Tandy Jo Warnow - Publications

Affiliations: 
1999-2014 University of Texas at Austin, Austin, Texas, U.S.A. 
 2014- University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
Computer Science
Website:
http://tandy.cs.illinois.edu/

126 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Boyd BM, Allen JM, Nguyen NP, Vachaspati P, Quicksall Z, Warnow T, Mugisha L, Johnson KP, Reed DL. Primates, lice and bacteria: speciation and genome evolution in the symbionts of hominid lice. Molecular Biology and Evolution. PMID 28419279 DOI: 10.1093/molbev/msx117  0.32
2017 Allen JM, Boyd B, Nguyen NP, Vachaspati P, Warnow T, Huang DI, Grady PG, Bell KC, Cronk QC, Mugisha L, Pittendrigh BR, Soledad Leonardi M, Reed DL, Johnson KP. Phylogenomics from Whole Genome Sequences Using aTRAM. Systematic Biology. PMID 28123117 DOI: 10.1093/sysbio/syw105  0.32
2017 Boyd BM, Allen JM, Nguyen N, Sweet AD, Warnow T, Shapiro MD, Villa SM, Bush SE, Clayton DH, Johnson KP. Phylogenomics using Target-restricted Assembly Resolves Intra-generic Relationships of Parasitic Lice (Phthiraptera: Columbicola). Systematic Biology. PMID 28108601 DOI: 10.1093/sysbio/syx027  1
2016 Nguyen NP, Warnow T, Pop M, White B. A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. Npj Biofilms and Microbiomes. 2: 16004. PMID 28721243 DOI: 10.1038/npjbiofilms.2016.4  0.32
2016 Nguyen NP, Nute M, Mirarab S, Warnow T. HIPPI: highly accurate protein family classification with ensembles of HMMs. Bmc Genomics. 17: 765. PMID 28185571 DOI: 10.1186/s12864-016-3097-0  1
2016 Uricchio LH, Warnow T, Rosenberg NA. An analytical upper bound on the number of loci required for all splits of a species tree to appear in a set of gene trees. Bmc Bioinformatics. 17: 417. PMID 28185570 DOI: 10.1186/s12859-016-1266-4  0.4
2016 Nute M, Warnow T. Scaling statistical multiple sequence alignment to large datasets. Bmc Genomics. 17: 764. PMID 28185555 DOI: 10.1186/s12864-016-3101-8  0.32
2016 Hansen TA, Mollerup S, Nguyen NP, White NE, Coghlan M, Alquezar-Planas DE, Joshi T, Jensen RH, Fridholm H, Kjartansdóttir KR, Mourier T, Warnow T, Belsham GJ, Bunce M, Willerslev E, et al. High diversity of picornaviruses in rats from different continents revealed by deep sequencing. Emerging Microbes & Infections. 5: e90. PMID 27530749 DOI: 10.1038/emi.2016.90  0.32
2016 Welch L, Brooksbank C, Schwartz R, Morgan SL, Gaeta B, Kilpatrick AM, Mietchen D, Moore BL, Mulder N, Pauley M, Pearson W, Radivojac P, Rosenberg N, Rosenwald A, Rustici G, ... Warnow T, et al. Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB's Education Committee). Plos Computational Biology. 12: e1004943. PMID 27175996 DOI: 10.1371/journal.pcbi.1004943  1
2016 Tarver JE, Dos Reis M, Mirarab S, Moran RJ, Parker S, O'Reilly JE, King BL, O'Connell MJ, Asher RJ, Warnow T, Peterson KJ, Donoghue PC, Pisani D. The Interrelationships of Placental Mammals and the Limits of Phylogenetic Inference. Genome Biology and Evolution. PMID 26733575 DOI: 10.1093/gbe/evv261  1
2015 Davidson R, Vachaspati P, Mirarab S, Warnow T. Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer. Bmc Genomics. 16: S1. PMID 26450506 DOI: 10.1186/1471-2164-16-S10-S1  1
2015 Mirarab S, Bayzid MS, Boussau B, Warnow T. Response to Comment on "Statistical binning enables an accurate coalescent-based estimation of the avian tree". Science (New York, N.Y.). 350: 171. PMID 26450204 DOI: 10.1126/science.aaa7719  1
2015 Vachaspati P, Warnow T. ASTRID: Accurate Species TRees from Internode Distances. Bmc Genomics. 16: S3. PMID 26449326 DOI: 10.1186/1471-2164-16-S10-S3  1
2015 Chou J, Gupta A, Yaduvanshi S, Davidson R, Nute M, Mirarab S, Warnow T. A comparative study of SVDquartets and other coalescent-based species tree estimation methods. Bmc Genomics. 16: S2. PMID 26449249 DOI: 10.1186/1471-2164-16-S10-S2  1
