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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:

Maximum likelihood pandemic-scale phylogenetics
Nicola De Maio, Prabhav Kalaghatgi, Yatish Turakhia, et al.
Nature Genetics (2023) Vol. 55, Iss. 5, pp. 746-752
Open Access | Times Cited: 37

Showing 1-25 of 37 citing articles:

SARS-CoV-2 shedding and evolution in patients who were immunocompromised during the omicron period: a multicentre, prospective analysis
Zoe Raglow, Diya Surie, James D. Chappell, et al.
The Lancet Microbe (2024) Vol. 5, Iss. 3, pp. e235-e246
Open Access | Times Cited: 36
Leveraging graphical model techniques to study evolution on phylogenetic networks
Benjamin Teo, Paul Bastide, Cécile Ané
Philosophical Transactions of the Royal Society B Biological Sciences (2025) Vol. 380, Iss. 1919
Open Access | Times Cited: 1
Taxonium, a web-based tool for exploring large phylogenetic trees
Theo Sanderson
eLife (2022) Vol. 11
Open Access | Times Cited: 45
Concepts and methods for predicting viral evolution
Matthijs Meijers, Denis Ruchnewitz, Jan Eberhardt, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 6
How fast are viruses spreading in the wild?
Simon Dellicour, Paul Bastide, Pauline Rocu, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 6
Indels: computational methods, evolutionary dynamics, and biological applications
Benjamin D. Redelings, Ian Holmes, Gerton Lunter, et al.
Molecular Biology and Evolution (2024) Vol. 41, Iss. 9
Open Access | Times Cited: 6
SARS-CoV-2 lineage assignments using phylogenetic placement/UShER are superior to pangoLEARN machine-learning method
Adriano de Bernardi Schneider, Michelle Su, Angie S. Hinrichs, et al.
Virus Evolution (2024) Vol. 10, Iss. 1
Open Access | Times Cited: 5
Online Phylogenetics with matOptimize Produces Equivalent Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and Maximum-Likelihood Implementations
Alexander Krämer, Bryan Thornlow, Cheng Ye, et al.
Systematic Biology (2023) Vol. 72, Iss. 5, pp. 1039-1051
Open Access | Times Cited: 15
Please Mind the Gap: Indel-Aware Parsimony for Fast and Accurate Ancestral Sequence Reconstruction and Multiple Sequence Alignment including Long Indels
Clara Iglhaut, Jūlija Pečerska, Manuel Gil, et al.
Molecular Biology and Evolution (2024) Vol. 41, Iss. 7
Open Access | Times Cited: 4
An AI Agent for Fully Automated Multi‐Omic Analyses
Juexiao Zhou, Bin Zhang, Guowei Li, et al.
Advanced Science (2024) Vol. 11, Iss. 44
Open Access | Times Cited: 4
Concepts and Methods for Predicting Viral Evolution
Matthijs Meijers, Denis Ruchnewitz, Jan Eberhardt, et al.
Methods in molecular biology (2025), pp. 253-290
Closed Access
Robust expansion of phylogeny for fast-growing genome sequence data
Yongtao Ye, Marcus Ho-Hin Shum, Joseph L.-H. Tsui, et al.
PLoS Computational Biology (2024) Vol. 20, Iss. 2, pp. e1011871-e1011871
Open Access | Times Cited: 3
Please Mind the Gap: Indel-Aware Parsimony for Fast and Accurate Ancestral Sequence Reconstruction and Multiple Sequence Alignment including Long Indels
Clara Iglhaut, Jūlija Pečerska, Manuel Gil, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 3
Towards Pandemic-Scale Ancestral Recombination Graphs of SARS-CoV-2
Shing H. Zhan, Anastasia Ignatieva, Yan Wong, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 8
Novel imported clades accelerated the RSV surge in Beijing, China, 2023-2024
Xiaofeng Wei, Liang Wang, Maozhong Li, et al.
Journal of Infection (2024), pp. 106321-106321
Open Access | Times Cited: 2
Fidelity of hyperbolic space for Bayesian phylogenetic inference
Matthew Macaulay, Aaron E. Darling, Mathieu Fourment
PLoS Computational Biology (2023) Vol. 19, Iss. 4, pp. e1011084-e1011084
Open Access | Times Cited: 6
Data Integration in Bayesian Phylogenetics
Gabriel W. Hassler, Andrew F. Magee, Zhenyu Zhang, et al.
Annual Review of Statistics and Its Application (2022) Vol. 10, Iss. 1, pp. 353-377
Open Access | Times Cited: 8
Leaping through Tree Space: Continuous Phylogenetic Inference for Rooted and Unrooted Trees
Matthew J. Penn, Neil Scheidwasser-Clow, Joseph V. Penn, et al.
Genome Biology and Evolution (2023) Vol. 15, Iss. 12
Open Access | Times Cited: 4
CMAPLE: efficient phylogenetic inference in the pandemic era
Nhan Ly-Trong, Chris Bielow, Nicola De Maio, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 1
High-resolution epidemiological landscape from ~290,000 SARS-CoV-2 genomes from Denmark
Mark P. Khurana, Jacob Curran-Sebastian, Neil Scheidwasser-Clow, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 1
Online Phylogenetics using Parsimony Produces Slightly Better Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and Maximum-Likelihood Approaches
Bryan Thornlow, Alexander Krämer, Cheng Ye, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2021)
Open Access | Times Cited: 11
Bases-dependent Rapid Phylogenetic Clustering (Bd-RPC) enables precise and efficient phylogenetic estimation in viruses
Bin Ma, Huimin Gong, Qianshuai Xu, et al.
Virus Evolution (2024) Vol. 10, Iss. 1
Open Access
Characterization of the chloroplast genome sequence of Calophyllum inophyllum, a bioenergy tree species, using Oxford Nanopore Technologies
Adven Kristianti, Fifi Gus Dwiyanti, Rahadian Pratama, et al.
IOP Conference Series Earth and Environmental Science (2024) Vol. 1315, Iss. 1, pp. 012077-012077
Open Access
SARS-CoV-2 epidemiology, kinetics, and evolution: a narrative review
Samuel Alizon, Mircea T. Sofonea
(2024)
Open Access
Computational tools and databases at the forefront to study geographic and genomic distribution of SARS-CoV-2 variants
Aarif Ali, Bashir Ahmad Malla, Showkat Ahmad Ganie, et al.
Network Modeling Analysis in Health Informatics and Bioinformatics (2024) Vol. 13, Iss. 1
Closed Access
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