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Molecular Phylogenetics and Evolution|February 9, 2018
DiscoVista: Interpretable visualizations of gene tree discordanceErfan Sayyari, James B Whitfield, Siavash MirarabMolecular Biology and Evolution|October 14, 2017
Fragmentary Gene Sequences Negatively Impact Gene Tree and Species Tree ReconstructionErfan Sayyari, James B Whitfield, Siavash MirarabJournal of Acquired Immune Deficiency Syndromes (1999)|January 4, 2021
HIV Care Prioritization Using Phylogenetic Branch LengthNiema Moshiri, Davey M Smith, Siavash MirarabSystematic Biology|August 29, 2014
Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage SortingSiavash Mirarab, Md Shamsuzzoha Bayzid, Tandy WarnowGenome Biology and Evolution|November 26, 2025
Species Tree Branch Length Estimation despite Incomplete Lineage Sorting, Duplication, and LossYasamin Tabatabaee, Chao Zhang, Shayesteh Arasti, et al.Trends in Genetics : TIG|May 27, 2026
Phylogenomics beyond the 'bag-of-genes' modelIker Rivas-González, Siavash Mirarab, Edward L BraunBioinformatics (Oxford, England)|March 16, 2024
CONSULT-II: accurate taxonomic identification and profiling using locality-sensitive hashingAli Osman Berk Şapcı, Eleonora Rachtman, Siavash MirarabBMC Genomics|October 10, 2015
Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transferRuth Davidson, Pranjal Vachaspati, Siavash Mirarab, et al.Biorxiv : the Preprint Server for Biology|May 15, 2024
Branch Length Transforms using Optimal Tree Metric MatchingShayesteh Arasti, Puoya Tabaghi, Yasamin Tabatabaee, et al.BMC Bioinformatics|May 11, 2018
ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene treesChao Zhang, Maryam Rabiee, Erfan Sayyari, et al.Pageof 12