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Erfan Sayyari
Researcher at University of California, San Diego
Publications - 21
Citations - 2838
Erfan Sayyari is an academic researcher from University of California, San Diego. The author has contributed to research in topics: Coalescent theory & Tree (data structure). The author has an hindex of 12, co-authored 21 publications receiving 1649 citations. Previous affiliations of Erfan Sayyari include Sharif University of Technology.
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Journal ArticleDOI
ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees.
TL;DR: ASTRAL-III is a faster version of the ASTRAL method for phylogenetic reconstruction and can scale up to 10,000 species and removes low support branches from gene trees, resulting in improved accuracy.
Journal ArticleDOI
Fast coalescent-based computation of local branch support from quartet frequencies
Erfan Sayyari,Siavash Mirarab +1 more
TL;DR: This article proposes a fast algorithm to compute quartet-based support for each branch of a given species tree with regard to a given set of gene trees and evaluates the precision and recall of the local PP on a wide set of simulated and biological datasets.
Book ChapterDOI
ASTRAL-III: Increased Scalability and Impacts of Contracting Low Support Branches
TL;DR: This paper introduces ASTRAL-III, which substantially improves on ASTRal-II in terms of running time by handling polytomies more efficiently, exploiting similarities between gene trees, and trimming unnecessary parts of the search space.
Journal ArticleDOI
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea.
Qiyun Zhu,Uyen Mai,Wayne Pfeiffer,Stefan Janssen,Stefan Janssen,Francesco Asnicar,Jon G. Sanders,Pedro Belda-Ferre,Gabriel A. Al-Ghalith,Evguenia Kopylova,Daniel McDonald,Tomasz Kosciolek,Tomasz Kosciolek,John Yin,Shi Huang,Nimaichand Salam,Jian-Yu Jiao,Zijun Wu,Zhenjiang Zech Xu,Kalen Cantrell,Yimeng Yang,Erfan Sayyari,Maryam Rabiee,James T. Morton,Sheila Podell,Dan Knights,Wen-Jun Li,Curtis Huttenhower,Curtis Huttenhower,Nicola Segata,Larry Smarr,Siavash Mirarab,Rob Knight +32 more
TL;DR: A reference phylogeny of 10,575 evenly-sampled bacterial and archaeal genomes, based on a comprehensive set of 381 markers, is built, providing an updated view of domain-level relationships between Archaea and Bacteria.
Journal ArticleDOI
Testing for Polytomies in Phylogenetic Species Trees Using Quartet Frequencies.
Erfan Sayyari,Siavash Mirarab +1 more
TL;DR: In this paper, a statistical test based on properties of the multi-species coalescent model is proposed to test the null hypothesis that a branch in an estimated species tree should be replaced by a polytomy.