Daniel S. Rokhsar

82.1k citations

160 papers · 22.3k indexed · 15 hit papers · h-index 64

Impact in

Horticulture top 0.5%
Condensed Matter Physics top 0.5%
- Physics of Superconductivity and Magnetism

Papers in

Horticulture 3
Condensed Matter Physics 23
- Physics of Superconductivity and Magnetism 18
- Advanced Condensed Matter Physics 10

Co-authors: Steven A. Kivelson Nicholas H. Putnam Therese Mitros Uffe Hellsten Jarrod Chapman David Goodstein Shengqiang Shu Richard D. Hayes
Journals: Physical review. B, Condensed matter (20 papers)Nature (11 papers)Physical Review Letters (10 papers)Proceedings of the National Academy of Sciences (8 papers)Nature Communications (5 papers)
Partner nations: United States Japan United Kingdom

In The Last Decade

Daniel S. Rokhsar

158 papers receiving 21.8k citations

Hit Papers

15 papers align trajectories log scale

Ancient gene linkages support ctenophores as sister to other animals 2023 · 174 citations

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if any of the following hold:

it has ≥500 total citations;
it reaches ≥1.5× the top-1% citation threshold for papers in the same subfield and year (the threshold is the minimum needed to enter the top 1%, not the average within it);
it reaches the top citation threshold in at least one of its specific research topics.

2023 Nature
2020 Nature Ecology & Evolution
2018 Nature
2016 Genome Research
2015 Nature
2011 Nucleic Acids Research
2008 Nature
2008 Proceedings of the National Academy of Sciences
2007 Science
2004 Nature
2004 Nature Biotechnology
2004 Science
1992 Physics Today
1988 Physical Review Letters
1987 Physical review. B, Condensed matter

Peers

Countries citing papers authored by Daniel S. Rokhsar

Since Specialization

Citations

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

Fields of papers citing papers by Daniel S. Rokhsar

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Daniel S. Rokhsar. 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 Daniel S. Rokhsar. The network helps show where Daniel S. Rokhsar may publish in the future.

