Anton Nekrutenko

26.3k total citations · 10 hit papers
87 papers, 14.6k citations indexed

About

Anton Nekrutenko is a scholar working on Molecular Biology, Information Systems and Management and Ecology. According to data from OpenAlex, Anton Nekrutenko has authored 87 papers receiving a total of 14.6k indexed citations (citations by other indexed papers that have themselves been cited), including 67 papers in Molecular Biology, 22 papers in Information Systems and Management and 12 papers in Ecology. Recurrent topics in Anton Nekrutenko's work include Genomics and Phylogenetic Studies (42 papers), RNA and protein synthesis mechanisms (22 papers) and Scientific Computing and Data Management (22 papers). Anton Nekrutenko is often cited by papers focused on Genomics and Phylogenetic Studies (42 papers), RNA and protein synthesis mechanisms (22 papers) and Scientific Computing and Data Management (22 papers). Anton Nekrutenko collaborates with scholars based in United States, Germany and United Kingdom. Anton Nekrutenko's co-authors include James Taylor, Jeremy Goecks, Daniel Blankenberg, Wen‐Hsiung Li, Enis Afgan, Dave Bouvier, Dave Clements, Gregory Von Kuster, Dannon Baker and Nate Coraor and has published in prestigious journals such as Nature, Proceedings of the National Academy of Sciences and Nucleic Acids Research.

In The Last Decade

Anton Nekrutenko

84 papers receiving 14.3k citations

Hit Papers

5 papers align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

2010 2.6k citations Anton Nekrutenko, James Taylor et al. Genome biology profile →
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update

2018 2.4k citations Dannon Baker, Bérénice Batut et al. Nucleic Acids Research profile →
Galaxy: A platform for interactive large-scale genome analysis

2005 1.5k citations Belinda Giardine, Cathy Riemer et al. Genome Research profile →
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update

2016 1.5k citations Dannon Baker, Marius van den Beek et al. Nucleic Acids Research profile →
Galaxy: A Web‐Based Genome Analysis Tool for Experimentalists

2010 1.1k citations Daniel Blankenberg, Guruprasad Ananda et al. profile →
Manipulation of FASTQ data with Galaxy

2010 520 citations Daniel Blankenberg, James Taylor et al. Bioinformatics profile →
Ten Simple Rules for Reproducible Computational Research

2013 418 citations Geir Kjetil Sandve, Anton Nekrutenko et al. PLoS Computational Biology profile →
HyPhy 2.5—A Customizable Platform for Evolutionary Hypothesis Testing Using Phylogenies

2019 367 citations Sergei L. Kosakovsky Pond, Steven Weaver et al. Molecular Biology and Evolution profile →
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update

2020 316 citations Dave Clements, Daniel Blankenberg et al. Nucleic Acids Research profile →
Sequencing error profiles of Illumina sequencing instruments

2021 223 citations Nicholas Stoler, Anton Nekrutenko NAR Genomics and Bioinformatics profile →

Peers

Countries citing papers authored by Anton Nekrutenko

Since Specialization

Citations

This map shows the geographic impact of Anton Nekrutenko's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Anton Nekrutenko with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Anton Nekrutenko more than expected).

Fields of papers citing papers by Anton Nekrutenko

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Anton Nekrutenko. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Anton Nekrutenko. The network helps show where Anton Nekrutenko may publish in the future.

Co-authorship network of co-authors of Anton Nekrutenko

This figure shows the co-authorship network connecting the top 25 collaborators of Anton Nekrutenko. A scholar is included among the top collaborators of Anton Nekrutenko based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Anton Nekrutenko. Anton Nekrutenko is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