2015 Cracraft J, Houde P, Ho SY, Mindell DP, Fjeldså J, Lindow B, Edwards SV, Rahbek C, Mirarab S, Warnow T, Gilbert MT, Zhang G, Braun EL, Jarvis ED. Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds". Science (New York, N.Y.). 349: 1460. PMID 26404820 DOI: 10.1126/science.aab1578  1
2015 Bayzid MS, Mirarab S, Boussau B, Warnow T. Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses. Plos One. 10: e0129183. PMID 26086579 DOI: 10.1371/journal.pone.0129183  1
2015 Nguyen NP, Mirarab S, Kumar K, Warnow T. Ultra-large alignments using phylogeny-aware profiles. Genome Biology. 16: 124. PMID 26076734 DOI: 10.1186/s13059-015-0688-z  1
2015 Mirarab S, Warnow T. ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes. Bioinformatics (Oxford, England). 31: i44-52. PMID 26072508 DOI: 10.1093/bioinformatics/btv234  1
2015 Warnow T. Concatenation Analyses in the Presence of Incomplete Lineage Sorting. Plos Currents. 7. PMID 26064786 DOI: 10.1371/currents.tol.8d41ac0f13d1abedf4c4a59f5d17b1f7  1
2015 Attwood TK, Atwood TK, Bongcam-Rudloff E, Brazas ME, Corpas M, Gaudet P, Lewitter F, Mulder N, Palagi PM, Schneider MV, van Gelder CW. GOBLET: the Global Organisation for Bioinformatics Learning, Education and Training. Plos Computational Biology. 11: e1004143. PMID 25856076 DOI: 10.1371/journal.pcbi.1004143  1
2015 Roch S, Warnow T. On the Robustness to Gene Tree Estimation Error (or lack thereof) of Coalescent-Based Species Tree Methods. Systematic Biology. 64: 663-76. PMID 25813358 DOI: 10.1093/sysbio/syv016  1
2015 Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SY, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Alfaro-Núñez A, Narula N, ... ... Warnow T, et al. Phylogenomic analyses data of the avian phylogenomics project. Gigascience. 4: 4. PMID 25741440 DOI: 10.1186/s13742-014-0038-1  1
2015 Mirarab S, Nguyen N, Guo S, Wang LS, Kim J, Warnow T. PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 22: 377-86. PMID 25549288 DOI: 10.1089/cmb.2014.0156  1
2015 Nguyen NP, Mirarab S, Kumar K, Warnow T. Ultra-large alignments using ensembles of hidden Markov models Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 9029: 259-260. DOI: 10.1007/978-3-319-16706-0_26  1
2014 Matasci N, Hung LH, Yan Z, Carpenter EJ, Wickett NJ, Mirarab S, Nguyen N, Warnow T, Ayyampalayam S, Barker M, Burleigh JG, Gitzendanner MA, Wafula E, Der JP, dePamphilis CW, et al. Data access for the 1,000 Plants (1KP) project. Gigascience. 3: 17. PMID 25625010 DOI: 10.1186/2047-217X-3-17  1
2014 Bayzid MS, Hunt T, Warnow T. Disk covering methods improve phylogenomic analyses. Bmc Genomics. 15: S7. PMID 25572610 DOI: 10.1186/1471-2164-15-S6-S7  1
2014 Zimmermann T, Mirarab S, Warnow T. BBCA: Improving the scalability of *BEAST using random binning. Bmc Genomics. 15: S11. PMID 25572469 DOI: 10.1186/1471-2164-15-S6-S11  1
2014 Mirarab S, Bayzid MS, Boussau B, Warnow T. Statistical binning enables an accurate coalescent-based estimation of the avian tree. Science (New York, N.Y.). 346: 1250463. PMID 25504728 DOI: 10.1126/science.1250463  1
2014 Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SY, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Li J, Zhang F, ... ... Warnow T, et al. Whole-genome analyses resolve early branches in the tree of life of modern birds. Science (New York, N.Y.). 346: 1320-31. PMID 25504713 DOI: 10.1126/science.1253451  1
2014 Nguyen NP, Mirarab S, Liu B, Pop M, Warnow T. TIPP: taxonomic identification and phylogenetic profiling. Bioinformatics (Oxford, England). 30: 3548-55. PMID 25359891 DOI: 10.1093/bioinformatics/btu721  1
