Mark Diekhans

62.3k total citations · 4 hit papers
52 papers, 6.7k citations indexed

About

Mark Diekhans is a scholar working on Molecular Biology, Genetics and Plant Science. According to data from OpenAlex, Mark Diekhans has authored 52 papers receiving a total of 6.7k indexed citations (citations by other indexed papers that have themselves been cited), including 45 papers in Molecular Biology, 17 papers in Genetics and 11 papers in Plant Science. Recurrent topics in Mark Diekhans's work include Genomics and Phylogenetic Studies (29 papers), RNA and protein synthesis mechanisms (19 papers) and Chromosomal and Genetic Variations (11 papers). Mark Diekhans is often cited by papers focused on Genomics and Phylogenetic Studies (29 papers), RNA and protein synthesis mechanisms (19 papers) and Chromosomal and Genetic Variations (11 papers). Mark Diekhans collaborates with scholars based in United States, United Kingdom and Germany. Mark Diekhans's co-authors include David Haussler, Robert Baertsch, Mario Stanke, Tommi Jaakkola, Rachel Karchin, Hiram Clawson, Robert M. Kuhn, Jonathan D. Casper, W. James Kent and Melissa Cline and has published in prestigious journals such as Science, Proceedings of the National Academy of Sciences and Nucleic Acids Research.

In The Last Decade

Mark Diekhans

51 papers receiving 6.6k citations

Hit Papers

align trajectories sort by overperformance

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.

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

2008 1.5k citations Mario Stanke, Mark Diekhans et al. Bioinformatics profile →
The UCSC Genome Browser database: 2019 update

2018 547 citations Maximilian Haeussler, Matthew L Speir et al. Nucleic Acids Research profile →
Segmental duplications and their variation in a complete human genome

2022 152 citations Mitchell R. Vollger, Xavi Guitart et al. Science profile →
The UCSC Genome Browser database: 2025 update

2024 113 citations Galt P Barber, Anna Benet‐Pagès et al. Nucleic Acids Research profile →

Author Peers

Peers are selected by citation overlap in the author's most active subfields. citations · hero ref

Author						Papers	Cites
Mark Diekhans	4.9k	1.5k	1.4k	891	346	52	6.7k
Arend Sidow	6.5k 1.3×	2.4k 1.6×	1.2k 0.9×	894 1.0×	201 0.6×	62	8.6k
Michael Brudno	6.3k 1.3×	2.3k 1.5×	1.4k 1.0×	913 1.0×	997 2.9×	137	9.1k
Robert Baertsch	3.7k 0.7×	1.3k 0.8×	1.7k 1.2×	476 0.5×	134 0.4×	21	5.1k
Marcel H. Schulz	3.9k 0.8×	1.3k 0.8×	849 0.6×	1.2k 1.3×	214 0.6×	98	5.5k
Mathieu Blanchette	5.3k 1.1×	1.7k 1.1×	1.3k 1.0×	496 0.6×	304 0.9×	125	6.4k
Brad Chapman	6.8k 1.4×	1.8k 1.2×	2.6k 1.9×	1.0k 1.2×	192 0.6×	47	9.6k
David B. Jaffe	7.8k 1.6×	2.5k 1.6×	1.7k 1.2×	1.0k 1.2×	300 0.9×	86	11.9k
Michael L. Metzker	5.0k 1.0×	1.8k 1.2×	755 0.6×	786 0.9×	157 0.5×	35	7.6k
Jian Ma	5.6k 1.1×	1.2k 0.8×	809 0.6×	1.5k 1.6×	339 1.0×	197	7.8k
Heinz Himmelbauer	3.5k 0.7×	1.3k 0.8×	1.4k 1.0×	637 0.7×	103 0.3×	129	5.7k

Countries citing papers authored by Mark Diekhans

Since Specialization

Citations

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

Fields of papers citing papers by Mark Diekhans

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Mark Diekhans

This figure shows the co-authorship network connecting the top 25 collaborators of Mark Diekhans. A scholar is included among the top collaborators of Mark Diekhans 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 Mark Diekhans. Mark Diekhans is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

Speir, Matthew L, Marc D. Perry, Richard D. Schwartz, et al.. (2025). Making genomic data FAIR through effective Data Portals. Scientific Data. 12(1). 1872–1872.

