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Siavash Mirarab
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A communal catalogue reveals Earth’s multiscale microbial diversity
LR Thompson, JG Sanders, D McDonald, A Amir, J Ladau, KJ Locey, ...
Nature 551 (7681), 457-463, 2017
22362017
Whole-genome analyses resolve early branches in the tree of life of modern birds
ED Jarvis, S Mirarab, AJ Aberer, B Li, P Houde, C Li, SYW Ho, ...
Science 346 (6215), 1320-1331, 2014
19242014
ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
C Zhang, M Rabiee, E Sayyari, S Mirarab
BMC bioinformatics 19, 15-30, 2018
16542018
One thousand plant transcriptomes and the phylogenomics of green plants
Nature 574 (7780), 679-685, 2019
12352019
Phylotranscriptomic analysis of the origin and early diversification of land plants
NJ Wickett, S Mirarab, N Nguyen, T Warnow, E Carpenter, N Matasci, ...
Proceedings of the National Academy of Sciences 111 (45), E4859-E4868, 2014
12342014
ASTRAL: genome-scale coalescent-based species tree estimation
S Mirarab, R Reaz, MS Bayzid, T Zimmermann, MS Swenson, T Warnow
Bioinformatics 30 (17), i541-i548, 2014
11562014
ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes
S Mirarab, T Warnow
Bioinformatics 31 (12), i44-i52, 2015
9032015
American gut: an open platform for citizen science microbiome research
D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ...
Msystems 3 (3), 10.1128/msystems. 00031-18, 2018
6692018
Fast coalescent-based computation of local branch support from quartet frequencies
E Sayyari, S Mirarab
Molecular biology and evolution 33 (7), 1654-1668, 2016
6602016
Data access for the 1,000 Plants (1KP) project
N Matasci, LH Hung, Z Yan, EJ Carpenter, NJ Wickett, S Mirarab, ...
Gigascience 3 (1), 2047-217X-3-17, 2014
5892014
PASTA: ultra-large multiple sequence alignment
S Mirarab, N Nguyen, T Warnow
Research in Computational Molecular Biology: 18th Annual International …, 2014
4932014
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0
F Asnicar, AM Thomas, F Beghini, C Mengoni, S Manara, P Manghi, ...
Nature communications 11 (1), 2500, 2020
4252020
Phylogenetic placement of exact amplicon sequences improves associations with clinical information
S Janssen, D McDonald, A Gonzalez, JA Navas-Molina, L Jiang, ZZ Xu, ...
Msystems 3 (3), 10.1128/msystems. 00021-18, 2018
3522018
Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits
L Chen, Q Qiu, YU Jiang, K Wang, Z Lin, Z Li, F Bibi, Y Yang, J Wang, ...
Science 364 (6446), eaav6202, 2019
3182019
Dense sampling of bird diversity increases power of comparative genomics
S Feng, J Stiller, Y Deng, J Armstrong, QI Fang, AH Reeve, D Xie, G Chen, ...
Nature 587 (7833), 252-257, 2020
3132020
Evaluating summary methods for multilocus species tree estimation in the presence of incomplete lineage sorting
S Mirarab, MS Bayzid, T Warnow
Systematic Biology 65 (3), 366-380, 2016
2782016
Statistical binning enables an accurate coalescent-based estimation of the avian tree
S Mirarab, MS Bayzid, B Boussau, T Warnow
Science 346 (6215), 1250463, 2014
2572014
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea
Q Zhu, U Mai, W Pfeiffer, S Janssen, F Asnicar, JG Sanders, ...
Nature communications 10 (1), 5477, 2019
2512019
SEPP: SATé-enabled phylogenetic placement
S Mirarab, N Nguyen, T Warnow
Biocomputing 2012, 247-258, 2012
2482012
TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees
U Mai, S Mirarab
BMC genomics 19, 23-40, 2018
2422018
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