| Year |
Citation |
Score |
| 2024 |
Jiang Y, McDonald D, Perry D, Knight R, Mirarab S. Scaling DEPP phylogenetic placement to ultra-large reference trees: a tree-aware ensemble approach. Bioinformatics (Oxford, England). PMID 38870525 DOI: 10.1093/bioinformatics/btae361 |
0.418 |
|
| 2024 |
Gupta A, Mirarab S, Turakhia Y. Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIES. Biorxiv : the Preprint Server For Biology. PMID 38854139 DOI: 10.1101/2024.05.27.596098 |
0.453 |
|
| 2024 |
Arasti S, Tabaghi P, Tabatabaee Y, Mirarab S. Branch Length Transforms using Optimal Tree Metric Matching. Biorxiv : the Preprint Server For Biology. PMID 38746464 DOI: 10.1101/2023.11.13.566962 |
0.386 |
|
| 2024 |
Stiller J, Feng S, Chowdhury AA, Rivas-González I, Duchêne DA, Fang Q, Deng Y, Kozlov A, Stamatakis A, Claramunt S, Nguyen JMT, Ho SYW, Faircloth BC, Haag J, Houde P, ... ... Mirarab S, et al. Complexity of avian evolution revealed by family-level genomes. Nature. PMID 38560995 DOI: 10.1038/s41586-024-07323-1 |
0.724 |
|
| 2024 |
Arasti S, Mirarab S. Median quartet tree search algorithms using optimal subtree prune and regraft. Algorithms For Molecular Biology : Amb. 19: 12. PMID 38481327 DOI: 10.1186/s13015-024-00257-3 |
0.37 |
|
| 2023 |
Balaban M, Jiang Y, Zhu Q, McDonald D, Knight R, Mirarab S. Generation of accurate, expandable phylogenomic trees with uDance. Nature Biotechnology. PMID 37500914 DOI: 10.1038/s41587-023-01868-8 |
0.438 |
|
| 2023 |
McDonald D, Jiang Y, Balaban M, Cantrell K, Zhu Q, Gonzalez A, Morton JT, Nicolaou G, Parks DH, Karst SM, Albertsen M, Hugenholtz P, DeSantis T, Song SJ, Bartko A, ... ... Mirarab S, et al. Greengenes2 unifies microbial data in a single reference tree. Nature Biotechnology. PMID 37500913 DOI: 10.1038/s41587-023-01845-1 |
0.363 |
|
| 2023 |
Tabatabaee Y, Zhang C, Warnow T, Mirarab S. Phylogenomic branch length estimation using quartets. Bioinformatics (Oxford, England). 39: i185-i193. PMID 37387151 DOI: 10.1093/bioinformatics/btad221 |
0.631 |
|
| 2022 |
Zhang C, Bzikadze AV, Safonova Y, Mirarab S. A scalable model for simulating multi-round antibody evolution and benchmarking of clonal tree reconstruction methods. Frontiers in Immunology. 13: 1014439. PMID 36618367 DOI: 10.3389/fimmu.2022.1014439 |
0.305 |
|
| 2022 |
Rachtman E, Sarmashghi S, Bafna V, Mirarab S. Quantifying the uncertainty of assembly-free genome-wide distance estimates and phylogenetic relationships using subsampling. Cell Systems. 13: 817-829.e3. PMID 36265468 DOI: 10.1016/j.cels.2022.06.007 |
0.312 |
|
| 2022 |
Zhang C, Mirarab S. Weighting by Gene Tree Uncertainty Improves Accuracy of Quartet-based Species Trees. Molecular Biology and Evolution. PMID 36201617 DOI: 10.1093/molbev/msac215 |
0.387 |
|
| 2022 |
Jiang Y, Tabaghi P, Mirarab S. Learning Hyperbolic Embedding for Phylogenetic Tree Placement and Updates. Biology. 11. PMID 36138735 DOI: 10.3390/biology11091256 |
0.392 |
|
| 2022 |
Zhang C, Mirarab S. ASTRAL-Pro 2: ultrafast species tree reconstruction from multi-copy gene family trees. Bioinformatics (Oxford, England). PMID 36094339 DOI: 10.1093/bioinformatics/btac620 |
0.366 |
|
| 2022 |
Zhu Q, Mirarab S. Assembling a Reference Phylogenomic Tree of Bacteria and Archaea by Summarizing Many Gene Phylogenies. Methods in Molecular Biology (Clifton, N.J.). 2569: 137-165. PMID 36083447 DOI: 10.1007/978-1-0716-2691-7_7 |
