Recent publications, preprints, reprints, and reports

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Publications

Reports

Technical Reports

 


in press or in review

Get preprintRoderic Page and Gabriel Valiente (submitted) An Edit Script for Taxonomic Classifications. WABI 2005.[Software]

 


2005

Get preprintPage, RDM (2005). A Taxonomic Search Engine: Federating taxonomic databases using web services, BMC Bioinformatics 2005, 6:48 doi:10.1186/1471-2105-6-48 [Project web site]

Get preprintCotton, JA and Page, RDM, Rates and patterns of gene duplication and loss in the human genome, Proc Roy Soc 272:277 - 283 [doi:10.1098/rspb.2004.2969]


2004

Get preprintCharles Semple, Philip Daniel, Wim Hordijk, Roderic D. M. Page, and
Mike Steel (2004) Supertree Algorithms for Ancestral Divergence Dates and Nested Taxa. Bioinformatics 20:2355-60[Supertree server][PubMed]

Get preprintRoderic D. M. Page: Phyloinformatics: Towards a Phylogenetic Database", in "Data Mining in Bioinformatics" (edited by Jason Wang, et al.).Pages 219-241[Book web site]

Get preprintRoderic D. M. Page, (2004) "Taxonomy, supertrees, and the Tree of Life", in "Phylogenetic Supertrees: Combining information to reveal the tree of life" (edited by Olaf Bininda-Emonds), pages 247-265.[Project web site][Book web site]

Get preprintRoderic D. M. Page Towards a Taxonomically Intelligent Phylogenetic Database. Technical Reports in Taxonomy 04-01 (paper to be given at DBiBD at Edinburgh, january 8-9 2005 [PDF]

Vincent S. Smith, Roderic D. M. Page, Kevin P. Johnson (2004). Data incongruence and the problem of avian louse phylogeny. Zoologica Scripta, 33 , 239 -259. [doi:10.1111/j.0300-3256.2004.00149.x ]

Get preprintPercy, D.M., Page, R. D. M., and Cronk, Q. C. B. (2004). Plant–Insect Interactions: Double-Dating Associated Insect and Plant Lineages Reveals Asynchronous Radiations. Systematic Biology 53:120-127. [doi:10.1080/10635150490264996] [OpenURL]

Get preprintRoderic D. M. Page, Robert H. Cruickshank, Megan Dickens, Robert W. Furness, Martyn Kennedy, Ricardo L. Palma, and Vincent S. Smith (2004). Phylogeny of “Philoceanus-complex” seabird lice (Phthiraptera: Ischnocera) inferred from mitochondrial DNA sequences. Molecular Phylogenetics and Evolution.[data] [doi:10.1016/S1055-7903(03)00227-6]

 


2003

Get preprintCotton, J. A. and R D M. Page. Gene tree parsimony vs. uninode coding for phylogenetic reconstruction. Molecular Phylogenetics and Evolution, 29:298-308 [doi:10.1016/S1055-7903(03)00109-X]

Get preprintKevin P. Johnson, Robert H. Cruickshank, Richard J. Adams, Vincent S. Smith, Roderic D. M. Page and Dale H. Clayton. 2003. Dramatically elevated rate of mitochondrial substitution in lice (Insecta: Phthiraptera), Molecular Phylogenetics and Evolution, 26: 231-24 [doi:10.1016/S1055-7903(02)00342-1]

Get preprintKevin P. Johnson, Richard J. Adams, Roderic D. M. Page, Dale H. Clayton. 2003. When Do Parasites Fail to Speciate in Response to Host Speciation? Systematic Biology, 52:37-47.[doi:10.1080/10635150390132704]

Gary Benson and Roderic Page (eds) Algorithms in Bioinformatics, Third International Workshop, WABI 2003, Budapest, Hungary, September 15-20, 2003, Proceedings Lecture Notes in Bioinformatics, Vol. 2812. Available online in SpringerLink

 


2002

Get preprintPage, R. D. M. and M. A. Charleston. 2002. TreeMap versus BPA (again): A response to Dowling. Technical Reports in Taxonomy 02-02.

Page, R. D. M. (ed). Tangled trees: phylogeny, cospeciation and coevolution. University of Chicago Press.[Symposium web site] [Data, software, and erata]

Get preprintPage, R.D.M. Modified mincut supertrees. Pp. 537-551 in R. Guigó and D. Gusfield (eds), WABI 2002, LNCS 2452. [PDF].