2014 Wickett NJ, Mirarab S, Nguyen N, Warnow T, Carpenter E, Matasci N, Ayyampalayam S, Barker MS, Burleigh JG, Gitzendanner MA, Ruhfel BR, Wafula E, Der JP, Graham SW, Mathews S, et al. Phylotranscriptomic analysis of the origin and early diversification of land plants. Proceedings of the National Academy of Sciences of the United States of America. 111: E4859-68. PMID 25355905 DOI: 10.1073/pnas.1323926111  1
2014 Mirarab S, Bayzid MS, Warnow T. Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting. Systematic Biology. PMID 25164915 DOI: 10.1093/sysbio/syu063  1
2014 Mirarab S, Reaz R, Bayzid MS, Zimmermann T, S. Swenson M, Warnow T. ASTRAL: Genome-scale coalescent-based species tree estimation Bioinformatics. 30. PMID 25161245 DOI: 10.1093/bioinformatics/btu462  1
2014 Liu K, Warnow T. Large-scale multiple sequence alignment and tree estimation using SATé. Methods in Molecular Biology (Clifton, N.J.). 1079: 219-44. PMID 24170406 DOI: 10.1007/978-1-62703-646-7_15  1
2013 Bayzid MS, Warnow T. Naive binning improves phylogenomic analyses. Bioinformatics (Oxford, England). 29: 2277-84. PMID 23842808 DOI: 10.1093/bioinformatics/btt394  1
2013 Bayzid MS, Mirarab S, Warnow T. Inferring optimal species trees under gene duplication and loss 18th Pacific Symposium On Biocomputing, Psb 2013. 250-261. PMID 23424130  1
2013 Barbancon F, Evans SN, Nakhleh L, Ringe D, Warnow T. An experimental study comparing linguistic phylogenetic reconstruction methods Diachronica. 30: 143-170. DOI: 10.1075/dia.30.2.01bar  1
2013 Nakhleh LK, Rosenberg NA, Warnow T. Phylogenomics and population genomics: Moddels, algorithms, and analytical tools 18th Pacific Symposium On Biocomputing, Psb 2013 1
2012 Bayzid MS, Warnow T. Estimating optimal species trees from incomplete gene trees under deep coalescence. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 19: 591-605. PMID 22697236 DOI: 10.1089/cmb.2012.0037  1
2012 Nelesen S, Liu K, Wang LS, Linder CR, Warnow T. DACTAL: divide-and-conquer trees (almost) without alignments. Bioinformatics (Oxford, England). 28: i274-82. PMID 22689772 DOI: 10.1093/bioinformatics/bts218  1
2012 Warnow T. Standard maximum likelihood analyses of alignments with gaps can be statistically inconsistent. Plos Currents. 4: RRN1308. PMID 22453901 DOI: 10.1371/currents.RRN1308  1
2012 Liu K, Warnow T. Treelength optimization for phylogeny estimation. Plos One. 7: e33104. PMID 22442677 DOI: 10.1371/journal.pone.0033104  1
2012 Nguyen N, Mirarab S, Warnow T. MRL and SuperFine+MRL: new supertree methods. Algorithms For Molecular Biology : Amb. 7: 3. PMID 22280525 DOI: 10.1186/1748-7188-7-3  1
2012 Mirarab S, Nguyen N, Warnow T. SEPP: SATé-enabled phylogenetic placement 17th Pacific Symposium On Biocomputing, Psb 2012. 247-258. PMID 22174280  1
2012 Liu K, Warnow TJ, Holder MT, Nelesen SM, Yu J, Stamatakis AP, Linder CR. SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees. Systematic Biology. 61: 90-106. PMID 22139466 DOI: 10.1093/sysbio/syr095  1
2012 Swenson MS, Suri R, Linder CR, Warnow T. SuperFine: fast and accurate supertree estimation. Systematic Biology. 61: 214-27. PMID 21934137 DOI: 10.1093/sysbio/syr092  1
2012 Neves DT, Warnow T, Sobral JL, Pingali K. Parallelizing SuperFine Proceedings of the Acm Symposium On Applied Computing. 1361-1367. DOI: 10.1145/2245276.2231992  1
2011 Yang J, Warnow T. Fast and accurate methods for phylogenomic analyses. Bmc Bioinformatics. 12: S4. PMID 22152123 DOI: 10.1186/1471-2105-12-S9-S4  1
2011 Liu K, Linder CR, Warnow T. RAxML and FastTree: comparing two methods for large-scale maximum likelihood phylogeny estimation. Plos One. 6: e27731. PMID 22132132 DOI: 10.1371/journal.pone.0027731  1
2011 Yu Y, Warnow T, Nakhleh L. Algorithms for MDC-based multi-locus phylogeny inference: beyond rooted binary gene trees on single alleles. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 18: 1543-59. PMID 22035329 DOI: 10.1089/cmb.2011.0174  1
