1. Working paper › Research
  2. Published

    Kernels from matching operations

    Watkins, C., 1999.

    Research output: Working paper

  3. Published

    Mondrian Condence Machine

    Vovk, V., Lindsay, D., Nouretdinov, I. & Gammerman, A., Mar 2003, (On-line Compression Modelling project).

    Research output: Working paper

  4. Published

    Mondrian Confidence Machine

    Vovk, V., Lindsay, D., Nouretdinov, I. & Gammerman, A., Mar 2003, (On-line Compression Modelling project).

    Research output: Working paper

  5. Published
  6. Published

    Online region prediction with real teachers

    Ryabko, D., Vovk, V. & Gammerman, A., Mar 2003, (On-line Compression Modelling project).

    Research output: Working paper

  7. Published

    Testing Exchangeability On-line

    Vovk, V., Nouretdinov, I. & Gammerman, A., Feb 2003, (On-line Compression Modelling project).

    Research output: Working paper

  8. Book › Research
  9. Published

    Algorithmic Learning in a Random World

    Vovk, V., Gammerman, A. & Shafer, G., 2005, Springer.

    Research output: Book/ReportBook

  10. Published

    RDA COVID-19 Recommendations and Guidelines on Data Sharing

    Research Data Alliance COVID-19 Working Group, 30 Jun 2020, 144 p.

    Research output: Book/ReportBook

  11. Patent › Research
  12. Published

    Data classication apparatus and method thereof

    Gammerman, A. & Vovk, V., Jul 2004, Patent No. 1129428

    Research output: Patent

  13. Published

    Method for Separately Permissioned Communication

    Watkins, C. & Denker, J., 2000, IPC No. US Patent, Patent No. 6064878

    Research output: Patent

  14. Published

    Method of Automatic Verification of Personal Identity

    Watkins, C., 1998, IPC No. US Patent, Patent No. 5719560

    Research output: Patent

  15. Article › Research › Not peer-reviewed
  16. Published

    Anomaly Detection in Video Games

    Wilkins, B., Watkins, C. & Stathis, K., 20 May 2020, In: ArXiv.org. p. 1-4 4 p., 2005.10211.

    Research output: Contribution to journalArticle

  17. Published

    Predictions controlees en apprentissage automatique

    Gammerman, A. & Vovk, V., 2010, In: La Revue Modulad. 42, p. 16-33 18 p.

    Research output: Contribution to journalArticle

  18. Article › Research › Peer-reviewed
  19. Submitted

    9 Simple recommendations for teaching data skills

    Shanahan, H., 16 Apr 2019, (Submitted) In: Data Science Journal.

    Research output: Contribution to journalArticlepeer-review

  20. Published

    A Census of Human Soluble Protein Complexes

    Havugimana, P. C., Hart, G. T., Nepusz, T., Yang, H., Turinsky, A. L., Li, Z., Wang, P. I., Boutz, D. R., Fong, V., Phanse, S., Babu, M., Craig, S. A., Hu, P., Wan, C., Vlasblom, J., Dar, V-N., Bezginov, A., Clark, G. W., Wu, G. C., Wodak, S. J. & 4 others, Tillier, E. R. M., Paccanaro, A., Marcotte, E. M. & Emili, A., 31 Aug 2012, In: Cell. 150, 5, p. 1068–1081

    Research output: Contribution to journalArticlepeer-review

  21. Published

    A high quality draft consensus sequence of the genome of a heterozygous grapevine variety

    Velasco, R., Zharkikh, A., Troggio, M., Cartwright, D. A., Cestaro, A., Pruss, D., Pindo, M., Fitzgerald, L. M., Vezzulli, S., Reid, J., Malacarne, G., Iliev, D., Coppola, G., Wardell, B., Micheletti, D., Macalma, T., Facci, M., Mitchell, J. T., Perazzolli, M., Eldredge, G. & 37 others, Gatto, P., Oyzerski, R., Moretto, M., Gutin, N., Stefanini, M., Chen, Y., Segala, C., Davenport, C., Demattè, L., Mraz, A., Battilana, J., Stormo, K., Costa, F., Tao, Q., Si-Ammour, A., Harkins, T., Lackey, A., Perbost, C., Taillon, B., Stella, A., Solovyev, V., Fawcett, J. A., Sterck, L., Vandepoele, K., Grando, S. M., Toppo, S., Moser, C., Lanchbury, J., Bogden, R., Skolnick, M., Sgaramella, V., Bhatnagar, S. K., Fontana, P., Gutin, A., Van de Peer, Y., Salamini, F. & Viola, R., 2007, In: PLoS ONE. 2, 12, p. e1326