0.375 |
|
| 2022 |
Hasan NB, Balaban M, Biswas A, Bayzid MS, Mirarab S. Distance-Based Phylogenetic Placement with Statistical Support. Biology. 11. PMID 36009839 DOI: 10.3390/biology11081212 |
0.333 |
|
| 2022 |
Balaban M, Bristy NA, Faisal A, Bayzid MS, Mirarab S. Genome-wide alignment-free phylogenetic distance estimation under a no strand-bias model. Bioinformatics Advances. 2: vbac055. PMID 35992043 DOI: 10.1093/bioadv/vbac055 |
0.358 |
|
| 2022 |
Rabiee M, Mirarab S. QuCo: quartet-based co-estimation of species trees and gene trees. Bioinformatics (Oxford, England). 38: i413-i421. PMID 35758818 DOI: 10.1093/bioinformatics/btac265 |
0.384 |
|
| 2022 |
Jiang Y, Balaban M, Zhu Q, Mirarab S. DEPP: Deep Learning Enables Extending Species Trees using Single Genes. Systematic Biology. PMID 35485976 DOI: 10.1093/sysbio/syac031 |
0.407 |
|
| 2022 |
Mai U, Mirarab S. Completing Gene Trees Without Species Trees in Sub-quadratic Time. Bioinformatics (Oxford, England). PMID 34978565 DOI: 10.1093/bioinformatics/btab875 |
0.393 |
|
| 2021 |
Sarmashghi S, Balaban M, Rachtman E, Touri B, Mirarab S, Bafna V. Estimating repeat spectra and genome length from low-coverage genome skims with RESPECT. Plos Computational Biology. 17: e1009449. PMID 34780468 DOI: 10.1371/journal.pcbi.1009449 |
0.308 |
|
| 2021 |
Balaban M, Jiang Y, Roush D, Zhu Q, Mirarab S. Fast and Accurate Distance-based Phylogenetic Placement using Divide and Conquer. Molecular Ecology Resources. PMID 34643995 DOI: 10.1111/1755-0998.13527 |
0.437 |
|
| 2021 |
Zhang C, Scornavacca C, Molloy EK, Mirarab S. Corrigendum to: ASTRAL-Pro: Quartet-Based Species-Tree Inference despite Paralogy. Molecular Biology and Evolution. PMID 34417619 DOI: 10.1093/molbev/msab232 |
0.339 |
|
| 2021 |
Rachtman E, Bafna V, Mirarab S. CONSULT: accurate contamination removal using locality-sensitive hashing. Nar Genomics and Bioinformatics. 3: lqab071. PMID 34377979 DOI: 10.1093/nargab/lqab071 |
0.326 |
|
| 2021 |
Rabiee M, Mirarab S. SODA: Multi-locus species delimitation using quartet frequencies. Bioinformatics (Oxford, England). PMID 33555318 DOI: 10.1093/bioinformatics/btaa1010 |
0.342 |
|
| 2021 |
Warnow T, Mirarab S. Multiple Sequence Alignment for Large Heterogeneous Datasets Using SATé, PASTA, and UPP. Methods in Molecular Biology (Clifton, N.J.). 2231: 99-119. PMID 33289889 DOI: 10.1007/978-1-0716-1036-7_7 |
0.62 |
|
| 2021 |
Mirarab S, Nakhleh L, Warnow T. Multispecies Coalescent: Theory and Applications in Phylogenetics Annual Review of Ecology, Evolution, and Systematics. 52: 247-268. DOI: 10.1146/annurev-ecolsys-012121-095340 |
0.38 |
|
| 2020 |
Moshiri N, Smith DM, Mirarab S. HIV Care Prioritization using Phylogenetic Branch Length. Journal of Acquired Immune Deficiency Syndromes (1999). PMID 33394616 DOI: 10.1097/QAI.0000000000002612 |
0.631 |
|
| 2020 |
Feng S, Stiller J, Deng Y, Armstrong J, Fang Q, Reeve AH, Xie D, Chen G, Guo C, Faircloth BC, Petersen B, Wang Z, Zhou Q, Diekhans M, Chen W, ... ... Mirarab S, et al. Dense sampling of bird diversity increases power of comparative genomics. Nature. 587: 252-257. PMID 33177665 DOI: 10.1038/s41586-020-2873-9 |
0.332 |
|
| 2020 |