2011 Mirarab S, Warnow T. FastSP: linear time calculation of alignment accuracy. Bioinformatics (Oxford, England). 27: 3250-8. PMID 21984754 DOI: 10.1093/bioinformatics/btr553  1
2011 Wang LS, Leebens-Mack J, Wall PK, Beckmann K, Depamphilis CW, Warnow T. The impact of multiple protein sequence alignment on phylogenetic estimation Ieee/Acm Transactions On Computational Biology and Bioinformatics. 8: 1108-1119. PMID 21566256 DOI: 10.1109/TCBB.2009.68  1
2011 Swenson MS, Suri R, Linder CR, Warnow T. An experimental study of Quartets MaxCut and other supertree methods. Algorithms For Molecular Biology : Amb. 6: 7. PMID 21504600 DOI: 10.1186/1748-7188-6-7  1
2010 Liu K, Linder CR, Warnow T. Multiple sequence alignment: a major challenge to large-scale phylogenetics. Plos Currents. 2: RRN1198. PMID 21113338 DOI: 10.1371/currents.RRN1198  1
2010 Linder CR, Suri R, Liu K, Warnow T. Benchmark datasets and software for developing and testing methods for large-scale multiple sequence alignment and phylogenetic inference. Plos Currents. 2: RRN1195. PMID 21113335 DOI: 10.1371/currents.RRN1195  1
2010 Bradner JE, West N, Grachan ML, Greenberg EF, Haggarty SJ, Warnow T, Mazitschek R. Chemical phylogenetics of histone deacetylases. Nature Chemical Biology. 6: 238-243. PMID 20139990 DOI: 10.1038/nchembio.313  1
2010 Swenson MS, Barbançon F, Warnow T, Linder CR. A simulation study comparing supertree and combined analysis methods using SMIDGen. Algorithms For Molecular Biology : Amb. 5: 8. PMID 20047664 DOI: 10.1186/1748-7188-5-8  1
2009 Liu K, Raghavan S, Nelesen S, Linder CR, Warnow T. Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees. Science (New York, N.Y.). 324: 1561-4. PMID 19541996 DOI: 10.1126/science.1171243  1
2009 Liu K, Nelesen S, Raghavan S, Linder CR, Warnow T. Barking up the wrong treelength: the impact of gap penalty on alignment and tree accuracy. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 6: 7-21. PMID 19179695 DOI: 10.1109/TCBB.2008.63  1
2009 Salzberg SL, Warnow T. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics): Preface Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 5724.  1
2008 Nelesen S, Liu K, Zhao D, Linder CR, Warnow T. The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses Pacific Symposium On Biocomputing 2008, Psb 2008. 25-36. PMID 18229674  1
2008 Snir S, Warnow T, Rao S. Short quartet puzzling: a new quartet-based phylogeny reconstruction algorithm. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 15: 91-103. PMID 18199023 DOI: 10.1089/cmb.2007.0103  1
2008 Nichols J, Warnow T. Tutorial on computational linguistic phylogeny Linguistics and Language Compass. 2: 760-820. DOI: 10.1111/j.1749-818X.2008.00082.x  1
2008 Brudno M, Moret B, Linder R, Warnow T. Beyond gap models: Reconstructing alignments and phylogenies under genomic-scale events Pacific Symposium On Biocomputing 2008, Psb 2008. 1-2.  1
2006 Ganapathy G, Goodson B, Jansen R, Le HS, Ramachandran V, Warnow T. Pattern identification in biogeography. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 3: 334-46. PMID 17085843 DOI: 10.1109/TCBB.2006.57  1
2006 Wang LS, Warnow T, Moret BM, Jansen RK, Raubeson LA. Distance-based genome rearrangement phylogeny. Journal of Molecular Evolution. 63: 473-83. PMID 17021931 DOI: 10.1007/s00239-005-0216-y  1
2006 Leebens-Mack J, Vision T, Brenner E, Bowers JE, Cannon S, Clement MJ, Cunningham CW, dePamphilis C, deSalle R, Doyle JJ, Eisen JA, Gu X, Harshman J, Jansen RK, Kellogg EA, ... ... Warnow T, et al. Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA). Omics : a Journal of Integrative Biology. 10: 231-7. PMID 16901231 DOI: 10.1089/omi.2006.10.231  1
2006 Wang LS, Warnow T. Reconstructing chromosomal evolution Siam Journal On Computing. 36: 99-131. DOI: 10.1137/S0097539701397229  1