    Research output: Contribution to journalArticlepeer-review

  22. Published

    A large-scale evaluation of computational protein function prediction

    Radivojac, P., Clark, W. T., Oron, T. R., Schnoes, A. M., Wittkop, T., Sokolov, A., Graim, K., Funk, C., Verspoor, K., Ben-Hur, A., Pandey, G., Yunes, J. M., Talwalkar, A. S., Repo, S., Souza, M. L., Piovesan, D., Casadio, R., Wang, Z., Cheng, J., Fang, H. & 82 others, Gough, J., Koskinen, P., Törönen, P., Nokso-Koivisto, J., Holm, L., Cozzetto, D., Buchan, D. W. A., Bryson, K., Jones, D. T., Limaye, B., Inamdar, H., Datta, A., Manjari, S. K., Joshi, R., Chitale, M., Kihara, D., Lisewski, A. M., Erdin, S., Venner, E., Lichtarge, O., Rentzsch, R., Yang, H., Romero, A. E., Bhat, P., Paccanaro, A., Hamp, T., Kaßner, R., Seemayer, S., Vicedo, E., Schaefer, C., Achten, D., Auer, F., Boehm, A., Braun, T., Hecht, M., Heron, M., Hönigschmid, P., Hopf, T. A., Kaufmann, S., Kiening, M., Krompass, D., Landerer, C., Mahlich, Y., Roos, M., Björne, J., Salakoski, T., Wong, A., Shatkay, H., Gatzmann, F., Sommer, I., Wass, M. N., Sternberg, M. J. E., Škunca, N., Supek, F., Bošnjak, M., Panov, P., Džeroski, S., Šmuc, T., Kourmpetis, Y. A. I., van Dijk, A. D. J., ter Braak, C. J. F., Zhou, Y., Gong, Q., Dong, X., Tian, W., Falda, M., Fontana, P., Lavezzo, E., Di Camillo, B., Toppo, S., Lan, L., Djuric, N., Guo, Y., Vucetic, S., Bairoch, A., Linial, M., Babbitt, P. C., Brenner, S. E., Orengo, C., Rost, B., Mooney, S. D. & Friedberg, I., Mar 2013, In: Nature Methods. 10, 3, p. 221-7 7 p.

    Research output: Contribution to journalArticlepeer-review

  23. E-pub ahead of print

    A network medicine approach to quantify distance between hereditary disease modules on the interactome

    Caniza, H., Romero, A. E. & Paccanaro, A., 3 Dec 2015, In: Scientific Reports. 5, p. 1-10 10 p., 17658.

    Research output: Contribution to journalArticlepeer-review

  24. Published

    A new approach for the classification of functional regions of DNA sequences based on fractal representation

    Solovyev, V., Korolev, S. V. & Lim, H. A., 1993, In: Int.J. Genomic. Res.. 1, 2, p. 108-127

    Research output: Contribution to journalArticlepeer-review

  25. Published

    A non-perturbative calculation of the mass of the B-c

    Shanahan, H. P., Boyle, P., Davies, C. T. H., Newton, H. & UKQCD Collaboration, 6 May 1999, In: Physics Letters B. 453, 3-4, p. 289-294 6 p.

    Research output: Contribution to journalArticlepeer-review

  26. Published

    A novel high-throughput in vivo molecular screen for shade avoidance mutants identifies a novel phyA mutation

    Wang, X., Roig-Villanova, I., Khan, S., Shanahan, H., Quail, P. H., Martinez-Garcia, J. F. & Devlin, P. F., 2011, In: Journal of Experimental Botany. 62, 8, p. 2973-2987 15 p.

    Research output: Contribution to journalArticlepeer-review

  27. Published

    A novel method of protein sequence classification based on oligopeptide frequency analysis and its application to search for functional sites and to domain localization

    Solovyev, V. V. & Makarova, K. S., 1 Feb 1993, In: Bioinformatics. 9, 1, p. 17-24 8 p.

