| Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees K Liu, S Raghavan, S Nelesen, CR Linder, T Warnow Science 324 (5934), 1561-1564, 2009 | 440 | 2009 |
| SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees K Liu, TJ Warnow, MT Holder, SM Nelesen, J Yu, AP Stamatakis, ... Systematic biology 61 (1), 90, 2012 | 403 | 2012 |
| Maximum likelihood inference of reticulate evolutionary histories Y Yu, J Dong, KJ Liu, L Nakhleh Proceedings of the National Academy of Sciences 111 (46), 16448-16453, 2014 | 259 | 2014 |
| RAxML and FastTree: comparing two methods for large-scale maximum likelihood phylogeny estimation K Liu, CR Linder, T Warnow PloS one 6 (11), e27731, 2011 | 256 | 2011 |
| Interspecific introgressive origin of genomic diversity in the house mouse KJ Liu, E Steinberg, A Yozzo, Y Song, MH Kohn, L Nakhleh Proceedings of the National Academy of Sciences 112 (1), 196-201, 2015 | 97 | 2015 |
| Multiple sequence alignment: a major challenge to large-scale phylogenetics K Liu, CR Linder, T Warnow PLoS currents 2, 2010 | 82 | 2010 |
| An HMM-based comparative genomic framework for detecting introgression in eukaryotes KJ Liu, J Dai, K Truong, Y Song, MH Kohn, L Nakhleh PLoS computational biology 10 (6), e1003649, 2014 | 56 | 2014 |
| DACTAL: divide-and-conquer trees (almost) without alignments S Nelesen, K Liu, LS Wang, CR Linder, T Warnow Bioinformatics 28 (12), i274-i282, 2012 | 56 | 2012 |
| The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses S Nelesen, K Liu, D Zhao, CR Linder, T Warnow Biocomputing 2008, 25-36, 2008 | 50 | 2008 |
| A scalability study of phylogenetic network inference methods using empirical datasets and simulations involving a single reticulation HA Hejase, KJ Liu BMC bioinformatics 17, 1-12, 2016 | 49 | 2016 |
| Barking up the wrong treelength: the impact of gap penalty on alignment and tree accuracy K Liu, S Nelesen, S Raghavan, CR Linder, T Warnow IEEE/ACM Transactions on Computational Biology and Bioinformatics 6 (1), 7-21, 2008 | 42 | 2008 |
| Large-scale multiple sequence alignment and tree estimation using SATé K Liu, T Warnow Multiple Sequence Alignment Methods, 219-244, 2014 | 21 | 2014 |
| A performance study of the impact of recombination on species tree analysis Z Wang, KJ Liu BMC genomics 17 (10), 165-174, 2016 | 18 | 2016 |
| Fastnet: fast and accurate statistical inference of phylogenetic networks using large-scale genomic sequence data HA Hejase, N VandePol, GM Bonito, KJ Liu Comparative Genomics: 16th International Conference, RECOMB-CG 2018, Magog …, 2018 | 15 | 2018 |
| Treelength optimization for phylogeny estimation K Liu, T Warnow PLoS One 7 (3), e33104, 2012 | 10 | 2012 |
| Benchmark datasets and software for developing and testing methods for large-scale multiple sequence alignment and phylogenetic inference CR Linder, R Suri, K Liu, T Warnow PLoS currents 2, 2010 | 10 | 2010 |
| Mapping the genomic architecture of adaptive traits with interspecific introgressive origin: a coalescent-based approach HA Hejase, KJ Liu Bmc Genomics 17, 41-57, 2016 | 7 | 2016 |
| Non-parametric and semi-parametric support estimation using SEquential RESampling random walks on biomolecular sequences W Wang, J Smith, HA Hejase, KJ Liu Algorithms for Molecular Biology 15 (1), 1-15, 2020 | 6 | 2020 |
| Disentangling population history and character evolution among hybridizing lineages SP Mullen, NW VanKuren, W Zhang, S Nallu, EB Kristiansen, Q Wuyun, ... Molecular Biology and Evolution 37 (5), 1295-1305, 2020 | 5 | 2020 |
| Scalable statistical introgression mapping using approximate coalescent-based inference Q Wuyun, NW VanKuren, M Kronforst, SP Mullen, KJ Liu Proceedings of the 10th ACM International Conference on Bioinformatics …, 2019 | 4 | 2019 |
Tandy WarnowGrainger Distinguished Chair in Engineering, UIUCVerified email at illinois.edu