Mai U, Mirarab S. Log Transformation Improves Dating of Phylogenies. Molecular Biology and Evolution. PMID 32886788 DOI: 10.1093/Molbev/Msaa222 |
0.47 |
|
| 2020 |
Zhang C, Scornavacca C, Molloy EK, Mirarab S. ASTRAL-Pro: Quartet-Based Species-Tree Inference despite Paralogy. Molecular Biology and Evolution. PMID 32886770 DOI: 10.1093/Molbev/Msaa139 |
0.526 |
|
| 2020 |
Balaban M, Mirarab S. Phylogenetic double placement of mixed samples. Bioinformatics (Oxford, England). 36: i335-i343. PMID 32657414 DOI: 10.1093/Bioinformatics/Btaa489 |
0.425 |
|
| 2020 |
Tilic E, Sayyari E, Stiller J, Mirarab S, Rouse GW. More is needed - Thousands of loci are required to elucidate the relationships of the 'flowers of the sea' (Sabellida, Annelida). Molecular Phylogenetics and Evolution. 106892. PMID 32562819 DOI: 10.1016/J.Ympev.2020.106892 |
0.458 |
|
| 2020 |
Bohmann K, Mirarab S, Bafna V, Gilbert MTP. Beyond DNA barcoding: The unrealised potential of genome skim data in sample identification. Molecular Ecology. PMID 32542933 DOI: 10.1111/Mec.15507 |
0.406 |
|
| 2020 |
Asnicar F, Thomas AM, Beghini F, Mengoni C, Manara S, Manghi P, Zhu Q, Bolzan M, Cumbo F, May U, Sanders JG, Zolfo M, Kopylova E, Pasolli E, Knight R, ... Mirarab S, et al. Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nature Communications. 11: 2500. PMID 32427907 DOI: 10.1038/S41467-020-16366-7 |
0.446 |
|
| 2020 |
Rabiee M, Mirarab S. Forcing external constraints on tree inference using ASTRAL. Bmc Genomics. 21: 218. PMID 32299337 DOI: 10.1186/S12864-020-6607-Z |
0.458 |
|
| 2020 |
Rachtman E, Balaban M, Bafna V, Mirarab S. On the impact of contaminants on the accuracy of genome skimming and the effectiveness of exclusion read filters. Molecular Ecology Resources. PMID 31943790 DOI: 10.1111/1755-0998.13135 |
0.392 |
|
| 2019 |
Zhu Q, Mai U, Pfeiffer W, Janssen S, Asnicar F, Sanders JG, Belda-Ferre P, Al-Ghalith GA, Kopylova E, McDonald D, Kosciolek T, Yin JB, Huang S, Salam N, Jiao JY, ... ... Mirarab S, et al. Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nature Communications. 10: 5477. PMID 31792218 DOI: 10.1038/S41467-019-13443-4 |
0.431 |
|
| 2019 |
Balaban M, Sarmashghi S, Mirarab S. APPLES: Scalable Distance-based Phylogenetic Placement with or without Alignments. Systematic Biology. PMID 31545363 DOI: 10.1093/Sysbio/Syz063 |
0.491 |
|
| 2019 |
Balaban M, Moshiri N, Mai U, Jia X, Mirarab S. TreeCluster: Clustering biological sequences using phylogenetic trees. Plos One. 14: e0221068. PMID 31437182 DOI: 10.1371/Journal.Pone.0221068 |
0.695 |
|
| 2019 |
Rabiee M, Mirarab S. INSTRAL: Discordance-aware Phylogenetic Placement using Quartet Scores. Systematic Biology. PMID 31290974 DOI: 10.1093/Sysbio/Syz045 |
0.511 |
|
| 2019 |
Chen L, Qiu Q, Jiang Y, Wang K, Lin Z, Li Z, Bibi F, Yang Y, Wang J, Nie W, Su W, Liu G, Li Q, Fu W, Pan X, ... ... Mirarab S, et al. Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits. Science (New York, N.Y.). 364. PMID 31221828 DOI: 10.1126/Science.Aav6202 |
0.44 |
|
| 2019 |
Yin J, Zhang C, Mirarab S. ASTRAL-MP: scaling ASTRAL to very large datasets using randomization and parallelization. Bioinformatics (Oxford, England). PMID 30903685 DOI: 10.1093/Bioinformatics/Btz211 |
0.5 |
|
| 2019 |
