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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:

A Daily-Updated Database and Tools for Comprehensive SARS-CoV-2 Mutation-Annotated Trees
Jakob McBroome, Bryan Thornlow, Angie S. Hinrichs, et al.
Molecular Biology and Evolution (2021) Vol. 38, Iss. 12, pp. 5819-5824
Open Access | Times Cited: 95

Showing 26-50 of 95 citing articles:

Emergence of new subgenomic mRNAs in SARS-CoV-2
Harriet V Mears, George R. Young, Theo Sanderson, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Closed Access | Times Cited: 26
phastSim: Efficient simulation of sequence evolution for pandemic-scale datasets
Nicola De Maio, William Boulton, Lukas Weilguny, et al.
PLoS Computational Biology (2022) Vol. 18, Iss. 4, pp. e1010056-e1010056
Open Access | Times Cited: 22
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
Towards a post-pandemic future for global pathogen genome sequencing
Jason T. Ladner, Jason W. Sahl
PLoS Biology (2023) Vol. 21, Iss. 8, pp. e3002225-e3002225
Open Access | Times Cited: 13
A phylogenetic method identifies candidate drivers of the evolution of the SARS-CoV-2 mutation spectrum
Russ Corbett-Detig
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Identifying SARS-CoV-2 regional introductions and transmission clusters in real time
Jakob McBroome, Jennifer Martin, Adriano de Bernardi Schneider, et al.
Virus Evolution (2022) Vol. 8, Iss. 1
Open Access | Times Cited: 20
Wastewater surveillance uncovers regional diversity and dynamics of SARS-CoV-2 variants across nine states in the USA
Rafaela S. Fontenele, Yi‐Yan Yang, Erin M. Driver, et al.
The Science of The Total Environment (2023) Vol. 877, pp. 162862-162862
Open Access | Times Cited: 11
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
Tracking and curating putative SARS-CoV-2 recombinants with RIVET
Kyle Smith, Cheng Ye, Yatish Turakhia
Bioinformatics (2023) Vol. 39, Iss. 9
Open Access | Times Cited: 10
Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission
Smruthi Karthikeyan, Joshua I. Levy, Peter De Hoff, et al.
medRxiv (Cold Spring Harbor Laboratory) (2021)
Open Access | Times Cited: 20
Whole-genome analysis of SARS-CoV-2 in a 2020 infection cluster in a nursing home of Southern Italy
Carmela De Marco, Nadia Marascio, Claudia Veneziano, et al.
Infection Genetics and Evolution (2022) Vol. 99, pp. 105253-105253
Open Access | Times Cited: 13
Inferring selection effects in SARS-CoV-2 with Bayesian Viral Allele Selection
Martin Jankowiak, Fritz Obermeyer, Jacob E. Lemieux
PLoS Genetics (2022) Vol. 18, Iss. 12, pp. e1010540-e1010540
Open Access | Times Cited: 12
Efficient overexpression and purification of SARS-CoV-2 Nucleocapsid proteins in Escherichia coli
Emma L. Brudenell, Manoj Baliram Pohare, Domen Zafred, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
Adaptive advantage of deletion repair in the N-terminal domain of the SARS-CoV-2 spike protein in variants of concern
Miguel Álvarez-Herrera, Paula Ruiz-Rodríguez, Beatriz Navarro-Domínguez, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
Properties and Mechanisms of Deletions, Insertions, and Substitutions in the Evolutionary History of SARS-CoV-2
Igor B. Rogozin, Andreu Saura, Eugenia Poliakov, et al.
International Journal of Molecular Sciences (2024) Vol. 25, Iss. 7, pp. 3696-3696
Open Access | Times Cited: 2
Efficient overexpression and purification of SARS-CoV-2 Nucleocapsid proteins in Escherichia coli
Emma L. Brudenell, Manoj Baliram Pohare, Domen Zafred, et al.
Biochemical Journal (2024) Vol. 481, Iss. 11, pp. 669-682
Open Access | Times Cited: 2
The mutational landscape of SARS-CoV-2 provides new insight into viral evolution and fitness
Jean-François Goût, Jori Symons, Claire Chung, et al.
Research Square (Research Square) (2024)
Closed Access | Times Cited: 2
Rate variation and recurrent sequence errors in pandemic-scale phylogenetics
Nicola De Maio, Myrthe Willemsen, Zihao Guo, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access | Times Cited: 2
VGsim: Scalable viral genealogy simulator for global pandemic
Vladimir Shchur, Vadim Spirin, Dmitry Sirotkin, et al.
PLoS Computational Biology (2022) Vol. 18, Iss. 8, pp. e1010409-e1010409
Open Access | Times Cited: 11
DecentTree: scalable Neighbour-Joining for the genomic era
Weiwen Wang, James Barbetti, Thomas K. F. Wong, et al.
Bioinformatics (2023) Vol. 39, Iss. 9
Open Access | Times Cited: 6
Interpretable and Predictive Deep Modeling of the SARS-CoV-2 Spike Protein Sequence
Bahrad A. Sokhansanj, Zhengqiao Zhao, Gail Rosen
medRxiv (Cold Spring Harbor Laboratory) (2021)
Open Access | Times Cited: 15
Maximum likelihood pandemic-scale phylogenetics
Nicola De Maio, Prabhav Kalaghatgi, Yatish Turakhia, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 10
The ongoing evolution of UShER during the SARS-CoV-2 pandemic
Angie S. Hinrichs, Cheng Ye, Yatish Turakhia, et al.
Nature Genetics (2023) Vol. 56, Iss. 1, pp. 4-7
Closed Access | Times Cited: 5
SARS-CoV-2 N-gene mutation leading to Xpert Xpress SARS-CoV-2 assay instability
Charles S. P. Foster, Mathew Madden, Raymond C. K. Chan, et al.
Pathology (2022) Vol. 54, Iss. 4, pp. 499-501
Open Access | Times Cited: 9
Genomics of postvaccination SARS‐CoV‐2 infections during the Delta dominated second wave of COVID‐19 pandemic, from Mumbai Metropolitan Region (MMR), India
Kayzad Nilgiriwala, Pratibha Kadam, Grishma Patel, et al.
Journal of Medical Virology (2022) Vol. 94, Iss. 9, pp. 4206-4215
Open Access | Times Cited: 9

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