    Research output: Contribution to journalArticlepeer-review

  28. Published

    A Novel Method to Detect Bias in Short Read NGS Data

    Alnasir, J. & Shanahan, H., 2017, In: Journal of Integrative Bioinformatics. 14, 3, p. 1-9 9 p.

    Research output: Contribution to journalArticlepeer-review

  29. Published

    A novel type of RNase III family proteins in eukaryotes

    Filippov, V., Solovyev, V., Filippova, M. & Gill, S. S., 7 Mar 2000, In: Gene. 245, 1, p. 213-21 9 p.

    Research output: Contribution to journalArticlepeer-review

  30. Published
  31. Published

    A study of the quenched (b)over-bar-c mass spectrum at beta=6.2

    Davies, C. T. H., Lidsey, A. J. & Shanahan, H. P., Apr 1998, In: Nuclear Physics B - Proceedings Supplements. 63, p. 323-325 3 p.

    Research output: Contribution to journalArticlepeer-review

  32. Published

    Ab initio gene finding in Drosophila genomic DNA

    Salamov, A. A. & Solovyev, V. V., Apr 2000, In: Genome Research. 10, 4, p. 516-522 7 p.

    Research output: Contribution to journalArticlepeer-review

  33. Published

    Abundance of plastid DNA insertions in nuclear genomes of rice and Arabidopsis

    Shahmuradov, I. A., Akbarova, Y. Y., Solovyev, V. V. & Aliyev, J. A., Jul 2003, In: Plant Molecular Biology. 52, 5, p. 923-934 12 p.

    Research output: Contribution to journalArticlepeer-review

  34. Published

    Amino acid architecture and the distribution of polar atoms on the surfaces of proteins

    Shanahan, H. P. & Thornton, J. M., 15 Aug 2005, In: BIOPOLYMERS. 78, 6, p. 318-328 11 p.

    Research output: Contribution to journalArticlepeer-review

  35. Published

    An evolutionary model that satisfies detailed balance

    Lember, J. & Watkins, C., 9 Nov 2020, In: Methodology and Computing in Applied Probability. 37 p.

    Research output: Contribution to journalArticlepeer-review

  36. Published

    An examination of the conservation of surface patch polarity for proteins

    Shanahan, H. P. & Thornton, J. M., 22 Sep 2004, In: Bioinformatics. 20, 14, p. 2197-2204 8 p.

    Research output: Contribution to journalArticlepeer-review

  37. Published

    An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome

    Hild, M., Beckmann, B., Haas, S. A., Koch, B., Solovyev, V., Busold, C., Fellenberg, K., Boutros, M., Vingron, M., Sauer, F., Hoheisel, J. D. & Paro, R., 2003, In: Genome Biology. 5, 1, p. R3

    Research output: Contribution to journalArticlepeer-review

  38. Published

    An intuitive graphical visualization technique for the interrogation of transcriptome data

    Bushati, N., Smith, J., Briscoe, J. & Watkins, C., 2011, In: Nucleic Acids Research. 39, 17, p. 7380-7389

    Research output: Contribution to journalArticlepeer-review

  39. Published

    Analysis of canonical and non-canonical splice sites in mammalian genomes

    Burset, M., Seledtsov, I. A. & Solovyev, V. V., 1 Nov 2000, In: Nucleic Acids Research. 28, 21, p. 4364-4375 12 p.

    Research output: Contribution to journalArticlepeer-review

  40. Published

    Assessing the limits of genomic data integration for predicting protein networks

    Lu, L. J., Xia, Y., Paccanaro, A., Yu, H. & Gerstein, M., 2005, In: Genome Research. 15, 7, p. 945-53 9 p.

    Research output: Contribution to journalArticlepeer-review

  41. Published

    Automated whole-genome multiple alignment of rat, mouse, and human

    Brudno, M., Poliakov, A., Salamov, A., Cooper, G. M., Sidow, A., Rubin, E. M., Solovyev, V., Batzoglou, S. & Dubchak, I., 1 Apr 2004, In: Genome Research. 14, 4, p. 685-92 8 p.