2005 Nakhleh L, Warnow T, Linder CR, St John K. Reconstructing reticulate evolution in species-theory and practice. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 12: 796-811. PMID 16108717 DOI: 10.1089/cmb.2005.12.796  1
2005 Moret BM, Warnow T. Advances in phylogeny reconstruction from gene order and content data. Methods in Enzymology. 395: 673-700. PMID 15865990 DOI: 10.1016/S0076-6879(05)95035-0  1
2005 Nakhleh L, Ringe D, Warnow T. Perfect phylogenetic networks: A new methodology for reconstructing the evolutionary history of natural languages Language. 81: 382-420. DOI: 10.1353/lan.2005.0078  1
2005 Nakhleh L, Warnow T, Ringe D, Evans SN. A comparison of phylogenetic reconstruction methods on an Indo-European dataset Transactions of the Philological Society. 103: 171-192. DOI: 10.1111/j.1467-968X.2005.00149.x  1
2005 Applegate D, Brandes U, Demetrescu C, Gabow H, Maheshwari A, Pettie S, Pruhs K, Tamassia R, Teillaud M, Warnow T, Arge L, Battiti R, Buchsbaum A, Goldberg AV, Goodrich MT, et al. Alenex workshop preface Proceedings of the Seventh Workshop On Algorithm Engineering and Experiments and the Second Workshop On Analytic Algorithms and Combinatorics 1
2005 Agarwal PK, Akutsu T, Amihood A, Apostolico A, Benham C, Benson G, Blanchette M, El-Mabrouk N, Gascuel O, Giancarlo R, Guigo R, Hallet M, Huson D, Kucherov G, Lacey M, ... ... Warnow T, et al. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics): Preface Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3692: V-VI.  1
2004 Moret BM, Nakhleh L, Warnow T, Linder CR, Tholse A, Padolina A, Sun J, Timme R. Phylogenetic networks: modeling, reconstructibility, and accuracy. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 1: 13-23. PMID 17048405 DOI: 10.1109/TCBB.2004.10  1
2004 Evans SN, Warnow T. Unidentifiable divergence times in rates-across-sites models. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 1: 130-4. PMID 17048388 DOI: 10.1109/TCBB.2004.34  1
2004 Roshan UW, Moret BM, Warnow T, Williams TL. Rec-I-DCM3: a fast algorithmic technique for reconstructing large phylogenetic trees. Proceedings / Ieee Computational Systems Bioinformatics Conference, Csb. Ieee Computational Systems Bioinformatics Conference. 98-109. PMID 16448004  1
2004 Nakhleh L, Warnow T, Linder CR. Reconstructing reticulate evolution in species - Theory and practice Proceedings of the Annual International Conference On Computational Molecular Biology, Recomb. 8: 337-346.  1
2004 Ganapathy G, Ramachandran V, Warnow T. On Contract-and-Refine Transformations Between Phylogenetic Trees Proceedings of the Annual Acm-Siam Symposium On Discrete Algorithms. 15: 893-902.  1
2004 Roshan UW, Warnow T, Moret BME, Williams TL. Rec-I-DCM3: A fast algorithmic technique for reconstructing large phylogenetic trees Proceedings - 2004 Ieee Computational Systems Bioinformatics Conference, Csb 2004. 98-109.  1
2003 Nakhleh L, Sun J, Warnow T, Linder CR, Moret BM, Tholse A. Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 315-26. PMID 12603038  1
2003 Spencer M, Bordalejo B, Wang LIS, Barbrook AC, Mooney LR, Robinson P, Warnow T, Howe CJ. Analyzing the order of items in manuscripts of the canterbury tales Computers and the Humanities. 37: 97-109. DOI: 10.1023/A:1021818600001  1
2003 Moret BME, Tang J, Wang LS, Warnow T. Steps toward accurate reconstructions of phylogenies from gene-order data Journal of Computer and System Sciences. 65: 508-525. DOI: 10.1016/S0022-0000(02)00007-7  1
2003 Ganapathy G, Ramachandran V, Warnow T. Better hill-climbing searches for parsimony Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2812: 245-258.  1
