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Scopus Author ID: 12804428600

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Employment (1)

University of Oxford: Oxford, Oxfordshire, GB

(Dept. of Plant Sciences)
Employment
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ORCID Integration at the University of Oxford

Works (33)

SHOOT: phylogenetic gene search and ortholog inference

Genome Biology
2022-12 | Journal article
DOI: 10.1186/s13059-022-02652-8
Contributors: David Mark Emms; Steven Kelly
Source: check_circle
Crossref

GENESPACE tracks regions of interest and gene copy number variation across multiple genomes

eLife
2022-09-09 | Journal article
DOI: 10.7554/eLife.78526
Contributors: John T Lovell; Avinash Sreedasyam; M Eric Schranz; Melissa Wilson; Joseph W Carlson; Alex Harkess; David Emms; David M Goodstein; Jeremy Schmutz
Source: check_circle
Crossref

Rubisco is evolving for improved catalytic efficiency and CO2assimilation in plants

2022-07-06 | Preprint
DOI: 10.1101/2022.07.06.498985
Contributors: Jacques W. Bouvier; David M. Emms; Steven Kelly
Source: check_circle
Crossref

Conditional stomatal closure in a fern shares molecular features with flowering plant active stomatal responses

Current Biology
2021-10 | Journal article
DOI: 10.1016/j.cub.2021.08.008
Contributors: Andrew R.G. Plackett; David M. Emms; Steven Kelly; Alistair M. Hetherington; Jane A. Langdale
Source: check_circle
Crossref

SHOOT: phylogenetic gene search and ortholog inference

2021-09-03 | Other
DOI: 10.1101/2021.09.01.458564
Contributors: D.M. Emms; S. Kelly
Source: check_circle
Crossref

Rubisco Adaptation Is More Limited by Phylogenetic Constraint Than by Catalytic Trade-off

Molecular Biology and Evolution
2021-06-25 | Journal article
DOI: 10.1093/molbev/msab079
Contributors: Jacques W Bouvier; David M Emms; Timothy Rhodes; Jai S Bolton; Amelia Brasnett; Alice Eddershaw; Jochem R Nielsen; Anastasia Unitt; Spencer M Whitney; Steven Kelly et al.
Source: check_circle
Crossref

Conditional Stomatal Closure in a Fern Shares Molecular Features with Flowering Plant Active Stomatal Responses

2021-03-08 | Other
DOI: 10.1101/2021.03.06.434194
Contributors: Andrew R.G. Plackett; David M. Emms; Steven Kelly; Alistair M. Hetherington; Jane A. Langdale
Source: check_circle
Crossref

Rubisco adaptation is more limited by phylogenetic constraint than by catalytic trade-off

2020-09-16 | Preprint
DOI: 10.1101/2020.09.15.298075
Contributors: Jacques W. Bouvier; David M. Emms; Timothy Rhodes; Jai S. Bolton; Amelia Brasnett; Alice Eddershaw; Jochem R. Nielsen; Anastasia Unitt; Spencer M. Whitney; Steven Kelly
Source: check_circle
Crossref

Benchmarking Orthogroup Inference Accuracy: Revisiting Orthobench

2020-07-10 | Preprint
DOI: 10.1101/2020.07.09.195586
Contributors: D.M. Emms; S. Kelly
Source: check_circle
Crossref

The Quest for Orthologs benchmark service and consensus calls in 2020

Nucleic Acids Research
2020-07-02 | Journal article
DOI: 10.1093/nar/gkaa308
Contributors: Adrian M Altenhoff; Javier Garrayo-Ventas; Salvatore Cosentino; David Emms; Natasha M Glover; Ana Hernández-Plaza; Yannis Nevers; Vicky Sundesha; Damian Szklarczyk; José M Fernández et al.
Source: check_circle
Crossref

Gene expression data support the hypothesis that Isoetes rootlets are true roots and not modified leaves

2019-12-18 | Other
DOI: 10.1101/2019.12.16.878298
Contributors: Alexander J. Hetherington; David M. Emms; Steven Kelly; Liam Dolan
Source: check_circle
Crossref

OrthoFinder: phylogenetic orthology inference for comparative genomics

2018-11-08 | Other
DOI: 10.1101/466201
Contributors: David M. Emms; Steven Kelly
Source: check_circle
Crossref

Gene duplication accelerates the pace of protein gain and loss from plant organelles

2018-09-12 | Other
DOI: 10.1101/415125
Contributors: Rona Costello; David M. Emms; Steven Kelly
Source: check_circle
Crossref

STAG: Species Tree Inference from All Genes

2018-02-19 | Other
DOI: 10.1101/267914
Contributors: D.M. Emms; S. Kelly
Source: check_circle
Crossref

STRIDE: Species Tree Root Inference from Gene Duplication Events

2017-05-19 | Preprint
DOI: 10.1101/140020
Contributors: David M. Emms; Steven Kelly
Source: check_circle
Crossref

Independent and Parallel Evolution of New Genes by Gene Duplication in Two Origins of C4 Photosynthesis Provides New Insight into the Mechanism of Phloem Loading in C4 Species.