Sarmashghi S, Bohmann K, P Gilbert MT, Bafna V, Mirarab S. Skmer: assembly-free and alignment-free sample identification using genome skims. Genome Biology. 20: 34. PMID 30760303 DOI: 10.1186/S13059-019-1632-4 |
0.417 |
|
| 2019 |
Rabiee M, Sayyari E, Mirarab S. Multi-allele species reconstruction using ASTRAL. Molecular Phylogenetics and Evolution. 130: 286-296. PMID 30393186 DOI: 10.1016/J.Ympev.2018.10.033 |
0.489 |
|
| 2019 |
Houde P, Braun EL, Narula N, Minjares U, Mirarab S. Phylogenetic Signal of Indels and the Neoavian Radiation Diversity. 11: 108. DOI: 10.3390/D11070108 |
0.513 |
|
| 2018 |
Moshiri N, Ragonnet-Cronin M, Wertheim JO, Mirarab S. FAVITES: simultaneous simulation of transmission networks, phylogenetic trees, and sequences. Bioinformatics (Oxford, England). PMID 30395173 DOI: 10.1093/Bioinformatics/Bty921 |
0.691 |
|
| 2018 |
Gopalakrishnan S, Sinding MS, Ramos-Madrigal J, Niemann J, Samaniego Castruita JA, Vieira FG, Carøe C, Montero MM, Kuderna L, Serres A, González-Basallote VM, Liu YH, Wang GD, Marques-Bonet T, Mirarab S, et al. Interspecific Gene Flow Shaped the Evolution of the Genus Canis. Current Biology : Cb. PMID 30344120 DOI: 10.1016/J.Cub.2018.08.041 |
0.406 |
|
| 2018 |
Zhang C, Rabiee M, Sayyari E, Mirarab S. ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees. Bmc Bioinformatics. 19: 153. PMID 29745866 DOI: 10.1186/S12859-018-2129-Y |
0.496 |
|
| 2018 |
Mai U, Mirarab S. TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees. Bmc Genomics. 19: 272. PMID 29745847 DOI: 10.1186/S12864-018-4620-2 |
0.424 |
|
| 2018 |
Janssen S, McDonald D, Gonzalez A, Navas-Molina JA, Jiang L, Xu ZZ, Winker K, Kado DM, Orwoll E, Manary M, Mirarab S, Knight R. Phylogenetic Placement of Exact Amplicon Sequences Improves Associations with Clinical Information. Msystems. 3. PMID 29719869 DOI: 10.1128/mSystems.00021-18 |
0.346 |
|
| 2018 |
Eiserhardt WL, Antonelli A, Bennett DJ, Botigué LR, Burleigh JG, Dodsworth S, Enquist BJ, Forest F, Kim JT, Kozlov AM, Leitch IJ, Maitner BS, Mirarab S, Piel WH, Pérez-Escobar OA, et al. A roadmap for global synthesis of the plant tree of life. American Journal of Botany. PMID 29603138 DOI: 10.1002/Ajb2.1041 |
0.606 |
|
| 2018 |
Sayyari E, Mirarab S. Testing for Polytomies in Phylogenetic Species Trees Using Quartet Frequencies. Genes. 9. PMID 29495636 DOI: 10.3390/Genes9030132 |
0.502 |
|
| 2018 |
Sayyari E, Whitfield JB, Mirarab S. DiscoVista: interpretable visualizations of gene tree discordance. Molecular Phylogenetics and Evolution. PMID 29421312 DOI: 10.1016/J.Ympev.2018.01.019 |
0.453 |
|
| 2018 |
Moshiri N, Mirarab S. A Two-State Model of Tree Evolution and Its Applications to Alu Retrotransposition. Systematic Biology. 67: 475-489. PMID 29165679 DOI: 10.1093/Sysbio/Syx088 |
0.716 |
|
| 2018 |
Shekhar S, Roch S, Mirarab S. Species Tree Estimation Using ASTRAL: How Many Genes Are Enough? Ieee/Acm Transactions On Computational Biology and Bioinformatics. 15: 1738-1747. PMID 28976320 DOI: 10.1109/Tcbb.2017.2757930 |
0.505 |
|
| 2017 |
Thompson LR, Sanders JG, McDonald D, Amir A, Ladau J, Locey KJ, Prill RJ, Tripathi A, Gibbons SM, Ackermann G, Navas-Molina JA, Janssen S, Kopylova E, Vázquez-Baeza Y, González A, ... ... Mirarab S, et al. A communal catalogue reveals Earth's multiscale microbial diversity. Nature. PMID 29088705 DOI: 10.1038/Nature24621 |
