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Bioinformatics (Oxford, England)|June 30, 2023
Phylogenomic branch length estimation using quartetsYasamin Tabatabaee, Chao Zhang, Tandy Warnow, et al.
Cell Systems|October 20, 2022
Quantifying the uncertainty of assembly-free genome-wide distance estimates and phylogenetic relationships using subsamplingEleonora Rachtman, Shahab Sarmashghi, Vineet Bafna, et al.
IEEE Transactions on Signal Processing : a Publication of the IEEE Signal Processing Society|August 22, 2025
Principal Component Analysis in Space FormsPuoya Tabaghi, Michael Khanzadeh, Yusu Wang, et al.
Biorxiv : the Preprint Server for Biology|March 3, 2025
Species tree branch length estimation despite incomplete lineage sorting, duplication, and lossYasamin Tabatabaee, Chao Zhang, Shayesteh Arasti, et al.
Science (New York, N.Y.)|October 10, 2015
Response to Comment on "Statistical binning enables an accurate coalescent-based estimation of the avian tree"Siavash Mirarab, Md Shamsuzzoha Bayzid, Bastien Boussau, et al.
Plos One|June 19, 2015
Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic AnalysesMd Shamsuzzoha Bayzid, Siavash Mirarab, Bastien Boussau, et al.
Frontiers in Immunology|January 9, 2023
A scalable model for simulating multi-round antibody evolution and benchmarking of clonal tree reconstruction methodsChao Zhang, Andrey V Bzikadze, Yana Safonova, et al.
BMC Genomics|February 11, 2017
HIPPI: highly accurate protein family classification with ensembles of HMMsNam-Phuong Nguyen, Michael Nute, Siavash Mirarab, et al.
Molecular Biology and Evolution|September 4, 2020
ASTRAL-Pro: Quartet-Based Species-Tree Inference despite ParalogyChao Zhang, Celine Scornavacca, Erin K Molloy, et al.
Bioinformatics (Oxford, England)|January 13, 2023
Evaluating impacts of syntenic block detection strategies on rearrangement phylogeny using Mycobacterium tuberculosis isolatesAfif Elghraoui, Siavash Mirarab, Krister M Swenson, et al.
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