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Publications 2011

  1. Mazandu GK, Mulder NJ, "Scoring Protein Relationships in Functional Interaction Networks Predicted from Sequence Data", PLoS One, 2011, 6:4 e18607
  2. Salazar GA, Jimenez RC, Garcia A, Hermjakob H, Mulder N, Blake E, "DAS Writeback: A Collaborative Annotation System"BMC Bioinformatics 2011, 12:143
  3. Faure AJ, Seoighe C, Mulder N, "Investigating the effect of paralogs on microarray gene-set analysis"BMC Bioinformatics 2011, 12:29.
  4. Mazandu GK, Oppap K, Mulder N, "Contribution of Microarray Data to the Advancement of Knowledge on the Mycobacterium tuberculosis Interactome: use of the random Partial Least Squares approach", Infection, Genetics and Evolution 2011, 11: 181-189.
  5. Hadfield J, Martin DP, Stainton D, Kraberger S, Owor BE, Shepherd DN, Lakay F, Markham PG, Greber RS, Briddon RW, Varsani A, "Bromus catharticus striate mosaic virus: a new mastrevirus infecting Bromus catharticus from Australia"Arch Virol. 2011, 156(2):335-41.
  6. Martin DP, Briddon RW, Varsani A, "Recombination patterns in dicot-infecting mastreviruses mirror those found in monocot-infecting mastreviruses"Arch Virol. 2011
  7. Rosario K, Marinov M, Stainton D, Kraberger S, Wiltshire EJ, Collings DA, Walters M, Martin DP, Breitbart M, Varsani A, "Dragonfly cyclovirus, a novel single-stranded DNA virus discovered in dragonflies (Odonata: Anisoptera)"J Gen Virol 2011
  8. van der Sanden S, van Eek J, Martin DP, van der Avoort H, Vennema H, Koopmans M, "Detection of recombination breakpoints in the genomes of human enterovirus 71 strains isolated in the Netherlands in epidemic and non-epidemic years, 1963-2010"Infect Genet Evol. 2011
  9. Mumtaz H, Kumari SG, Mansoor S, Martin DP, Briddon RW, "Analysis of the sequence of a dicot-infecting mastrevirus (family Geminiviridae) originating from Syria"Virus Genes. 2011
  10. Owor Betty, Martin D P, Rybicki Edward, Thomson Jennifer, Bezuidenhout Marion, Lakay, Francisco, Shepherd Dionne Natalie, "A rep-based hairpin inhibits replication of diverse maize streak virus isolates in a transient assay"Journal of General Virology
  11. Martin D P, Lemey Philippe, Posada, David, "Analysing recombination in nucleotide sequences", Molecular Ecology Resources
  12. Darren P. Martin, Pierre Lefeuvre, Arvind Varsani, Murielle Hoareau, Jean-Yves Semegni, Betty Dijoux, Claire Vincent, Bernard Reynaud, Jean-Michel Lett, "Complex Recombination Patterns Arising during Geminivirus Coinfections Preserve and Demarcate Biologically Important Intra-Genome Interaction Networks", PLOS Pathogens
  13. Villaveces, Jose. Rafael, Jimenez. Garcia, Leyla. Salazar, Gustavo. Gel, Bernat.Mulder, Nicola Jane. Martin, Maria. Alexander, Garcia. Hermjakob, Henning, "Dasty3, a WEB framework for DAS"Bioinformatics
  14. Hiller, Luisa. Eutsey, Rory. Powell, Evan. Earl, Joshua. Janto, Benjamin. Martin, D P. Dawid, Suzanne. Ahmed, Azad. Longwell, Mark. Dahlgren, Margaret.Ezzo, Suzanne. Tettelin, Herve.Daugherty, Sean. Mitchell, Timothy. Hillaman, Todd. buchinsky, Farrel.Tomasz, Alexander. De Lencastre, Heminia. Sa-Leao, Raquel. Post, Christopher. Hu, Fen Zu. Ehrlich, Garth, "Differences in genotype and virulence among four multidrug-resistant strptococcus pneumoniae isolates belonging to the PMEN1 clone", PLoS One