Get preprintCotton, J. A., and R. D. M. Page. 2002. Going nuclear: gene family evolution and vertebrate phylogeny reconciled. Proceedings of the Royal Society of London 269:1555–1561.[data]

Get preprintPage, R. D. M., R. Cruickshank, and K. P. Johnson. 2002. Louse mitochondrial 12S rRNA secondary structure is highly variable. Insect Molecular Biology 11:361-369.[Medline record][data]

Get preprintKennedy, M. & Page, R.D.M. (2002). Seabird supertrees: Combining partial estimates of procellariiform phylogeny. The Auk, 119: 88-108.

Get preprintPage, R.D.M. and J Cotton (2002). Vertebrate phylogenomics: reconciled trees and gene duplications.Pages 536-547 in Pacific Symposium on Biocomputing 2002.[Medline record] PSB 2002.



2001

Get preprintCruickshank, R. H., Johnson, K. P., Smith, V. S., Adams, R. J., Clayton, D. H. and Page, R. D. M. (2001). Phylogenetic analysis of partial sequences of elongation factor 1 alpha identifies major groups of lice (Insecta: Phthiraptera). Molecular Phylogenetics and Evolution 19, 202-215. [Medline record] [Popset] [TreeBASE study S570]


2000

Get preprint Page, R. D. M. (2000). Circles: automating the comparative analysis of RNA secondary structure. Bioinformatics 16: 1042-1043.[Software][Medline record]

Get preprint Page, R. D. M. (2000). Comparative analysis of secondary structure of insect mitochondrial small subunit ribosomal RNA using maximum weighted matching. Nucleic Acids Research 28: 3839-3845.[MEDLINE record][Data]
(Reproduced with permission from NAR Online).

Get preprint Page, R.D.M. and Cotton, J.C. (2000) GeneTree: a tool for exploring gene family evolution. In D. Sankoff, and J. Nadeau, (eds.), Comparative Genomics: Empirical and Analytical Approaches to Gene Order Dynamics, Map Alignment, and the Evolution of Gene Families. Kluwer Academic Publishers, Dordrecht, pp. 525-536.[Software]

Get preprint Thorley, J. L., and R. D. M. Page (2000). RadCon: phylogenetic tree comparison and consensus. Bioinformatics 16: 486-487.[Software] [Medline record]

Get preprint Morand, S., M. S. Hafner, R. D. M. Page, and D. L. Reed (2000). Comparative body size relationships in pocket gophers and their chewing lice. Biological Journal of the Linnean Society 70: 239-249

Get preprintPage, R. D. M. (2000). Extracting species trees from complex gene trees: reconciled trees and vertebrate phylogeny. Molecular Phylogenetics and Evolution, 14:89-106. [MEDLINE record] [Data sets]


1999

Slowinksi, J. and R. D. M. Page (1999). How should species phylogenies be inferred from sequence data? Systematic Biology 48: 814-825.

Page, R. D. M. and M. A. Charleston (1999). Comments on Allard and Carpenter (1996), or the "aquatic ape" hypothesis revisited. Cladistics 15: 73-74. [Data sets]

Charleston, M. A. and R. D. M. Page (1999). Spectral analysis -- a brief introduction. In: Molecular systematics and plant evolution. P. M. Hollingsworth, R. M. Bateman and R. J. Gornall. London, Taylor & Francis: pp 255-267.


1998

Book cover
Page, R. D. M. and Holmes, E. C. (1998). Molecular Evolution: A phylogenetic approach. Blackwell Scientific, Oxford.

Get preprint Page, R. D. M. (1998). GeneTree: comparing gene and species phylogenies using reconciled trees. Bioinformatics, 14:819-820. [MEDLINE record] [Software]

Get preprint Page, R. D. M. and Charleston, M. A. (1998). Trees within trees: Phylogeny and historical associations. Trends in Ecolology and Evolution, 13:356-359.

Get preprint Page, R. D. M., Lee, P. L. M., Becher, S. A., Griffiths, R. and Clayton, D. H. (1998). A different tempo of mitochondrial DNA evolution in birds and their parasitic lice. Molecular Phylogenetics and Evolution,9, 276-293 [MEDLINE record]

Get preprintCharleston, M. A. (1998). Jungles: a new solution to the host/parasite phylogeny reconciliation problem. Mathematical Biosciences, 149, 191-223.


