World's Best Scientists 2026 revealed!

D-Index & Metrics

Computer Science

D-Index
49
Citations
8899
World Ranking
5924
National Ranking
2674

Research.com Recognitions

  • 2012 - Fellow of John Simon Guggenheim Memorial Foundation
  • 2010 - Fellow of Alfred P. Sloan Foundation

Overview

Luay Nakhleh is affiliated with Rice University in the United States, where their research primarily spans the fields of Biochemistry, Genetics, and Molecular Biology. Their work is significantly concentrated within the subfields of Molecular Biology, Genetics, Cancer Research, Plant Science, and Paleontology.

The scientist's research topics include:

  • Genomics and Phylogenetic Studies
  • Genetic diversity and population structure
  • Cancer Genomics and Diagnostics
  • Single-cell and spatial transcriptomics
  • Chromosomal and Genetic Variations
  • Evolution and Genetic Dynamics
  • Evolution and Paleontology Studies

Among their recent scholarly contributions, notable publications include:

  • "Current progress and open challenges for applying deep learning across the biosciences," 2022, published in Nature Communications
  • "Complexity of avian evolution revealed by family-level genomes," 2024, published in Nature
  • "Methods for copy number aberration detection from single-cell DNA-sequencing data," 2020, published in Genome Biology
  • "Multispecies Coalescent: Theory and Applications in Phylogenetics," 2021, published in Annual Review of Ecology Evolution and Systematics
  • "Species Tree Inference Methods Intended to Deal with Incomplete Lineage Sorting Are Robust to the Presence of Paralogs," 2021, published in Systematic Biology

The scientist collaborates frequently with other researchers, with regular co-authorship involving:

  • Huw A. Ogilvie
  • Zhi Yan
  • Mohammadamin Edrisi
  • Zhen Cao
  • Nicolae Sapoval

The venues in which their research is commonly published reflect a focus on high-impact journals and preprint platforms. These venues include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Bioinformatics
  • Nature Communications
  • Genome Biology
  • Systematic Biology

Luay Nakhleh has received several recognitions in their career, including being named a Fellow of the John Simon Guggenheim Memorial Foundation in 2012 and a Fellow of the Alfred P. Sloan Foundation in 2010.

Best Publications

  • PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships

    Cuong Than;Derek A. Ruths;Luay Nakhleh

  • Current progress and open challenges for applying deep learning across the biosciences

    Unknown

  • Inferring Phylogenetic Networks Using PhyloNet

    Dingqiao Wen;Yun Yu;Jiafan Zhu;Luay Nakhleh

  • Perfect Phylogenetic Networks: A New Methodology for Reconstructing the Evolutionary History of Natural Languages

    Luay Nakhleh;Donald A. Ringe;Tandy Warnow

  • Maximum likelihood inference of reticulate evolutionary histories

    Yun Yu;Jianrong Dong;Kevin J. Liu;Luay Nakhleh

  • The probability of a gene tree topology within a phylogenetic network with applications to hybridization detection.

    Yun Yu;James H. Degnan;Luay Nakhleh

  • A maximum pseudo-likelihood approach for phylogenetic networks

    Yun Yu;Luay Nakhleh

  • Reconstructing reticulate evolution in species-theory and practice.

    Luay Nakhleh;Tandy J. Warnow;C. Randal Linder;Katherine St. John

  • Reconstructing reticulate evolution in species: theory and practice

    Luay Nakhleh;Tandy Warnow;C. Randal Linder

  • Computational approaches to species phylogeny inference and gene tree reconciliation

    Luay Nakhleh

  • Phylogenetic Networks: Modeling, Reconstructibility, and Accuracy

    B.M.E. Moret;L. Nakhleh;T. Warnow;C.R. Linder

  • Coalescent Histories on Phylogenetic Networks and Detection of Hybridization Despite Incomplete Lineage Sorting

    Yun Yu;Cuong Than;James H. Degnan;Luay Nakhleh

  • Species tree inference by minimizing deep coalescences.

    Cuong Than;Luay Nakhleh

  • Networks: expanding evolutionary thinking

    Eric Bapteste;Leo van Iersel;Axel Janke;Scot Kelchner

  • Identification of three distinct phylogenetic groups of CAX cation/proton antiporters.

    T. Shigaki;I. Rees;L. Nakhleh;K.D. Hirschi

  • Irrational exuberance for resolved species trees.

    Matthew W. Hahn;Luay Nakhleh

  • SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models

    Hamim Zafar;Hamim Zafar;Anthony Tzen;Nicholas Navin;Ken Chen

  • Monovar: single-nucleotide variant detection in single cells

    Hamim Zafar;Yong Wang;Luay Nakhleh;Nicholas Navin

  • Parsimonious inference of hybridization in the presence of incomplete lineage sorting

    Yun Yu;R. Matthew Barnett;Luay Nakhleh

  • Evolutionary Phylogenetic Networks: Models and Issues

    Luay Nakhleh

  • Maximum likelihood of phylogenetic networks

    Guohua Jin;Luay Nakhleh;Sagi Snir;Tamir Tuller

  • Methods for copy number aberration detection from single-cell DNA-sequencing data

    Xian F. Mallory;Xian F. Mallory;Mohammadamin Edrisi;Nicholas Navin;Luay Nakhleh

Frequent Co-Authors

Tandy Warnow
Tandy Warnow University of Illinois at Urbana-Champaign
Ken Chen
Ken Chen The University of Texas MD Anderson Cancer Center
Nicholas Navin
Nicholas Navin The University of Texas MD Anderson Cancer Center
Hideki Innan
Hideki Innan The Graduate University for Advanced Studies, SOKENDAI
Tamir Tuller
Tamir Tuller Tel Aviv University
Wanding Zhou
Wanding Zhou University of Pennsylvania
Bernard M. E. Moret
Bernard M. E. Moret École Polytechnique Fédérale de Lausanne
Li-San Wang
Li-San Wang University of Pennsylvania
John Mellor-Crummey
John Mellor-Crummey Rice University
Mary C. Farach-Carson
Mary C. Farach-Carson The University of Texas Health Science Center at Houston

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