Siavash Mirarab

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Whole-genome phylogenomics and synteny resolve a single origin of body-plan asymmetry in flatfishes

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-05-26

• Phlag: Scalable detection of genomics regions with unexplained phylogenetic heterogeneity

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-04-13

• <scp>SPrUCE</scp> : Utilizing Ultraconserved Elements of <scp>DNA</scp> for Population‐Level Genetic Diversity Estimation

  Molecular Ecology Resources · 2026-04-01

• dairabel92/spruce: Version 0.2.0

  Zenodo (CERN European Organization for Nuclear Research) · 2026-02-24

• dairabel92/spruce: Version 0.2.0

  Open MIND · 2026-02-24

• SPrUCE: Utilizing Ultraconserved Elements of DNA for Population-Level Genetic Diversity EstimationPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-16

• Species Tree Branch Length Estimation despite Incomplete Lineage Sorting, Duplication, and Loss

  Genome Biology and Evolution · 2025-10-22 · 2 citations

• Machine Learning Enables Alignment‐Free Distance Calculation and Phylogenetic Placement Using <i>k</i> ‐Mer Frequencies

  Molecular Ecology Resources · 2025-10-12 · 1 citations

• ASTER: A Package for Large-Scale Phylogenomic Reconstructions

  Molecular Biology and Evolution · 2025-07-16 · 47 citations

• krepp v0.7.2

  Zenodo (CERN European Organization for Nuclear Research) · 2025-05-19

• Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIES

  Proceedings of the National Academy of Sciences · 2025-05-02 · 11 citations

• Machine learning enables alignment-free distance calculation and phylogenetic placement using k-mer frequenciesPreprint

  2025-04-23 · 1 citations

• Coalescent-Based Branch Length Estimation Improves Dating of Species TreesPreprint

  Systematic Biology · 2025-02-28 · 1 citations

• Species tree branch length estimation despite incomplete lineage sorting, duplication, and lossPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-02-21 · 4 citations

• A <i>k</i> -mer-based maximum likelihood method for estimating distances of reads to genomes enables genome-wide phylogenetic placementPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-01-24 · 2 citations

• CASTER: Direct species tree inference from whole-genome alignments

  Science · 2025-01-23 · 34 citations

• Net rate of lateral gene transfer in marine prokaryoplankton

  The ISME Journal · 2025-01-01 · 4 citations

• Alignment-Free Estimation of Read to Genome Distances and Its Applications

  Lecture notes in computer science · 2025-01-01 · 1 citations

• Memory-bound <i>k</i> -mer selection for large and evolutionarily diverse reference libraries

  Genome Research · 2024-08-29 · 4 citations

• Expectation-Maximization enables Phylogenetic Dating under a Categorical Rate Model

  Systematic Biology · 2024-07-03 · 5 citations