    Research output: Contribution to journalArticlepeer-review

  42. Published

    Automatic annotation of eukaryotic genes, pseudogenes and promoters

    Solovyev, V., Kosarev, P., Seledsov, I. & Vorobyev, D., 2006, In: Genome Biology. 7 Suppl 1, p. S10.1-12

    Research output: Contribution to journalArticlepeer-review

  43. Published

    B meson decay constants from two-flavor lattice QCD with nonrelativistic heavy quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A. & Yoshie, T., 1 Sep 2001, In: Physical Review D . 6405, 5, p. - 24 p.

    Research output: Contribution to journalArticlepeer-review

  44. Published

    Bioinformatics on the cloud computing platform Azure

    Shanahan, H., Harrison, A. & Owen, A. M., 22 Jul 2014, In: PLoS ONE. 9, 7, p. e102642

    Research output: Contribution to journalArticlepeer-review

  45. Published

    Calculation of K -> pi matrix elements in quenched domain-wall QCD

    Khan, A. A., Aoki, S., Aoki, Y., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Izubuchi, T., Kanaya, K., Kaneko, T., Kuramashi, Y., Nagai, K. I., Noaki, J., Okawa, M., Shanahan, H. P., Taniguchi, Y., Ukawa, A., Yoshie, T. & 1 others, CP-PACS collaboration, Mar 2001, In: Nuclear Physics B - Proceedings Supplements. 94, p. 283-286 4 p.

    Research output: Contribution to journalArticlepeer-review

  46. Published

    Chiral properties of domain-wall quarks in quenched QCD

    Khan, A. A., Aoki, S., Aoki, Y., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Izubuchi, T., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K. I., Noaki, J., Okawa, M., Shanahan, H. P., Taniguchi, Y., Ukawa, A. & 2 others, Yoshie, T. & CP-PACS Collaboration, 1 Jun 2001, In: Physical Review D . 6311, 11, p. - 19 p.

    Research output: Contribution to journalArticlepeer-review

  47. Published

    Clinical mass spectrometry proteomic diagnosis by conformal predictors

    Gammerman, A., Nouretdinov, I., Burford, B., Chervonenkis, A., Vovk, V. & Luo, Z., Jul 2008, In: Statistical Applications in Genetics and Molecular Biology. 7, 2, 13.

    Research output: Contribution to journalArticlepeer-review

  48. Published

    Clustering of Pseudomonas aeruginosa transcriptomes from planktonic cultures, developing and mature biofilms reveals distinct expression profiles

    Waite, R. D., Paccanaro, A., Papakonstantinopoulou, A., Hurst, J. M., Saqi, M., Littler, E. & Curtis, M. A., 2006, In: BMC Genomics. 7, p. 162

    Research output: Contribution to journalArticlepeer-review

  49. Published

    Community structure and metabolism through reconstruction of microbial genomes from the environment

    Tyson, G. W., Chapman, J., Hugenholtz, P., Allen, E. E., Ram, R. J., Richardson, P. M., Solovyev, V. V., Rubin, E. M., Rokhsar, D. S. & Banfield, J. F., 4 Mar 2004, In: Nature. 428, 6978, p. 37-43 7 p.

    Research output: Contribution to journalArticlepeer-review

  50. Published

    Community-wide assessment of GPCR structure modelling and ligand docking

    Michino, M. & Solovyev, V., 2010, In: Nature Reviews. Drug Discovery. 8, p. 455-463

    Research output: Contribution to journalArticlepeer-review

  51. Published

    Complexity approximation principle

    Vovk, V. & Gammerman, A., 1999, In: The Computer Journal. 42, 4, p. 318-322 5 p.

    Research output: Contribution to journalArticlepeer-review

  52. Published

    Computational selection of transcriptomics experiments improves Guilt-by-Association analyses

    Bhat, P., Yang, H., Bogre, L., Devoto, A. & Paccanaro, A., 7 Aug 2012, In: PLoS ONE. 7, 8, e39681.

    Research output: Contribution to journalArticlepeer-review

  53. Published

    Conformal prediction of biological activity of chemical compounds

    Toccaceli, P., Nouretdinov, I. & Gammerman, A., Oct 2017, In: Annals of Mathematics and Artificial Intelligence. 81, p. 105–123 19 p.