2016-07 | Journal article
DOI: 10.1093/molbev/msw057
PMID: 27016024
PMC: PMC4915358
Contributors: Emms DM; Covshoff S; Hibberd JM; Kelly S
Source: Self-asserted source
David Emms via Europe PubMed Central

Corrigendum to "Coined quantum walks lift the cospectrality of graphs and trees" [Pattern Recognition 42 (9) (2009) 1988-2002]

Pattern Recognition
2015 | Journal article
DOI: 10.1016/j.patcog.2014.08.022
EID:

2-s2.0-84920664045
Contributors: Emms, D.; Severini, S.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy.

2015 | Journal article
DOI: 10.1186/s13059-015-0721-2
PMID: 26243257
PMC: PMC4531804
Contributors: Emms DM; Kelly S
Source: Self-asserted source
David Emms via Europe PubMed Central

Quantum walks, Ihara zeta functions and cospectrality in regular graphs

Quantum Information Processing
2011 | Journal article
DOI: 10.1007/s11128-010-0205-y
EID:

2-s2.0-79956092694
Contributors: Ren, P.; Aleksić, T.; Emms, D.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Coined quantum walks lift the cospectrality of graphs and trees

Pattern Recognition
2009 | Journal article
DOI: 10.1016/j.patcog.2008.10.025
EID:

2-s2.0-67349095041
Contributors: Emms, D.; Severini, S.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Erratum to: Graph matching using the interference of continuous-time quantum walks [Pattern Recognition 42 (5) 985-1002] (DOI:10.1016/j.patcog.2008.09.001)

Pattern Recognition
2009 | Journal article
DOI: 10.1016/j.patcog.2009.01.029
EID:

2-s2.0-67349142353
Contributors: Emms, D.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph embedding using a quasi - quantum analogue of the hitting times of continuous time quantum walks

Quantum Information and Computation
2009 | Journal article
EID:

2-s2.0-66449125018
Contributors: Emms, D.M.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph matching using the interference of continuous-time quantum walks

Pattern Recognition
2009 | Journal article
DOI: 10.1016/j.patcog.2008.09.001
EID:

2-s2.0-58249085186
Contributors: Emms, D.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph matching using the interference of discrete-time quantum walks

Image and Vision Computing
2009 | Journal article
DOI: 10.1016/j.imavis.2008.10.013
EID:

2-s2.0-64849099581
Contributors: Emms, D.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph drawing using quantum commute time

Proceedings - International Conference on Pattern Recognition
2008 | Conference paper
EID:

2-s2.0-77957945950
Contributors: Emms, D.; Hancock, E.; Wilson, R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph edit distance without correspondence from continuous-time quantum walks

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2008 | Book
DOI: 10.1007/978-3-540-89689-0_5
EID:

2-s2.0-58349120845
Contributors: Emms, D.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

A correspondence measure for graph matching using the discrete quantum walk

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2007 | Book
EID:

2-s2.0-38149110459
Contributors: Emms, D.; Hancock, E.R.; Wilson, R.C.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph embedding using quantum commute times

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2007 | Book
EID:

2-s2.0-38149100023
Contributors: Emms, D.; Wilson, R.C.; Hancock, E.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph similarity using interfering quantum walks

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2007 | Book
EID:

2-s2.0-38149059688
Contributors: Emms, D.; Hancock, E.R.; Wilson, R.C.
Source: Self-asserted source
David Emms via Scopus - Elsevier

A matrix representation of graphs and its spectrum as a graph invariant

Electronic Journal of Combinatorics
2006 | Journal article
EID:

2-s2.0-33645654719
Contributors: Emms, D.; Hancock, E.R.; Severini, S.; Wilson, R.C.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Graph matching using interference of coined quantum walks

Proceedings - International Conference on Pattern Recognition
2006 | Conference paper
DOI: 10.1109/ICPR.2006.615
EID:

2-s2.0-34147168696
Contributors: Emms, D.; Hancock, E.; Wilson, R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Coined quantum walks lift the cospectrality of graphs and trees

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2005 | Book
DOI: 10.1007/11585978_22
EID:

2-s2.0-33646559979
Contributors: Emms, D.; Severini, S.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Towards unitary representations for graph matching

Lecture Notes in Computer Science
2005 | Conference paper
EID:

2-s2.0-24644507252
Contributors: Emms, D.; Severini, S.; Wilson, R.C.; Hancock, E.R.
Source: Self-asserted source
David Emms via Scopus - Elsevier

Peer review (1 review for 1 publication/grant)

Review activity for Algorithms for molecular biology (1)
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