Sudhir Kumar

发表

Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps.

Sudip Sharma, Sudhir Kumar, 2021, Nature computational science.

TreeMap: a structured approach to fine mapping of eQTL variants

Greg Gibson, Pramod Chandrashekar, Li Liu, 2020, bioRxiv.

Data-driven speciation tree prior for better species divergence times in calibration-poor molecular phylogenies

Qiqing Tao, Sudhir Kumar, Jose Barba-Montoya, 2021, bioRxiv.

Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations.

Sudhir Kumar, Sudhir Kumar, A. Filipski, 2009, Genome research.

MBE citation classics (2015 edition).

Sudhir Kumar, 2015, Molecular biology and evolution.

Rampant purifying selection conserves positions with posttranslational modifications in human proteins.

Vanessa E. Gray, Vanessa E Gray, Sudhir Kumar, 2011, Molecular biology and evolution.

Tempo and Mode of Nucleotide Substitution in gag andenv Gene Fragments in Human Immunodeficiency Virus Type 1 Populations with a Known Transmission History

Jan Albert, Sudhir Kumar, Sudhir Kumar, 1998, Journal of Virology.

Advances in Time Estimation Methods for Molecular Data.

Sudhir Kumar, Sudhir Kumar, S. Hedges, 2016, Molecular biology and evolution.

Human genomic disease variants : A neutral evolutionary explanation

Rong Chen, Joel T Dudley, Atul J Butte, 2012 .

Association of orthodenticle with natural variation for early embryonic patterning in Drosophila melanogaster.

Joachim Hermisson, Christopher Busick, Greg Gibson, 2009, Journal of experimental zoology. Part B, Molecular and developmental evolution.

Relative Efficiencies of Simple and Complex Substitution Models in Estimating Divergence Times in Phylogenomics

Louise A. Huuki, Qiqing Tao, Sudhir Kumar, 2020, bioRxiv.

More reliable estimates of divergence times in Pan using complete mtDNA sequences and accounting for population structure

Laura S. Kubatko, Sudhir Kumar, G. Perry, 2010, Philosophical Transactions of the Royal Society B: Biological Sciences.

Molecular clocks: four decades of evolution

Sudhir Kumar, Sudhir Kumar, 2005, Nature Reviews Genetics.

Gene Expression Intensity Shapes Evolutionary Rates of the Proteins Encoded by the Vertebrate Genome

Sudhir Kumar, Sudhir Kumar, S. Subramanian, 2004, Genetics.

Theoretical Foundation of the RelTime Method for Estimating Divergence Times from Variable Evolutionary Rates

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2017, bioRxiv.

Evolutionary balancing is critical for correctly forecasting disease-associated amino acid variants.

Li Liu, Sudhir Kumar, Sudhir Kumar, 2013, Molecular biology and evolution.

Whole-genome sequencing of the snub-nosed monkey provides insights into folivory and evolutionary history

Ming Li, Guang Yang, Ruiqiang Li, 2014, Nature Genetics.

A new method for detecting autocorrelation of evolutionary rates in large phylogenies

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2018, bioRxiv.

Biological relevance of computationally predicted pathogenicity of noncoding variants

Greg Gibson, Ravi Patel, Pramod Chandrashekar, 2019, Nature Communications.

Quantitative Analysis of the Drosophila Segmentation Regulatory Network Using Pattern Generating Potentials

Charles Blatti, Saurabh Sinha, Majid Kazemian, 2010, PLoS biology.

Molecular Phylogeny Reconstruction

Alan Filipski, Sudhir Kumar, Sudhir Kumar, 2020, eLS.

A Machine Learning Method for Detecting Autocorrelation of Evolutionary Rates in Large Phylogenies

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2019, Molecular biology and evolution.

Evolutionary Genetics Analysis Version 6 . 0

Koichiro Tamura, Glen Stecher, Daniel Peterson, 2013 .

Estimating divergence times in large molecular phylogenies

Koichiro Tamura, Alan Filipski, Sudhir Kumar, 2012, Proceedings of the National Academy of Sciences.

The timetree of life

Sudhir Kumar, Sudhir Kumar, S. Hedges, 2009 .

Fast and Accurate Estimates of Divergence Times from Big Data

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2017, Molecular biology and evolution.

Classification of Drosophila embryonic developmental stage range based on gene expression pattern images.

Jieping Ye, Sudhir Kumar, Qi Li, 2006, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

Phylogenetic placement of metagenomic reads using the minimum evolution principle

Koichiro Tamura, Alan Filipski, Sudhir Kumar, 2015, BMC Genomics.

Placing confidence limits on the molecular age of the human-chimpanzee divergence.

Alan Filipski, Alan Walker, Sudhir Kumar, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Reliable Confidence Intervals for RelTime Estimates of Evolutionary Divergence Times

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2019, Molecular biology and evolution.

Patterns of transitional mutation biases within and among mammalian genomes.

Sudhir Kumar, Sudhir Kumar, M. Rosenberg, 2003, Molecular biology and evolution.

Reliable Confidence Intervals for RelTime Estimates of Evolutionary Divergence Times

Koichiro Tamura, Qiqing Tao, Sudhir Kumar, 2019, bioRxiv.

Vertebrate Genomes Compared

Sudhir Kumar, Sudhir Kumar, S. Hedges, 2002, Science.

Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree.

Sudhindra R Gadagkar, Sudhir Kumar, Sudhir Kumar, 2005, Journal of experimental zoology. Part B, Molecular and developmental evolution.

Maximum likelihood outperforms maximum parsimony even when evolutionary rates are heterotachous.

Sudhindra R Gadagkar, Sudhir Kumar, Sudhir Kumar, 2005, Molecular biology and evolution.

A genomic timescale for the origin of eukaryotes

Hidemi Watanabe, S Blair Hedges, Sudhir Kumar, 2001, BMC Evolutionary Biology.

Comparison of embryonic expression within multigene families using the flyexpress discovery platform reveals more spatial than temporal divergence

Michael McCutchan, Sudhir Kumar, S. Newfeld, 2012, Developmental dynamics : an official publication of the American Association of Anatomists.