2002 Stockham C, Wang LS, Warnow T. Statistically based postprocessing of phylogenetic analysis by clustering. Bioinformatics (Oxford, England). 18: S285-93. PMID 12169558  1
2002 Wang LS, Jansen RK, Moret BM, Raubeson LA, Warnow T. Fast phylogenetic methods for the analysis of genome rearrangement data: an empirical study. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 524-35. PMID 11928504  1
2002 Nakhleh L, Moret BM, Roshan U, St John K, Sun J, Warnow T. The accuracy of fast phylogenetic methods for large datasets. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 211-22. PMID 11928477  1
2002 Moret BME, Wang LS, Warnow T. Toward new software for computational phylogenetics Computer. 35. DOI: 10.1109/MC.2002.1016902  1
2002 Moret BME, Bader DA, Warnow T. High-performance algorithm engineering for computational phylogenetics Journal of Supercomputing. 22: 99-111. DOI: 10.1023/A:1014362705613  1
2002 Ganapathy G, Warnow T. Approximating the complement of the maximum compatible subset of leaves of k trees Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2462: 122-134.  1
2002 Ringe D, Warnow T, Taylor A. Indo-European and computational cladistics Transactions of the Philological Society. 100: 59-129.  1
2002 Moret BME, Roshan U, Warnow T. Sequence-length requirements for phylogenetic methods Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2452: 343-356.  1
2002 Nakhleh L, Roshan U, Vawter L, Warnow T. Estimating the deviation from a molecular clock Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2452: 287-299.  1
2001 Nakhleh L, Roshan U, St John K, Sun J, Warnow T. Designing fast converging phylogenetic methods. Bioinformatics (Oxford, England). 17: S190-8. PMID 11473009  1
2001 Moret BM, Wang LS, Warnow T, Wyman SK. New approaches for reconstructing phylogenies from gene order data. Bioinformatics (Oxford, England). 17: S165-73. PMID 11473006  1
2001 Moret BM, Wyman S, Bader DA, Warnow T, Yan M. A new implementation and detailed study of breakpoint analysis Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 583-594. PMID 11262975  1
2001 Warnow T, Moret BME, John KS. Performance study of phylogenetic methods: (Unweighted) quartet methods and neighbor-joining Proceedings of the Annual Acm-Siam Symposium On Discrete Algorithms. 196-205. DOI: 10.1016/S0196-6774(03)00049-X  1
2001 Nakhleh L, Roshan U, St. John K, Sun J, Warnow T. The performance of phylogenetic methods on trees of bounded diameter Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2149: 214-226. DOI: 10.1007/3-540-44696-6_17  1
2001 Ganapathysaravanabavan G, Warnow T. Finding a maximum compatible tree for a bounded number of trees with bounded degree is solvable in polynomial time Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2149: 156-163. DOI: 10.1007/3-540-44696-6_12  1
2001 Wang LS, Warnow T. Estimating true evolutionary distances between genomes Conference Proceedings of the Annual Acm Symposium On Theory of Computing. 637-646.  1
2001 Warnow T, Moret BME, John KS. Absolute convergence: True trees from short sequences Proceedings of the Annual Acm-Siam Symposium On Discrete Algorithms. 186-195.  1
2000 Cosner ME, Jansen RK, Moret BM, Raubeson LA, Wang LS, Warnow T, Wyman S. A new fast heuristic for computing the breakpoint phylogeny and experimental phylogenetic analyses of real and synthetic data. Proceedings / ... International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 8: 104-15. PMID 10977071  1
2000 Bodlaender HL, Fellows MR, Hallett MT, Wareham HT, Warnow TJ. The hardness of perfect phylogeny, feasible register assignment and other problems on thin colored graphs Theoretical Computer Science. 244: 167-188.  1
1999 Huson DH, Vawter L, Warnow TJ. Solving large scale phylogenetic problems using DCM2. Proceedings / ... International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 118-29. PMID 10786294  1
