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OpenAlex Citation Counts

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OpenAlex is a bibliographic catalogue of scientific papers, authors and institutions accessible in open access mode, named after the Library of Alexandria. It's citation coverage is excellent and I hope you will find utility in this listing of citing articles!

If you click the article title, you'll navigate to the article, as listed in CrossRef. If you click the Open Access links, you'll navigate to the "best Open Access location". Clicking the citation count will open this listing for that article. Lastly at the bottom of the page, you'll find basic pagination options.

Requested Article:

New Approaches for Inferring Phylogenies in the Presence of Paralogs
Megan L. Smith, Matthew W. Hahn
Trends in Genetics (2020) Vol. 37, Iss. 2, pp. 174-187
Open Access | Times Cited: 76

Showing 1-25 of 76 citing articles:

Weighting by Gene Tree Uncertainty Improves Accuracy of Quartet-based Species Trees
Chao Zhang, Siavash Mirarab
Molecular Biology and Evolution (2022) Vol. 39, Iss. 12
Open Access | Times Cited: 86
Species tree branch length estimation despite incomplete lineage sorting, duplication, and loss
Yasamin Tabatabaee, Chao Zhang, Shayesteh Arasti, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Closed Access | Times Cited: 2
Multispecies Coalescent: Theory and Applications in Phylogenetics
Siavash Mirarab, Luay Nakhleh, Tandy Warnow
Annual Review of Ecology Evolution and Systematics (2021) Vol. 52, Iss. 1, pp. 247-268
Closed Access | Times Cited: 56
ASTRAL-Pro 2: ultrafast species tree reconstruction from multi-copy gene family trees
Chao Zhang, Siavash Mirarab
Bioinformatics (2022) Vol. 38, Iss. 21, pp. 4949-4950
Open Access | Times Cited: 41
Major Revisions in Pancrustacean Phylogeny and Evidence of Sensitivity to Taxon Sampling
James P. Bernot, Christopher L. Owen, Joanna M. Wolfe, et al.
Molecular Biology and Evolution (2023) Vol. 40, Iss. 8
Open Access | Times Cited: 27
Phylogenomic analyses of Sapindales support new family relationships, rapid Mid-Cretaceous Hothouse diversification, and heterogeneous histories of gene duplication
Elizabeth Joyce, Marc S. Appelhans, Sven Buerki, et al.
Frontiers in Plant Science (2023) Vol. 14
Open Access | Times Cited: 24
Whole-genome analyses converge to support the Hemirotifera hypothesis within Syndermata (Gnathifera)
Alexandros Vasilikopoulos, Holger Herlyn, Diego Fontaneto, et al.
Hydrobiologia (2024) Vol. 851, Iss. 12-13, pp. 2795-2826
Closed Access | Times Cited: 8
Species Tree Inference Methods Intended to Deal with Incomplete Lineage Sorting Are Robust to the Presence of Paralogs
Zhi Yan, Megan L. Smith, Peng Du, et al.
Systematic Biology (2021) Vol. 71, Iss. 2, pp. 367-381
Open Access | Times Cited: 49
Analysis of Paralogs in Target Enrichment Data Pinpoints Multiple Ancient Polyploidy Events in Alchemilla s.l. (Rosaceae)
Diego F. Morales‐Briones, Berit Gehrke, Chien‐Hsun Huang, et al.
Systematic Biology (2021) Vol. 71, Iss. 1, pp. 190-207
Open Access | Times Cited: 42
Genome-wide signatures of plastid-nuclear coevolution point to repeated perturbations of plastid proteostasis systems across angiosperms
Evan S. Forsythe, Alissa M. Williams, Daniel B. Sloan
The Plant Cell (2021) Vol. 33, Iss. 4, pp. 980-997
Open Access | Times Cited: 41
A Practical Guide to Design and Assess a Phylogenomic Study
Jesús Lozano-Fernández
Genome Biology and Evolution (2022) Vol. 14, Iss. 9
Open Access | Times Cited: 36
