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Luay Nakhleh

Rice University

54H-index
212Paper Count
9.2KCitation Count
Published Papers 47
Publication Date
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Inferring Phylogenetic Trees of Cancer Evolution from Longitudinal Single-Cell Copy Number Profiles
errCOMPARATIVE GENOMICS, RECOMB-CG 2025
IF0
err2026-01-01
err0
PREAI
errLiu, Yushu; Nakhleh, Luay
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Accurate integration of single-cell DNA and RNA for analyzing intratumor heterogeneity using MaCroDNA
errNATURE COMMUNICATIONS
IF15.7
err2023-12-13
err4
errOAAI
errEdrisi, Mohammadamin; Huang, Xiru; Ogilvie, Huw A.; Nakhleh, Luay
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Correcting Gene Trees to be More Like Species Trees Frequently Increases Topological Error
errGENOME BIOLOGY AND EVOLUTION
IF2.8
err2023-05-27
err0
errOAAI
errYan, Zhi; Ogilvie, Huw A.; Nakhleh, Luay
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Comparing inference under the multispecies coalescent with and without recombination
errMOLECULAR PHYLOGENETICS AND EVOLUTION
IF3.6
err2023-04-01
err2
errOAAI
errYan, Zhi; Ogilvie, Huw A.; Nakhleh, Luay
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Current progress and open challenges for applying deep learning across the biosciences
errNATURE COMMUNICATIONS
IF15.7
err2022-04-01
err138
errOAAI
errSapoval, Nicolae; Aghazadeh, Amirali; Nute, Michael G.; Antunes, Dinler A.; Balaji, Advait; Baraniuk, Richard; Barberan, C. J.; Dannenfelser, Ruth; Dun, Chen; Edrisi, Mohammadamin; Elworth, R. A. Leo; Kille, Bryce; Kyrillidis, Anastasios; Nakhleh, Luay; Wolfe, Cameron R.; Yan, Zhi; Yao, Vicky; Treangen, Todd J.
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Multispecies Coalescent: Theory and Applications in Phylogenetics
errANNUAL REVIEW OF ECOLOGY, EVOLUTION, AND SYSTEMATICS, VOL 52, 2021
IF0
err2021-11-02
err39
PREAI
errMirarab, Siavash; Nakhleh, Luay; Warnow, Tandy
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Maximum Parsimony Inference of Phylogenetic Networks in the Presence of Polyploid Complexes
errSYSTEMATIC BIOLOGY
IF5.7
err2021-10-04
err23
errOAAI
errYan, Zhi; Cao, Zhen; Liu, Yushu; Ogilvie, Huw A.; Nakhleh, Luay
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Variational inference using approximate likelihood under the coalescent with recombination
errGENOME RESEARCH
IF5.5
err2021-08-23
err4
errOAAI
errLiu, Xinhao; Ogilvie, Huw A.; Nakhleh, Luay
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Phylogenomic assessment of the role of hybridization and introgression in trait evolution
errPLOS GENETICS
IF3.7
err2021-08-18
err8
errOAAI
errWang, Yaxuan; Cao, Zhen; Ogilvie, Huw A.; Nakhleh, Luay
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Species Tree Inference Methods Intended to Deal with Incomplete Lineage Sorting Are Robust to the Presence of Paralogs
errSYSTEMATIC BIOLOGY
IF5.7
err2021-07-10
err35
errOAAI
errYan, Zhi; Smith, Megan L.; Du, Peng; Hahn, Matthew W.; Nakhleh, Luay
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errSave
Methods for copy number aberration detection from single-cell DNA-sequencing data
errGENOME BIOLOGY
IF9.4
err2020-08-17
err83
errOAAI
errMallory, Xian F.; Edrisi, Mohammadamin; Navin, Nicholas; Nakhleh, Luay
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Integrated likelihood for phylogenomics under a no-common-mechanism model
errBMC GENOMICS
IF3.7
err2020-04-16
err0
errOAAI
errTidwell, Hunter; Nakhleh, Luay
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Practical Speedup of Bayesian Inference of Species Phylogenies by Restricting the Space of Gene Trees
errMOLECULAR BIOLOGY AND EVOLUTION
IF5.3
err2020-02-20
err4
errOAAI
errWang, Yaxuan; Ogilvie, Huw A.; Nakhleh, Luay
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SiCloneFit: Bayesian inference of population structure, genotype, and phylogeny of tumor clones from single-cell genome sequencing data
errGENOME RESEARCH
IF5.5
err2019-10-18
err79
errOAAI
errZafar, Hamim; Navin, Nicholas; Chen, Ken; Nakhleh, Luay
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errSave
Comments on the model parameters in SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
errGENOME BIOLOGY
IF9.4
err2019-05-16
err2
errOAAI
errZafar, Hamim; Tzen, Anthony; Navin, Nicholas; Chen, Ken; Nakhleh, Luay
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Matrilysin/MMP-7 Cleavage of Perlecan/HSPG2 Complexed with Semaphorin 3A Supports FAK-Mediated Stromal Invasion by Prostate Cancer Cells
errSCIENTIFIC REPORTS
IF3.9
err2018-05-08
err35
errOAAI
errGrindel, Brian J.; Martinez, Jerahme R.; Tellman, Tristen V.; Harrington, Daniel A.; Zafar, Hamim; Nakhleh, Luay; Chung, Leland W.; Farach-Carson, Mary C.
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Inferring Phylogenetic Networks Using PhyloNet
errSYSTEMATIC BIOLOGY
IF5.7
err2018-03-05
err243
errOAAI
errWen, Dingqiao; Yu, Yun; Zhu, Jiafan; Nakhleh, Luay
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Stranger in a strange land: the experiences of immigrant researchers
errGENOME BIOLOGY
IF9.4
err2017-12-15
err0
errOAAI
errKamoun, Sophien; Lozano-Duran, Rosa; Nakhleh, Luay
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Coestimating Reticulate Phylogenies and Gene Trees from Multilocus Sequence Data
errSYSTEMATIC BIOLOGY
IF5.7
err2017-10-27
err100
errOAAI
errWen, Dingqiao; Nakhleh, Luay
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errSave
SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
errGENOME BIOLOGY
IF9.4
err2017-09-19
err113
errOAAI
errZafar, Hamim; Tzen, Anthony; Navin, Nicholas; Chen, Ken; Nakhleh, Luay
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errSave

Research Directions

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Co-authors
Cooperation Journals
Y
Yiling Lu
H-index: 129 · Papers: 799
S
Sophien Kamoun
H-index: 125 · Papers: 718
L
Leland W.K. Chung
H-index: 109 · Papers: 971
K
Ken Chen
H-index: 102 · Papers: 1.1K
R
Richard G. Baraniuk
H-index: 98 · Papers: 853
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