Laboratory of Sudhir Kumar :: Publications 2016-2018

2018

161

Pervasive correlation of molecular evolutionary rates in the tree of life

bioRxiv (preprint) (https://doi.org/10.1101/346635)

Q. Tao, K. Tamuar, F. Battistuzzi, S. Kumar

160

Computational enhancement of single-cell sequences for inferring tumor evolution

Bioinformatics (accepted) (https://doi.org/10.1101/341743)

S. Miura, L. A. Huuki, T. Buturla, T. Vu, K. Gomez, S. Kumar

159

Predicting clone genotypes from tumor bulk sequencing of multiple samples

Bioinformatics (accepted) (https://doi.org/10.1093/bioinformatics/bty469)

S. Miura, K. Gomez, O. Murillo, L. A. Huuki, T. Vu, T. Buturla, S. Kumar

158

Adaptive landscape of protein variation in human exomes

Molecular Biology and Evolution (https://doi.org/10.1093/molbev/msy107)

R. Patel, L. B. Scheinfeldt, M. D. Sanderford, T. R. Lanham, K. Tamura, A. Platt, B. S. Gilksberg, K. Xu, J. T. Dudley, S. Kumar

157

RelTime Relaxes the Strict Molecular Clock Throughout the Phylogeny

Genome Biology and Evolution 10(6):1631-1636

F. U. Battistuzzi, Q. Tao, L. Jones, K. Tamura, S. Kumar

156

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

Molecular Biology and Evolution 35(7):1770-1782

K. Tamura, Q. Tao, S. Kumar

155

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

Molecular Biology and Evolution 35(6):1547-1549

S. Kumar, G. Stecher, M. Li, C. Knyaz, K. Tamura

154

Neutral Theory, Disease Mutations, and Personal Exomes

Molecular Biology and Evolution 35(6):1297-1303

S. Kumar, R. Patel

153

Somatic Evolutionary Timings of Driver Mutations

BMC Cancer 18(85):10 pp

K. Gomez, S. Miura, L. A. Huuki, B.S. Spell, J.P. Townsend, S. Kumar

2017

152

FlyExpress 7: An Integrated Discovery Platform to Study Co-expressed Genes Using in situ Hybridization Images in Drosophila

Genes, Genomes, Genetics (G3) 7(8):2791-2797

S. Kumar, C. Konikoff, M. Sanderford, L. Liu, S. Newfeld, J. Ye, R.J. Kulathinal

151

TimeTree: A Resource for Timelines, Timetrees, and Divergence Times

Molecular Biology and Evolution 34(7):1812-1819

S. Kumar, G. Stecher, M. Suleski, S. B. Hedges

150

The Reliability and Stability of an Inferred Phylogenetic Tree from Empirical Data

Molecular Biology and Evolution 34(3):718-723

Y. Katsura, C. Stanley, S. Kumar, M. Nei

149

Fast and Accurate Estimates of Divergence Times From Big Data

Molecular Biology and Evolution 34(1):45-50

B. Mello, Q. Tao, K. Tamura, S. Kumar

2016

148

e-GRASP: An Integrated Evolutionary and GRASP Resource for Exploring Disease Associations

BMC Genomics 17(9):8 pp

S. Karim, H.F. Nour Eldin, H. Abusamra, N. Salem, E. Alhathli, J. Dudley, M.D. Sanderford, L.B. Scheinfeldt A.G. Chaudhary, M.H. Al-Qahtani, S. Kumar

147

Deep Model Based Transfer and Multi-Task Learning for Biological Image Analysis

Transactions on Big Data

W. Zhang, R. Li, T. Zeng, Q. Sun, S. Kumar, J. Ye, S. Ji

146

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

Molecular Biology and Evolution 33(7):1870-1874

S. Kumar, G. Stecher, K. Tamura

145

A Molecular Evolutionary Reference for the Human Variome

Molecular Biology and Evolution 33(1):245-254

L. Liu, K. Tamura, M.D. Sanderford, V. Gray, S. Kumar

144

Advances in Time Estimation Methods for Molecular Data

Molecular Biology and Evolution 33(4):863-869

S. Kumar, S.B. Hedges