  15. Lefeuvre, Pierre. Harkins, Gordon W. Lett, Jean-Michel. Briddon, Rob.Chase, Mark.Moury, Benoit. Martin, D P, "Evolutionary time-scale of the begomviruses: eviodence from intergrated sequences in the nicotiana genome"PLoS One
  16. Geistlinger, Ludwig. Csaba, Gergely. Kuffner, Robert.Mulder, Nicola Jane.Zimmer, Ralf, "From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems"Bioinformatics
  17. Monjane, Aderito Luis. Van der Walt, E. Varsani, Arvind. Rybicki, Edward.Martin, D P, "Recombination hotspots and host susceptibility modulate the adaptive value of recombination during maize streak virus evolution", BMC Evolutionary Biology
  18. Martin, D P.Biagini, Phillipe. Lefeuvre, Pierre.Golden , Michael. Roumagnac, Philippe. Varsani, Arvind, "Recombination in Eukaryotic single stranded DNA viruses"Viruses-Basel
  19. Chopera, Denis Rutendo.Mlotshwa, Mandla.Woodman, Zenda.Mlisana, Koleka. de Assis Rosa, Debra. Martin, D P. Abdool Karim, Quarraisha.Gray, Clive. Williamson, Carolyn.caprisa 002 study team, caprisa 002 study team, "Virological and Immunological Factors Associated with HIV-1 differential disease progression in HLA-B* 58:01- Positive individuals"Journal of Virology
  20. Corpas M, Doumbia S, Gascuel O, Mulder N., "Bamako 2009 conference on the bioinformatics of infectious diseases", Infect Genet Evol.
  21. Mazandu GK, Mulder NJ. , "Generation and analysis of large-scale data driven Mycobacterium tuberculosis functional networks for drug target identification"Advances in Bioinformatics
  22. Magombedze G, Mulder N. , "A mathematical representation of the development of Mycobacterium tuberculosis active, latent and dormant stages"Journal of Theoretical Biology. 292: 44-59
  23. Jimenez RC, Salazar GA, Gel B, Bevan P, Dopazo J, Mulder N, Corpas M. , "myKaryoView: A Light-Weight Client for Visualization of Genomic Data"PLoS ONE. 6(10):e26345.
  24. Rybicki, EP; Martin, DP; , "Virus-Derived ssDNA Vectors for the Expression of Foreign Proteins in Plants", Current Topics in Microbiology and Immunology
  25. Monjane, A.L.; Harkins, G.W.; Martin, D.P.; Lemey, P.; Lefeuvre, P.; Shepherd, D.N.; Oluwafemi, S.; Simuyandi, M.; Zinga, I.; Komba, E.K.; Didier P Lakoutene, Noella Mandakombo, Joseph Mboukoulida, Silla Semballa, Appolinaire Tagne, Fidèle Tiendrébéogo, Julia B Erdmann, Tania van Antwerpen, Betty E Owor, Bradley Flett, Moses Ramusi, Oliver P Windram, Rizwan Syed, Jean-Michel Lett, Rob W Briddon, Peter G Markham, Edward P Rybicki, Arvind Varsani, "Reconstructing the history of Maize streak virus strain A dispersal to reveal diversification hot spots and its origin in southern Africa"Journal of virology
  26. Martin, D.P.; Linderme, D.; Lefeuvre, P.; Shepherd, D.N.; Varsani, A.; , "Eragrostis minor streak virus: an Asian streak virus in Africa", Archives of Virology
  27. Semegni, JY; Wamalwa, M.; Gaujoux, R.; Harkins, GW; Gray, A.; Martin, DP; , "NASP: a parallel program for identifying evolutionarily conserved nucleic acid secondary structures from nucleotide sequence alignments"Bioinformatics