    Research output: Contribution to journalArticlepeer-review

  54. Published

    Conformal predictors in early diagnostics of ovarian and breast cancers

    Devetyarov, D., Nouretdinov, I., Burford, B., Camuzeaux, S., Gentry-Maharaj, A., Tiss, A., Smith, C., Luo, Z., Chervonenkis, A., Hallett, R., Vovk, V., Waterfield, M., Cramer, R., Timms, J. F., Sinclair, J., Menon, U., Jacobs, I. & Gammerman, A., 2012, In: Progress in Artificial Intelligence. 1, p. 245 - 257 13 p.

    Research output: Contribution to journalArticlepeer-review

  55. Published

    Conformational changings in the Globins Family during Evolution 1. Analysis of the Evolutionary Role of Insertions and Deletions

    Zharkikh, A. A., Solovyev, V. & Kolchanov, N. A., 1984, In: J.Mol.Evol.. 21, p. 42-53

    Research output: Contribution to journalArticlepeer-review

  56. Published

    Criteria of efficiency for set-valued classification

    Vovk, V., Nouretdinov, I., Fedorova, V., Petej, I. & Gammerman, A., Oct 2017, In: Annals of Mathematics and Artificial Intelligence. 81, p. 21-46 26 p.

    Research output: Contribution to journalArticlepeer-review

  57. Published

    Decay constants of B and D mesons from improved relativistic lattice QCD with two flavors of sea quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, 1 Aug 2001, In: Physical Review D . 6403, 3, p. - 17 p.

    Research output: Contribution to journalArticlepeer-review

  58. Published

    Detecting overlapping protein complexes in protein-protein interaction networks

    Nepusz, T., Yu, H. & Paccanaro, A., 2012, In: Nature Methods. 9, 5, p. 471–472 2 p.

    Research output: Contribution to journalArticlepeer-review

  59. Published

    DIROM: an experimental design interactive system for directed mutagenesis and nucleic acids engineering

    Makarova, K. S., Mazin, A. V., Wolf, Y. I. & Solovyev, V., 1 Oct 1992, In: Bioinformatics. 8, 5, p. 425-431 7 p.

    Research output: Contribution to journalArticlepeer-review

  60. Published

    Disease gene prediction for molecularly uncharacterized diseases

    Caceres, J. & Paccanaro, A., 5 Jul 2019, In: PLoS Computational Biology. 15, 7, p. 1-14 14 p., e1007078.

    Research output: Contribution to journalArticlepeer-review

  61. E-pub ahead of print

    Dissecting the chromatin interactome of microRNA genes

    Chen, D., Fu, L-Y., Zhang, Z., Yu, G., Zhang, H., Jiang, L., Harrison, A., Shanahan, H., Klukas, C., Zhang, H-Y., Ruan, Y., Chen, LI-LI. & Chen, M., 20 Dec 2013, In: Nucleic Acids Research.

    Research output: Contribution to journalArticlepeer-review

  62. Published

    Distinct light-initiated gene expression and cell cycle programs in the shoot apex and cotyledons of Arabidopsis

    López-Juez, E., Dillon, E., Magyar, Z., Khan, S., Hazeldine, S., de Jager, S. M., Murray, J. A., Beemster, G. T., Bögre, L. & Shanahan, H., Apr 2008, In: Plant Cell. 20, 4, p. 947-968 22 p.

    Research output: Contribution to journalArticlepeer-review

  63. Published

    Dynamic alignment kernels

    Watkins, C., 1999, In: ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS. p. 39-50 12 p.

    Research output: Contribution to journalArticlepeer-review

  64. Published

    Dynamical quark effects on light quark masses

    Khan, A. A., Aoki, S., Boyd, G., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, 27 Nov 2000, In: Physical Review Letters. 85, 22, p. 4674-4677 4 p.

    Research output: Contribution to journalArticlepeer-review

  65. Published

    Early detection of ovarian cancer in samples pre-diagnosis using CA125 and MALDI-MS peaks

    Timms, J. F., Menon, U., Devetyarov, D., Tiss, A., Camuzeaux, S., McCurrie, K., Nouretdinov, I., Burford, B., Smith, C., Gentry-Maharaj, A., Hallett, R., Ford, J., Luo, Z., Vovk, V., Gammerman, A., Cramer, R. & Jacobs, I., Nov 2011, In: Cancer Genomics and Proteomics. 8, 6, p. 289-305

    Research output: Contribution to journalArticlepeer-review

  66. Published

    Effect of secondary structure prediction on protein fold recognition and database search

    Alexandrov, N. N. & Solovyev, V., 1996, In: Genome Informatics. 7, p. 119-127

    Research output: Contribution to journalArticlepeer-review

  67. Published

    Effect of tree-level and mean-field improvement on the light-hadron spectrum in quenched QCD

    Shanahan, H. P., Davies, C. T. H., Bowler, K. C., Kenway, R. D., Richards, D. G., Rowland, P. A., Ryan, S. M., Lacock, P., Michael, C., Burford, D. R., Stella, N. & Wittig, H., 1 Feb 1997, In: Physical Review D . 55, 3, p. 1548-1558 11 p.