1997

Get preprint Page, R. D. M. and Charleston, M. A. (1997). Reconciled trees and incongruent gene and species trees. In: B. Mirkin, F. R. McMorris, F. S. Roberts and A. Rzhetsky (eds), Mathematical hierarchies in biology , Vol. 37, American Mathematical Society.

Get preprint Page, R. D. M. and Charleston, M. A. (1997). From gene to organismal phylogeny: Reconciled trees and the gene tree/species tree problem. Molecular Phylogenetics and Evolution, 7, 231-240. [MEDLINE record]


1996

Clayton, D.H., Price, R.D., & Page, R.D.M. (1996) Revision of Dennyus (Collodennyus) lice (Phithiraptera: Menoponidae) from swiftlets, with descriptions of new taxa and a comparison of louse and host relationships. Systematic Entomology, 21, 179-204.

Get preprint Page, R.D.M. (1996) On consensus, confidence, and "total" evidence. Cladistics, 12, 83-92.

Get preprint Page, R.D.M. (1996) TreeView: An application to display phylogenetic trees on personal computers. Computer Applications in the Biological Sciences, 12, 357-358. [MEDLINE record]

Get preprintLee, P.L.M., Clayton, D.H., Griffiths, R., & Page, R.D.M. (1996) Does behaviour reflect phylogeny in swiftlets (Aves: Apodidae)? A test using cytochrome b mitochondrial DNA sequences. Proceedings of the National Academy of Science, USA, 93, 7091-7096. [MEDLINE record](Abstract)(Popular article in Daily Telegraph)

Get preprint Page, R.D.M. (1996) Temporal congruence revisited: comparison of mitochondrial DNA sequence divergence in cospeciating pocket gophers and their chewing lice. Systematic Biology, 45, 151-167. (Abstract)

Get preprint Page, R.D.M., Clayton, D.H., & Paterson, A.M. (1996) Lice and cospeciation: A response to Barker. International Journal for Parasitology, 26, 213-218. [Medline record]

Page, R.D.M., & Hafner, M.S. 1996. Molecular phylogenies and host-parasite cospeciation.: gophers and lice as a model system. Pages 255-270 in New uses for new phylogenies (Harvey, P.H., Leigh Brown, A.J., Maynard Smith, J., & Nee, S., eds.). Oxford University Press, Oxford.


1995

 

Hafner, M. S. and R.D.M. Page (1995). Molecular phylogenies and host-parasite cospeciation: gophers and lice as a model system. Philos Trans R Soc Lond B Biol Sci 349(1327):77-83 [Medline record]

Mooers, A.O., Page, R.D.M., Purvis, A., & Harvey, P.H. (1995) Phylogenetic noise leads to unbalanced cladistic tree reconstructions. Systematic Biology, 44, 332-342. (Abstract)

Get preprint Page, R.D.M. (1995) Parallel phylogenies: reconstructing the history of host-parasite assemblages. Cladistics, 10, 155-173.

Get reprintGet preprint Page, R.D.M., Price, R.D.P., & Hellenthal, R.A. (1995) Phylogeny of Geomydoecus and Thomomydoecus pocket gopher lice (Phthiraptera: Trichodectidae) inferred from cladistic analysis of adult and first instar morphology. Systematic Entomology, 20, 129-143. (Tree and data)


1994

Get preprint Page, R.D.M. (1994) Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas. Systematic Biology, 43, 58-77.

Get preprint Page, R.D.M., & Lydeard, C. (1994) Towards a cladistic biogeography of the Caribbean. Cladistics, 10, 21-41.


1993

Page, R.D.M. 1993. COMPONENT: Tree comparison software for Microsoft Windows, version 2.0. The Natural History Museum, London.

Page, R.D.M. (1993) Genes, organisms, and areas: the problem of multiple lineages. Systematic Biology, 42, 77-84.

Get preprintPage, R.D.M. (1993) On describing the shape of rooted and unrooted trees. Cladistics, 9, 93-99.

Get preprint Page, R.D.M. (1993) Parasites, phylogeny and cospeciation. International Journal of Parasitology 23: 499-506.

Page, R.D.M. (1993) On islands of trees and the efficacy of different methods of branch swapping in finding most-parsimonious trees. Systematic Biology, 42, 200-210.


Reports

Get preprintFinal report on NERC grant GR3/11075 “Cospeciation and relative rates of evolution in lice and birds: a molecular approach” Roderic D. M. Page, R. Griffiths, and R. W. Furness

Get preprintReport on NERC Grant GR3/1A095 “Molecular phylogenies and host-parasite cospeciation”