Barber, Galt P, Anna Benet‐Pagès, Jonathan D. Casper, et al.. (2024). The UCSC Genome Browser database: 2025 update. Nucleic Acids Research. 53(D1). D1243–D1249. 113 indexed citations breakdown →

Vollger, Mitchell R., Xavi Guitart, Philip C. Dishuck, et al.. (2022). Segmental duplications and their variation in a complete human genome. Science. 376(6588). eabj6965–eabj6965. 152 indexed citations breakdown →

Mulroney, Logan, Ira Schildkraut, George Tzertzinis, et al.. (2021). Identification of high-confidence human poly(A) RNA isoform scaffolds using nanopore sequencing. RNA. 28(2). 162–176. 17 indexed citations

Birgmeier, Johannes, Maximilian Haeussler, Cole A. Deisseroth, et al.. (2020). AMELIE speeds Mendelian diagnosis by matching patient phenotype and genotype to primary literature. Science Translational Medicine. 12(544). 56 indexed citations

Fiddes, Ian T., Joel Armstrong, Mark Diekhans, et al.. (2018). Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation. Genome Research. 28(7). 1029–1038. 60 indexed citations

Tunstall, Tate, Richard Kock, J. Váhala, et al.. (2018). Evaluating recovery potential of the northern white rhinoceros from cryopreserved somatic cells. Genome Research. 28(6). 780–788. 36 indexed citations

Gordon, David, John Huddleston, Mark Chaisson, et al.. (2016). Long-read sequence assembly of the gorilla genome. Science. 352(6281). aae0344–aae0344. 218 indexed citations

Ezkurdia, Iakes, David Juan, José Manuel Rodrı́guez, et al.. (2014). Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes. Human Molecular Genetics. 23(22). 5866–5878. 334 indexed citations

10.

Paten, Benedict, Mark Diekhans, Dent Earl, et al.. (2011). Cactus Graphs for Genome Comparisons. Journal of Computational Biology. 18(3). 469–481. 55 indexed citations

11.

Paten, Benedict, Dent Earl, Ngan Nguyen, et al.. (2011). Cactus: Algorithms for genome multiple sequence alignment. Genome Research. 21(9). 1512–1528. 138 indexed citations

12.

Stanke, Mario, Mark Diekhans, Robert Baertsch, & David Haussler. (2008). Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics. 24(5). 637–644. 1478 indexed citations breakdown →

13.

Baertsch, Robert, Mark Diekhans, W. James Kent, David Haussler, & Jürgen Brosius. (2008). Retrocopy contributions to the evolution of the human genome. BMC Genomics. 9(1). 466–466. 78 indexed citations

14.

Siepel, Adam, Mark Diekhans, Broňa Brejová, et al.. (2007). Targeted discovery of novel human exons by comparative genomics. Genome Research. 17(12). 1763–1773. 33 indexed citations

15.

Furey, Terrence S., Mark Diekhans, Yontao Lu, et al.. (2004). Analysis of Human mRNAs With the Reference Genome Sequence Reveals Potential Errors, Polymorphisms, and RNA Editing. Genome Research. 14(10b). 2034–2040. 29 indexed citations

16.

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

17.

Karplus, Kevin, Rachel Karchin, Jenny Draper, et al.. (2003). Combining local-structure, fold-recognition, and new fold methods for protein structure prediction. Proteins Structure Function and Bioinformatics. 53(S6). 491–496. 235 indexed citations

18.

Chiaromonte, Francesca, R. Weber, Krishna M. Roskin, et al.. (2003). The Share of Human Genomic DNA under Selection Estimated from Human-Mouse Genomic Alignments. Cold Spring Harbor Symposia on Quantitative Biology. 68(0). 245–254. 45 indexed citations

19.

Karplus, Kevin, Rachel Karchin, Christian Barrett, et al.. (2001). What is the value added by human intervention in protein structure prediction?. Proteins Structure Function and Bioinformatics. 45(S5). 86–91. 102 indexed citations

20.

Clarke, De A., Mark Diekhans, Saul Greenberg, et al.. (1997). Tcl/Tk tools. 7 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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