0.386 |
|
| 2017 |
Sayyari E, Whitfield JB, Mirarab S. Fragmentary gene sequences negatively impact gene tree and species tree reconstruction. Molecular Biology and Evolution. PMID 29029241 DOI: 10.1093/Molbev/Msx261 |
0.504 |
|
| 2017 |
Mirarab S. Phylogenomics: Constrained gene tree inference. Nature Ecology & Evolution. 1: 56. PMID 28812612 DOI: 10.1038/S41559-016-0056 |
0.454 |
|
| 2017 |
Mai U, Sayyari E, Mirarab S. Minimum variance rooting of phylogenetic trees and implications for species tree reconstruction. Plos One. 12: e0182238. PMID 28800608 DOI: 10.1371/Journal.Pone.0182238 |
0.514 |
|
| 2016 |
Sayyari E, Mirarab S. Anchoring quartet-based phylogenetic distances and applications to species tree reconstruction. Bmc Genomics. 17: 783. PMID 28185574 DOI: 10.1186/S12864-016-3098-Z |
0.482 |
|
| 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 |
0.582 |
|
| 2016 |
Sayyari E, Mirarab S. Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies. Molecular Biology and Evolution. 33: 1654-68. PMID 27189547 DOI: 10.1093/Molbev/Msw079 |
0.498 |
|
| 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 |
0.619 |
|
| 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 |
0.643 |
|
| 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 |
0.598 |
|
| 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 |
0.671 |
|
| 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 |
0.596 |
|
| 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 |
0.698 |
|
| 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 |
0.637 |
|
| 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 |
0.672 |
|
| 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, et al. Phylogenomic analyses data of the avian phylogenomics project. Gigascience. 4: 4. PMID 25741440 DOI: 10.1186/S13742-014-0038-1 |
0.628 |
|
| 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 |
0.707 |
|
| 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 |
0.494 |
|
| 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 |
0.589 |
|
| 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 |
0.695 |
|
| 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 |
0.68 |
|
| 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, 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 |
0.667 |
|
| 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 |
0.589 |
|
| 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 |
0.607 |
|
| 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 |
0.676 |
|
| 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 |
0.693 |
|
| 2013 |
Stoltzfus A, Lapp H, Matasci N, Deus H, Sidlauskas B, Zmasek CM, Vaidya G, Pontelli E, Cranston K, Vos R, Webb CO, Harmon LJ, Pirrung M, O'Meara B, Pennell MW, ... Mirarab S, et al. Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. Bmc Bioinformatics. 14: 158. PMID 23668630 DOI: 10.1186/1471-2105-14-158 |
0.346 |
|
| 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 |
0.603 |
|
| 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 |
0.597 |
|
| 2012 |
Mirarab S, Nguyen N, Warnow T. SEPP: SATé-enabled phylogenetic placement 17th Pacific Symposium On Biocomputing, Psb 2012. 247-258. PMID 22174280 |
0.646 |
|
| 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 |
0.599 |
|
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