Proceedings of the National Academy of Sciences (USA) 109(47):19333-19338
Learning sparse representations for fruit-fly gene expression pattern image annotation and retrieval
BMC Bioinformatics 13(107):15 pp