    Research output: Contribution to journalArticlepeer-review

  68. Published

    Eigenvalues of the hermitian Wilson-Dirac operator and chiral properties of the domain-wall fermion

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Izubuchi, T., Kanaya, K., Kanebo, T., Kuramashi, Y., Manke, T., Nagai, K. I., Noaki, J., Okawa, M., Shanahan, H. P., Taniguchi, Y., Ukawa, A. & Yoshie, T., Mar 2001, In: Nuclear Physics B - Proceedings Supplements. 94, p. 725-728 4 p.

    Research output: Contribution to journalArticlepeer-review

  69. E-pub ahead of print

    Epidemic contact tracing with smartphone sensors

    Nguyen, D. K. A., Luo, Z. & Watkins, C., 1 Sep 2020, In: Journal of Location Based Services. 37 p.

    Research output: Contribution to journalArticlepeer-review

  70. Published

    Equation of state in finite-temperature QCD with improved Wilson quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okamoto, M., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP PACS Collaboration, Apr 2000, In: Nuclear Physics B - Proceedings Supplements. 83-4, p. 360-362 3 p.

    Research output: Contribution to journalArticlepeer-review

  71. Published

    Equation of state in finite-temperature QCD with two flavors of improved Wilson quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K. I., Okamoto, M., Okawa, M., Shanahan, H. P., Taniguchi, Y., Ukawa, A. & Yoshie, T., 1 Oct 2001, In: Physical Review D . 6407, 7, p. art. no.-074510 17 p.

    Research output: Contribution to journalArticlepeer-review

  72. Published

    Eta meson mass and topology in QCD with two light flavors

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, Apr 2000, In: Nuclear Physics B - Proceedings Supplements. 83-4, p. 162-164 3 p.

    Research output: Contribution to journalArticlepeer-review

  73. Published

    Exploring the evolutionary path of plant MAPK networks

    Dóczi, R., Okrész, L., Romero, A. E., Paccanaro, A. & Bogre, L., 2012, In: Trends in Plant Science.

    Research output: Contribution to journalArticlepeer-review

  74. Published

    Expression of msl-2 causes assembly of dosage compensation regulators on the X chromosomes and female lethality in Drosophila

    Kelley, R. L., Solovyeva, I., Lyman, L. M., Richman, R., Solovyev, V. & Kuroda, M. I., 16 Jun 1995, In: Cell. 81, 6, p. 867-77 11 p.

    Research output: Contribution to journalArticlepeer-review

  75. Published

    FORM-FACTORS FOR B-]PI-L(V)OVER-BAR(L) AND B-]K-ASTERISK-GAMMA DECAYS ON THE LATTICE

    BURFORD, D. R., DUONG, H. D., FLYNN, J. M., GOUGH, B. J., HAZEL, N. M., NIEVES, J. & SHANAHAN, H. P., 7 Aug 1995, In: Nuclear Physics B. 447, 2-3, p. 425-437 13 p.

    Research output: Contribution to journalArticlepeer-review

  76. E-pub ahead of print

    Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group

    Research Data Alliance & Shanahan, H., 9 Nov 2020, In: Wellcome Open Research. 267.

    Research output: Contribution to journalArticlepeer-review

  77. Published

    Fractal graphical representation and analysis of DNA and protein sequences: Computational Molecular Biology

    Solovyev, V. V., 1993, In: BioSystems. 30, 1-3, p. 137-160 24 p.

    Research output: Contribution to journalArticlepeer-review

  78. Published

    Full QCD light hadron spectrum and quark masses: Final results from CP-PACS

    Khan, A. A., Aoki, S., Boyd, G., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K. I., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP PACS Collaboration, Mar 2001, In: Nuclear Physics B - Proceedings Supplements. 94, p. 229-232 4 p.