Artifactual Orthologs and the Need for Diligent Data Exploration in Complex Phylogenomic Datasets: A Museomic Case Study from the Andean Flora
Laura A. Frost, Ana M. Bedoya, Laura P. Lagomarsino
Systematic Biology (2024) Vol. 73, Iss. 2, pp. 308-322
Open Access | Times Cited: 6
Compositae‐ParaLoss‐1272: A complementary sunflower‐specific probe set reduces paralogs in phylogenomic analyses of complex systems
Erika R. Moore‐Pollard, Daniel S. Jones, Jennifer R. Mandel
Applications in Plant Sciences (2024) Vol. 12, Iss. 1
Open Access | Times Cited: 6
DISCO: Species Tree Inference using Multicopy Gene Family Tree Decomposition
James K. V. Willson, Mrinmoy Saha Roddur, Baqiao Liu, et al.
Systematic Biology (2021) Vol. 71, Iss. 3, pp. 610-629
Open Access | Times Cited: 36
OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
Jacob L. Steenwyk, Dayna C. Goltz, Thomas J. Buida, et al.
PLoS Biology (2022) Vol. 20, Iss. 10, pp. e3001827-e3001827
Open Access | Times Cited: 26
Identifying and addressing methodological incongruence in phylogenomics: A review
James F. Fleming, Alberto Valero‐Gracia, Torsten H. Struck
Evolutionary Applications (2023) Vol. 16, Iss. 6, pp. 1087-1104
Open Access | Times Cited: 15
Phylogenomics and morphology of Celmisiinae (Asteraceae: Astereae): Taxonomic and evolutionary implications
D A V I D Nicol, Patricio Saldivia, Tina C. Summerfield, et al.
Molecular Phylogenetics and Evolution (2024) Vol. 195, pp. 108064-108064
Open Access | Times Cited: 5
A nuclear phylogenomic tree of grasses (Poaceae) recovers current classification despite gene tree incongruence
Matheus E. Bianconi, Jan Hackel, Maria S. Vorontsova
New Phytologist (2024) Vol. 245, Iss. 2, pp. 818-834
Open Access | Times Cited: 5
Dispensable genome and segmental duplications drive the genome plasticity in Fusarium solani
Abbeah Navasca, Jatinder Singh, Viviana Rivera-Varas, et al.
Frontiers in Fungal Biology (2025) Vol. 6
Open Access
Phylogeny of Palicoureeae (Rubiaceae) based on 353 low-copy nuclear genes – With particular focus on Hymenocoleus Robbr
Lovisa Thilén, Olivier Lachenaud, Olle Thureborn, et al.
Molecular Phylogenetics and Evolution (2025), pp. 108338-108338
Open Access
Species Tree Inference on Data with Paralogs is Accurate Using Methods Intended to Deal with Incomplete Lineage Sorting
Zhi Yan, Megan L. Smith, Peng Du, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2018)
Open Access | Times Cited: 38
Filtering artifactual signal increases support for Xenacoelomorpha and Ambulacraria sister relationship in the animal tree of life
Peter O. Mulhair, Charley McCarthy, Karen Siu-Ting, et al.
Current Biology (2022) Vol. 32, Iss. 23, pp. 5180-5188.e3
Open Access | Times Cited: 22
Using all Gene Families Vastly Expands Data Available for Phylogenomic Inference
Megan L. Smith, Dan Vanderpool, Matthew W. Hahn
Molecular Biology and Evolution (2022) Vol. 39, Iss. 6
Open Access | Times Cited: 21
Utilizing paralogues for phylogenetic reconstruction has the potential to increase species tree support and reduce gene tree discordance in target enrichment data
Roman Ufimov, Juan Manuel Gorospe, Tomáš Fér, et al.
Molecular Ecology Resources (2022) Vol. 22, Iss. 8, pp. 3018-3034
Open Access | Times Cited: 21
Deciphering complex reticulate evolution of Asian Buddleja (Scrophulariaceae): insights into the taxonomy and speciation of polyploid taxa in the Sino-Himalayan region
Fengmao Yang, Jia Ge, Yongjie Guo, et al.
Annals of Botany (2023) Vol. 132, Iss. 1, pp. 15-28
Open Access | Times Cited: 11
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