1999 Huson DH, Nettles SM, Warnow TJ. Disk-covering, a fast-converging method for phylogenetic tree reconstruction. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 6: 369-86. PMID 10582573 DOI: 10.1089/106652799318337  1
1999 Henzinger MR, King V, Warnow T. Constructing a tree from homeomorphic subtrees, with applications to computational evolutionary biology Algorithmica (New York). 24: 1-13.  1
1999 Bonet M, Phillips C, Warnow T, Yooseph S. Constructing evolutionary trees in the presence of polymorphic characters Siam Journal On Computing. 29: 103-131.  1
1999 Huson DH, Ann Smith K, Warnow TJ. Estimating large distances in phylogenetic reconstruction Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 1668: 271-285.  1
1999 Erdos PL, Steel MA, Székely LA, Warnow TJ. A few logs suffice to build (almost) all trees: Part II Theoretical Computer Science. 221: 77-118.  1
1999 Erdos PL, Steel MA, Székely LA, Warnow TJ. A few logs suffice to build (almost) all trees (I) Random Structures and Algorithms. 14: 153-184.  1
1998 Bonet M, Steel M, Warnow T, Yooseph S. Better methods for solving parsimony and compatibility Journal of Computational Biology. 5: 391-407. PMID 9773340  1
1998 Kannan S, Warnow T, Yooseph S. Computing the local consensus of trees Siam Journal On Computing. 27: 1695-1724.  1
1997 Warnow T. Mathematical approaches to comparative linguistics Proceedings of the National Academy of Sciences of the United States of America. 94: 6585-6590. PMID 11607730 DOI: 10.1073/pnas.94.13.6585  1
1997 Rice K, Warnow T. Parsimony is hard to beat! Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 1276: 124-133.  1
1997 Kannan S, Warnow T. A fast algorithm for the computation and enumeration of perfect phylogenies Siam Journal On Computing. 26: 1749-1763.  1
1997 Erdős PL, Steel MA, Székely LA, Warnow TJ. Constructing big trees from short sequences Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 1256: 827-837.  1
1996 Phillips C, Warnow TJ. The asymmetric median tree - A new model for building consensus trees Discrete Applied Mathematics. 71: 311-335. DOI: 10.1007/3-540-61258-0_18  1
1996 Kannan SK, Lawler EL, Warnow T. Determining the Evolutionary Tree Using Experiments Journal of Algorithms. 21: 26-50. DOI: 10.1006/jagm.1996.0035  1
1995 Benham C, Kannan S, Paterson M, Warnow T. Hen's teeth and whale's feet: generalized characters and their compatibility Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 2: 515-525. PMID 8634903  1
1995 Farach M, Kannan S, Warnow T. A robust model for finding optimal evolutionary trees Algorithmica. 13: 155-179. DOI: 10.1007/BF01188585  1
1995 Goldberg LA, Goldberg PW, Phillips CA, Sweedyk E, Warnow T. Minimizing phylogenetic number to find good evolutionary trees Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 937: 102-127. DOI: 10.1007/3-540-60044-2_38  1
1995 Benham C, Kannan S, Warnow T. Of chicken teeth and mouse eyes, or generalized character compatibility Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 937: 17-26. DOI: 10.1007/3-540-60044-2_31  1
1994 Warnow TJ. Tree Compatibility and Inferring Evolutionary History Journal of Algorithms. 16: 388-407. DOI: 10.1006/jagm.1994.1018  1
1993 Warnow T. Engineering in Genomics Combinatorial Optimization in Biology Ieee Engineering in Medicine and Biology Magazine. 12: 91-92. DOI: 10.1109/51.215060  1
1993 Warnow TJ. Constructing phylogenetic trees efficiently using compatibility criteria New Zealand Journal of Botany. 31: 239-248. DOI: 10.1080/0028825X.1993.10419501  1
1993 Steel M, Warnow T. Kaikoura tree theorems: Computing the maximum agreement subtree Information Processing Letters. 48: 77-82. DOI: 10.1016/0020-0190(93)90181-8  1
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