    Research output: Contribution to journalArticlepeer-review

  79. Published

    Full QCD light hadron spectrum from the CP-PACS

    Aoki, S., Boyd, G., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, Mar 1999, In: Nuclear Physics B - Proceedings Supplements. 73, p. 192-194 3 p.

    Research output: Contribution to journalArticlepeer-review

  80. Published

    Functional and evolutionary insights from the genomes of three parasitoid Nasonia species

    Werren, J. H., Richards, S., Desjardins, C. A., Niehuis, O., Gadau, J., Colbourne, J. K., Werren, J. H., Richards, S., Desjardins, C. A., Niehuis, O., Gadau, J., Colbourne, J. K., Beukeboom, L. W., Desplan, C., Elsik, C. G., Grimmelikhuijzen, C. J. P., Kitts, P., Lynch, J. A., Murphy, T., Oliveira, D. C. S. G. & 31 others, Smith, C. D., van de Zande, L., Worley, K. C., Zdobnov, E. M., Aerts, M., Albert, S., Anaya, V. H., Anzola, J. M., Barchuk, A. R., Behura, S. K., Bera, A. N., Berenbaum, M. R., Bertossa, R. C., Bitondi, M. M. G., Bordenstein, S. R., Bork, P., Bornberg-Bauer, E., Brunain, M., Cazzamali, G., Chaboub, L., Chacko, J., Chavez, D., Childers, C. P., Choi, J-H., Clark, M. E., Claudianos, C., Clinton, R. A., Cree, A. G., Cristino, A. S., Solovyev, V. & Nasonia Genome Working Group, 15 Jan 2010, In: Science. 327, 5963, p. 343-8 6 p.

    Research output: Contribution to journalArticlepeer-review

  81. Published

    Genome sequence of the pea aphid Acyrthosiphon pisum

    Solovyev, V. & International Aphid Genomics Consortium, 2010, In: PLoS Biology. 8, 2, p. e1000313

    Research output: Contribution to journalArticlepeer-review

  82. Published

    Genomic organization, evolution, and structural peculiarities of highly repetitive DNA of Hordeum vulgare

    Vershinin, A. V., Salina, E. A., Solovyev, V. & Timofeyeva, L. L., 1990, In: Genome. 33, p. 441-449

    Research output: Contribution to journalArticlepeer-review

  83. Published

    GFam: a platform for automatic annotation of gene families

    Sasidharan, R., Nepusz, T., Swarbreck, D., Huala, E. & Paccanaro, A., 2012, In: Nucleic Acids Research. 40, 19, 15 p., e152.

    Research output: Contribution to journalArticlepeer-review

  84. Published

    Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins

    Hu, P., Janga, S. C., Babu, M., Díaz-Mejía, J. J., Butland, G., Yang, W., Pogoutse, O., Guo, X., Phanse, S., Wong, P., Chandran, S., Christopoulos, C., Nazarians-Armavil, A., Nasseri, N. K., Musso, G., Ali, M., Nazemof, N., Eroukova, V., Golshani, A., Paccanaro, A. & 3 others, Greenblatt, J. F., Moreno-Hagelsieb, G. & Emili, A., 2009, In: PLoS Biology. 7, 4, p. e96

    Research output: Contribution to journalArticlepeer-review

  85. Published

    Health Advice from Internet Discussion Forums: How Bad is Dangerous?

    Cole, J., Watkins, C. & Kleine, D., 6 Jan 2016, In: Journal of Medical Internet Research. 18, 1, p. 1-15 15 p., e4.

    Research output: Contribution to journalArticlepeer-review

  86. Published

    Heavy hybrid states from NRQCD

    Manke, T., Drummond, I. T., Horgan, R. R. & Shanahan, H. P., 1 Apr 1998, In: Physical Review D . 57, 7, p. R3829-R3832 4 p.

    Research output: Contribution to journalArticlepeer-review

  87. Published

    Heavy quark physics in N-f=2 QCD

    Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, Mar 1999, In: Nuclear Physics B - Proceedings Supplements. 73, p. 375-377 3 p.