Co-authors

The 25 scholars most cited alongside Daniel S. Rokhsar, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with Daniel S. Rokhsar Line = papers co-authored together Daniel S. Rokhsar links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	A single-cell atlas of the bobtail squid visual and nervous system highlights molecular principles of convergent evolution Nature Ecology & Evolution ·Daria Gavriouchkina, Yongkai Tan, Elise Parey, Manisurya Kumar M, Yuko Hasegawa, Anang Dony Irawan, Lin Zhang, Xie Jia-jun, Nicholas M. Luscombe, Ferdinand Marlétaz, Daniel S. Rokhsar	2025	1
2	The genomic origin of the unique chaetognath body plan Nature ·Anang Dony Irawan, Daria Gavriouchkina, Elise Parey, Luke A. Sarre, Katja T. C. A. Peijnenburg, José M. Martín‐Durán, Daniel S. Rokhsar, Noriyuki Satoh, Alex de Mendoza, Taichiro Goto, Ferdinand Marlétaz	2025	2
3	Population Genomics Reveals Local Adaptation Related to Temperature Variation in Two Stream Frog Species: Implications for Vulnerability to Climate Warming Molecular Ecology ·Brenna R. Forester, Sahil Kumar Manjilkar, Alisha A. Shah, 炳元張, Eric C. Anderson, Jessen V. Bredeson, Andrew J. Crawford, Jason B. Dunham, Cameron K. Ghalambor, Erin L. Landguth, Brent W. Murray, Daniel S. Rokhsar, W. Chris Funk	2025	1
4	Ancient gene linkages support ctenophores as sister to other animals Nature ·Darrin T. Schultz, Steven H. D. Haddock, Jessen V. Bredeson, Richard E. Green, Oleg Simakov, Daniel S. Rokhsar Hit paper breakdown →	2023	174
5	Transposon signatures of allopolyploid genome evolution Nature Communications ·Adam M. Session, Daniel S. Rokhsar	2023	21
6	Current status and impending progress for cassava structural genomics Plant Molecular Biology ·Jessica B. Lyons, Jessen V. Bredeson, Ben N. Mansfeld, Guillaume Bauchet, Jeffrey C. Berry, 陳昇宏, Lukas A. Mueller, Daniel S. Rokhsar, Rebecca Bart	2021	19
7	Deeply conserved synteny resolves early events in vertebrate evolution Nature Ecology & Evolution ·Oleg Simakov, Ferdinand Marlétaz, Jia‐Xing Yue, Brendan L. O’Connell, Jerry Jenkins, Alexander Brandt, Robert Calef, Che‐Huang Tung, Fini Ummul Wafa, Jeremy Schmutz, Nori Satoh, Jr‐Kai Yu, Nicholas H. Putnam, Richard E. Green, Daniel S. Rokhsar Hit paper breakdown →	2020	231
8	Acoel genome reveals the regulatory landscape of whole-body regeneration Science ·Andrew R. Gehrke, Peter C. Knudson, Yi‐Jyun Luo, Alexander Brandt, Lorenzo Ricci, Ryan E. Hulett, Annika Gompers, J. Graham Ruby, Daniel S. Rokhsar, Peter W. Reddien, Mansi Srivastava	2019	104
9	Chromosome-scale shotgun assembly using an in vitro method for long-range linkage Genome Research ·Nicholas H. Putnam, Brendan L. O’Connell, Kyu-Ho 조규호Cho, Brandon Rice, Marco Blanchette, Robert Calef, Christopher J. Troll, Andrew J. Fields, Paul D. Hartley, Charles W. Sugnet, David Haussler, Daniel S. Rokhsar, Richard E. Green Hit paper breakdown →	2016	468
10	The genetics of divergence and reproductive isolation between ecotypes of Panicum hallii New Phytologist ·David B. Lowry, Kyle M. Hernandez, Samuel H. Taylor, Eli Meyer, 明比古田村, Kerrie Barry, Jarrod Chapman, Daniel S. Rokhsar, Jeremy Schmutz, Thomas Juenger	2014	53
11	InterMine Webservices for Phytozome eScholarship (California Digital Library) ·Joseph W. Carlson, V. I. Zezekalo, David Goodstein, Daniel S. Rokhsar	2014	0
12	Fine-scale variation in meiotic recombination in Mimulus inferred from population shotgun sequencing Proceedings of the National Academy of Sciences ·Uffe Hellsten, Kevin M. Wright, Jerry Jenkins, Shengqiang Shu, Yao‐Wu Yuan, Susan R. Wessler, Jeremy Schmutz, John H. Willis, Daniel S. Rokhsar	2013	142
13	Early evolution of the LIM homeobox gene family SHILAP Revista de lepidopterología ·(unknown), (unknown), (unknown), (unknown), (unknown), (unknown), Daniel S. Rokhsar	2010	59
14	Promoter elements associated with RNA Pol II stalling in the Drosophila embryo Proceedings of the National Academy of Sciences ·David A. Hendrix, Joung‐Woo Hong, Julia Zeitlinger, Daniel S. Rokhsar, Michael Levine	2008	133
15	The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome Proceedings of the National Academy of Sciences ·David A. Sela, Jarrod Chapman, K. Szwedziak, Jae‐Han Kim, Fuhong Chen, Terence R. Whitehead, Alla Lapidus, Daniel S. Rokhsar, Carlito B. Lebrilla, J. Bruce German, Neil P. J. Price, Paul M. Richardson, David A. Mills Hit paper breakdown →	2008	682
16	Sequence and genetic map of Meloidogyne hapla : A compact nematode genome for plant parasitism Proceedings of the National Academy of Sciences ·Charles Opperman, David M. Bird, Valerie M. Williamson, Daniel S. Rokhsar, Mark Burke, Jonathan Cohn, CA Bertram, Sol Enith Gómez Domingo, Leonard Lee Rue, Lolita Manurung, Petra Moussa, Qingli Liu, Therese Mitros, Jennifer E. Schaff, Monique Ryan, Elizabeth H. Scholl, Bryon Sosinski, Varghese P. Thomas, Xingtai Gui	2008	324
17	Sea Anemone Genome Reveals Ancestral Eumetazoan Gene Repertoire and Genomic Organization Science ·Nicholas H. Putnam, Mansi Srivastava, Uffe Hellsten, Susanna Joo, Jarrod Chapman, Asaf Salamov, Astrid Terry, Harris Shapiro, Erika Lindquist, Vladimir V. Kapitonov, Jerzy Jurka, Grigory Genikhovich, Igor V. Grigoriev, Susan Lucas, Robert E. Steele, John R. Finnerty, Ulrich Technau, Mark Q. Martindale, Daniel S. Rokhsar Hit paper breakdown →	2007	1165
18	Transcription factor binding site identification using the self-organizing map Computer applications in the biosciences ·Shaun Mahony, David A. Hendrix, Aaron Golden, Terry Smith, Daniel S. Rokhsar	2005	50
19	Reverse Methanogenesis: Testing the Hypothesis with Environmental Genomics Science ·Steven Hallam, Nicholas H. Putnam, Christina M. Preston, John C. Detter, Daniel S. Rokhsar, Paul M. Richardson, Edward F. DeLong Hit paper breakdown →	2004	501
20	Finishing The Euchromatic Sequence Of The Human Genome Nature ·Edward M. Rubin, Susan Lucas, Paul Richardson, Daniel S. Rokhsar, L Pennacchio	2004	43

About Daniel S. Rokhsar

Daniel S. Rokhsar is a scholar working on Horticulture, Condensed Matter Physics, Plant Science, Aging and Paleontology, having authored 160 papers that have together received 22.3k indexed citations. Recurring topics across this work include Genomics and Phylogenetic Studies (38 papers), Chromosomal and Genetic Variations (21 papers), Physics of Superconductivity and Magnetism (18 papers), Marine Ecology and Invasive Species (17 papers), Developmental Biology and Gene Regulation (14 papers), Genetic diversity and population structure (13 papers), Quantum, superfluid, helium dynamics (11 papers) and Advanced Condensed Matter Physics (10 papers). The work is most often cited by research in Horticulture (194 citations), Condensed Matter Physics (2.3k citations), Plant Science (6.6k citations), Paleontology (1.3k citations) and Molecular Biology (10.6k citations). Daniel S. Rokhsar has collaborated with scholars based in United States, Japan and United Kingdom. Frequent co-authors include Steven A. Kivelson, Nicholas H. Putnam, Therese Mitros, Uffe Hellsten, Jarrod Chapman, David Goodstein, Shengqiang Shu, Richard D. Hayes, Russell W. Howson and Vijay S. Pande. Their work appears in journals such as Physical review. B, Condensed matter, Nature, Physical Review Letters, Proceedings of the National Academy of Sciences and Nature Communications.

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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