#	Work	Indexed citations
1	Evaluation of sequencing reads at scale using rdeval 2025 ·Bioinformatics ·Giulio Formenti, Bonhwang Koo, (unknown), Jennifer Balacco, Nadolina Brajuka, Richard Burhans, (unknown), Alice Maria Giani, (unknown), (unknown), Eugene W. Myers, (unknown), Anton Nekrutenko, Erich D. Jarvis	0
2	KegAlign: optimizing pairwise alignments with diagonal partitioning 2025 ·Genome biology ·(unknown), Richard Burhans, Robert Harris, Mahmut Kandemir, Maximilian Haeussler, Anton Nekrutenko	0
3	The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond 2023 ·Genome Research ·Simon Bray, John Chilton, Matthias Bernt, Nicola Soranzo, Marius van den Beek, Bérénice Batut, Helena Rasche, Martin Čech, Peter Cock, Björn Grüning, Anton Nekrutenko	4
4	Increased yields of duplex sequencing data by a series of quality control tools 2021 ·NAR Genomics and Bioinformatics ·Gundula Povysil, (unknown), Renato Salazar, Nicholas Stoler, Anton Nekrutenko, Irene Tiemann‐Boege	4
5	Stepwise Evolution and Exceptional Conservation of ORF1a/b Overlap in Coronaviruses 2021 ·Molecular Biology and Evolution ·Mei Han, Sergei L. Kosakovsky Pond, Anton Nekrutenko	6
6	Fostering accessible online education using Galaxy as an e-learning platform 2021 ·PLoS Computational Biology ·Beatriz Serrano‐Solano, Melanie Christine Föll, Cristóbal Gallardo Alba, Anika Erxleben, Helena Rasche, Saskia Hiltemann, Matthias Fahrner, Mark Dunning, Marcel H. Schulz, Beáta Scholtz, Dave Clements, Anton Nekrutenko, Bérénice Batut, Björn Grüning	8
7	No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics 2020 ·PLoS Pathogens ·Dannon Baker, Marius van den Beek, Daniel Blankenberg, Dave Bouvier, John Chilton, Nate Coraor, Frederik Coppens, Ignacio Eguinoa, Simon Gladman, Björn Grüning, (unknown), Delphine Larivière, Andrew Lonie, Sergei L. Kosakovsky Pond, Wolfgang Maier, Anton Nekrutenko, James Taylor, Steven Weaver	17
8	Jupyter and Galaxy: Easing entry barriers into complex data analyses for biomedical researchers 2017 ·PLoS Computational Biology ·Björn Grüning, (unknown), Boris Rebolledo‐Jaramillo, Carl Eberhard, Torsten Houwaart, John Chilton, Nate Coraor, Rolf Backofen, James Taylor, Anton Nekrutenko	51
9	Streamlined analysis of duplex sequencing data with Du Novo 2016 ·Genome biology ·Nicholas Stoler, Barbara Arbeithuber, Wilfried M. Guiblet, Kateryna D. Makova, Anton Nekrutenko	20
10	Ten Simple Rules for Reproducible Computational Research breakdown → 2013 ·PLoS Computational Biology ·Geir Kjetil Sandve, Anton Nekrutenko, James Taylor, Eivind Hovig	418
11	The anatomy of successful computational biology software 2013 ·Nature Biotechnology ·Stephen F. Altschul, Barry Demchak, Richard Durbin, Robert Gentleman, Martin Krzywinski, Heng Li, Anton Nekrutenko, James Robinson, Wayne Rasband, James Taylor, Cole Trapnell	18
12	RNA–DNA differences in human mitochondria restore ancestral form of 16S ribosomal RNA 2013 ·Genome Research ·Dan Bar-Yaacov, Gal Avital, Liron Levin, Allison L. Richards, (unknown), Boris Rebolledo‐Jaramillo, Anton Nekrutenko, Raz Zarivach, Dan Mishmar	41
13	Windshield splatter analysis with the Galaxy metagenomic pipeline 2009 ·Genome Research ·Sergei L. Kosakovsky Pond, Samir Wadhawan, Francesca Chiaromonte, Guruprasad Ananda, Wen-Yu Chung, James Taylor, Anton Nekrutenko, (unknown)	55
14	A First Look at ARFome: Dual-Coding Genes in Mammalian Genomes 2007 ·PLoS Computational Biology ·Wen‐Yu Chung, Samir Wadhawan, Radek Szklarczyk, Sergei L. Kosakovsky Pond, Anton Nekrutenko	51
15	mNSC1 shows no evidence of protein-coding capacity 2006 ·Gene ·Clare Wilson, (unknown), Anton Nekrutenko	2
16	Galaxy: A platform for interactive large-scale genome analysis breakdown → 2005 ·Genome Research ·Belinda Giardine, Cathy Riemer, Ross C. Hardison, Richard Burhans, Laura Elnitski, Prachi Shah, Yi Zhang, Daniel Blankenberg, István Albert, James Taylor, Webb Miller, W. James Kent, Anton Nekrutenko	1541
17	Reconciling the Numbers: ESTs Versus Protein-Coding Genes 2004 ·Molecular Biology and Evolution ·Anton Nekrutenko	15
18	ETOPE: evolutionary test of predicted exons 2003 ·Nucleic Acids Research ·Anton Nekrutenko	17
19	Signatures of Domain Shuffling in the Human Genome 2002 ·Genome Research ·Henrik Kaessmann, Sebastian Zöllner, Anton Nekrutenko, Wen‐Hsiung Li	76
20	The K_A/K_S Ratio Test for Assessing the Protein-Coding Potential of Genomic Regions: An Empirical and Simulation Study 2001 ·Genome Research ·Anton Nekrutenko, Kateryna D. Makova, Wen‐Hsiung Li	231

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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