Simon Whelan

19.6k total citations · 2 hit papers
39 papers, 5.0k citations indexed

About

Simon Whelan is a scholar working on Molecular Biology, Genetics and Paleontology. According to data from OpenAlex, Simon Whelan has authored 39 papers receiving a total of 5.0k indexed citations (citations by other indexed papers that have themselves been cited), including 34 papers in Molecular Biology, 27 papers in Genetics and 13 papers in Paleontology. Recurrent topics in Simon Whelan's work include Genomics and Phylogenetic Studies (33 papers), Genetic diversity and population structure (24 papers) and Evolution and Paleontology Studies (13 papers). Simon Whelan is often cited by papers focused on Genomics and Phylogenetic Studies (33 papers), Genetic diversity and population structure (24 papers) and Evolution and Paleontology Studies (13 papers). Simon Whelan collaborates with scholars based in United Kingdom, Sweden and United States. Simon Whelan's co-authors include Nick Goldman, Kendal D. Hirschi, Laura R. Emery, Jon K. Pittman, Píetro Lió, Rasmus Nielsen, Benjamin P. Blackburne, Christian Peter Klingenberg, Sascha H. Duttke and Minsoo Kim and has published in prestigious journals such as Nucleic Acids Research, Bioinformatics and Genetics.

In The Last Decade

Simon Whelan

38 papers receiving 4.9k citations

Hit 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.

A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach

2001 2.3k citations Simon Whelan, Nick Goldman Molecular Biology and Evolution profile →
Protein Phylogenetic Analysis of Ca2+/cation Antiporters and Insights into their Evolution in Plants

2012 741 citations Laura R. Emery, Simon Whelan et al. Frontiers in Plant Science profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name	h						Papers	Cites
Simon Whelan United Kingdom	23	3.1k	1.4k	1.3k	621	435	39	5.0k
Ingo Ebersberger Germany	35	3.0k 1.0×	1.4k 1.0×	1.1k 0.8×	550 0.9×	362 0.8×	78	5.1k
Ari Löytynoja Finland	20	1.9k 0.6×	762 0.5×	1.0k 0.8×	633 1.0×	193 0.4×	44	3.2k
Corinne Da Silva France	36	1.9k 0.6×	1.2k 0.9×	490 0.4×	518 0.8×	437 1.0×	81	3.7k
Michael Suleski United States	5	1.8k 0.6×	863 0.6×	830 0.6×	583 0.9×	265 0.6×	7	3.5k
Si Quang Le United Kingdom	15	2.1k 0.7×	683 0.5×	793 0.6×	623 1.0×	245 0.6×	31	3.7k
Zefeng Yang China	35	3.6k 1.1×	3.2k 2.3×	2.6k 2.0×	523 0.8×	293 0.7×	123	6.9k
Xun Gu United States	34	3.1k 1.0×	1.2k 0.9×	1.2k 0.9×	347 0.6×	193 0.4×	106	4.8k
Vincent Ranwez France	29	2.6k 0.8×	941 0.7×	1.3k 1.0×	1.4k 2.3×	419 1.0×	59	4.2k
Éric Bapteste France	36	3.4k 1.1×	744 0.5×	1.2k 0.9×	1.7k 2.8×	347 0.8×	99	4.8k
Federico Abascal Spain	23	3.2k 1.0×	920 0.7×	836 0.6×	795 1.3×	165 0.4×	37	5.3k

Countries citing papers authored by Simon Whelan

Since Specialization

Citations

This map shows the geographic impact of Simon Whelan'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 Simon Whelan with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Simon Whelan more than expected).

Fields of papers citing papers by Simon Whelan

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Simon Whelan. 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 Simon Whelan. The network helps show where Simon Whelan may publish in the future.

Co-authorship network of co-authors of Simon Whelan

This figure shows the co-authorship network connecting the top 25 collaborators of Simon Whelan. A scholar is included among the top collaborators of Simon Whelan 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 Simon Whelan. Simon Whelan 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

Irisarri, Iker, Fabien Burki, & Simon Whelan. (2020). Automated Removal of Non-homologous Sequence Stretches with PREQUAL. Methods in molecular biology. 2231. 147–162.

Whelan, Simon & David A. Morrison. (2016). Inferring Trees. Methods in molecular biology. 1525. 349–377. 6 indexed citations

Talavera, David, Simon C. Lovell, & Simon Whelan. (2015). Covariation Is a Poor Measure of Molecular Coevolution. Molecular Biology and Evolution. 32(9). 2456–2468. 39 indexed citations

Hossain, Arman, et al.. (2015). Evidence of Statistical Inconsistency of Phylogenetic Methods in the Presence of Multiple Sequence Alignment Uncertainty. Genome Biology and Evolution. 7(8). 2102–2116. 12 indexed citations

Money, Daniel & Simon Whelan. (2015). GeLL: a generalized likelihood library for phylogenetic models. Bioinformatics. 31(14). 2391–2393. 1 indexed citations

García-Pereira, María Jesús, Antonio Carvajal‐Rodríguez, Simon Whelan, Armando Caballero, & Humberto Quesada. (2014). Impact of deep coalescence and recombination on the estimation of phylogenetic relationships among species using AFLP markers. Molecular Phylogenetics and Evolution. 76. 102–109. 3 indexed citations

Allen, James E. & Simon Whelan. (2014). Assessing the State of Substitution Models Describing Noncoding RNA Evolution. Genome Biology and Evolution. 6(1). 65–75. 19 indexed citations

Whelan, Simon, James E. Allen, Benjamin P. Blackburne, & David Talavera. (2014). ModelOMatic: Fast and Automated Model Selection between RY, Nucleotide, Amino Acid, and Codon Substitution Models. Systematic Biology. 64(1). 42–55. 38 indexed citations

Emery, Laura R., Simon Whelan, Kendal D. Hirschi, & Jon K. Pittman. (2012). Protein Phylogenetic Analysis of Ca2+/cation Antiporters and Insights into their Evolution in Plants. Frontiers in Plant Science. 3. 1–1. 741 indexed citations breakdown →

10.

Blackburne, Benjamin P. & Simon Whelan. (2012). Class of Multiple Sequence Alignment Algorithm Affects Genomic Analysis. Molecular Biology and Evolution. 30(3). 642–653. 49 indexed citations

11.

Whelan, Simon, Benjamin P. Blackburne, & Matthew Spencer. (2010). Phylogenetic Substitution Models for Detecting Heterotachy during Plastid Evolution. Molecular Biology and Evolution. 28(1). 449–458. 11 indexed citations

12.

Gorsi, Bushra, Simon Whelan, & Sally E. Stringer. (2010). Dynamic expression patterns of 6‐O endosulfatases during zebrafish development suggest a subfunctionalisation event for sulf2. Developmental Dynamics. 239(12). 3312–3323. 20 indexed citations

13.

Whelan, Simon. (2008). Spatial and Temporal Heterogeneity in Nucleotide Sequence Evolution. Molecular Biology and Evolution. 25(8). 1683–1694. 30 indexed citations

14.

Whelan, Simon. (2008). Inferring Trees. Methods in molecular biology. 452. 287–309. 12 indexed citations

15.

Kosiol, Carolin, et al.. (2005). Phylogenetics by likelihood: Evolutionary modeling as a tool for understanding the genome. Journal of Biomedical Informatics. 39(1). 51–61. 22 indexed citations

16.

Whelan, Simon, Paul I. W. de Bakker, & Nick Goldman. (2003). Pandit: a database of protein and associated nucleotide domains with inferred trees. Bioinformatics. 19(12). 1556–1563. 38 indexed citations

17.

Hardison, Ross C., Krishna M. Roskin, Shan Yang, et al.. (2003). Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution. Genome Research. 13(1). 13–26. 241 indexed citations

18.

Whelan, Simon, Píetro Lió, & Nick Goldman. (2001). Molecular phylogenetics: state-of-the-art methods for looking into the past. Trends in Genetics. 17(5). 262–272. 278 indexed citations

19.

Whelan, Simon & Nick Goldman. (2001). A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach. Molecular Biology and Evolution. 18(5). 691–699. 2258 indexed citations breakdown →

20.

Hagelberg, E., Nick Goldman, Píetro Lió, et al.. (1999). Evidence for mitochondrial DNA recombination in a human population of island Melanesia. Proceedings of the Royal Society B Biological Sciences. 266(1418). 485–492. 120 indexed citations

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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