    Research output: Contribution to journalArticlepeer-review

  88. Published

    Heavy quarkonia from anisotropic and isotropic lattices

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP PACS Collaboration, Apr 2000, In: Nuclear Physics B - Proceedings Supplements. 83-4, p. 319-321 3 p.

    Research output: Contribution to journalArticlepeer-review

  89. Published

    Heavy-light decay constants from clover heavy quark action in QCD with two flavors of dynamical quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP PACS Collaboration, Apr 2000, In: Nuclear Physics B - Proceedings Supplements. 83-4, p. 331-333 3 p.

    Research output: Contribution to journalArticlepeer-review

  90. Published

    Heavy-light spectrum and decay constant from NRQCD with two flavors of dynamical quarks

    Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Manke, T., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP PACS Collaboration, Apr 2000, In: Nuclear Physics B - Proceedings Supplements. 83-4, p. 265-267 3 p.

    Research output: Contribution to journalArticlepeer-review

  91. Published

    Hedging predictions in machine learning - The second Computer Journal Lecture

    Gammerman, A. & Vovk, V., Mar 2007, In: The Computer Journal. 50, 2, p. 151-163 13 p.

    Research output: Contribution to journalArticlepeer-review

  92. E-pub ahead of print

    Helping the Consumers and Producers of Standards, Repositories and Policies to Enable FAIR Data

    McQuilton, P., Batista, D., Beyan, O., Granell, R., Coles, S., Izzo, M., Lister, A. L., Pergl, R., Rocca-Serra, P., Schaap, B., Shanahan, H., Thurston, M. & Sansone, S-A., 31 Jan 2020, In: Data Intelligence. 2, 1-2, p. 151-157 7 p.

    Research output: Contribution to journalArticlepeer-review

  93. Published

    HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif

    Ferrer-Costa, C., Shanahan, H. P., Jones, S. & Thornton, J. M., 15 Sep 2005, In: Bioinformatics. 21, 18, p. 3679-3680 2 p.

    Research output: Contribution to journalArticlepeer-review

  94. Published

    Hybrid quarkonia on asymmetric lattices

    Manke, T., Shanahan, H. P., Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Nagai, K., Okawa, M., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, 31 May 1999, In: Physical Review Letters. 82, 22, p. 4396-4399 4 p.

    Research output: Contribution to journalArticlepeer-review

  95. Published

    Hybrid quarkonia with dynamical sea quarks

    Manke, T., Khan, A. A., Aoki, S., Burkhalter, R., Ejiri, S., Fukugita, M., Hashimoto, S., Ishizuka, N., Iwasaki, Y., Kanaya, K., Kaneko, T., Kuramashi, Y., Nagai, K., Okawa, M., Shanahan, H. P., Ukawa, A., Yoshie, T. & CP-PACS Collaboration, 1 Nov 2001, In: Physical Review D . 6409, 9, p. - 4 p.

    Research output: Contribution to journalArticlepeer-review

  96. Published

    Hybrid quarkonia with high statistics from NRQCD

    Manke, T., Drummond, I. T., Horgan, R. R., Shanahan, H. P. & UKQCD Collaboration, Apr 1998, In: Nuclear Physics B - Proceedings Supplements. 63, p. 332-334 3 p.

    Research output: Contribution to journalArticlepeer-review

  97. Published

    Hypergraphical Conformal Predictors

    Fedorova, V., Gammerman, A., Nouretdinov, I. & Vovk, V., 21 Dec 2015, In: International Journal on Artificial Intelligence Tools. 24, 6, 1560003.

    Research output: Contribution to journalArticlepeer-review

  98. Published

    Identification of human gene functional regions based on oligonucleotide composition

    Solovyev, V. V. & Lawrence, C. B., 1 Jan 1993, In: Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology. 1, p. 371-9 9 p.

    Research output: Contribution to journalArticlepeer-review

  99. Published

    Identification of human gene structure using linear discriminant functions and dynamic programming

    Solovyev, V. V., Salamov, A. A. & Lawrence, C. B., 1 Jan 1995, In: Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology. 3, p. 367-75 9 p.

    Research output: Contribution to journalArticlepeer-review

  100. Published

    Identifying DNA-binding proteins using structural motifs and the electrostatic potential

    Shanahan, H. P., Garcia, M. A., Jones, S. & Thornton, J. M., 2004, In: Nucleic Acids Research. 32, 16, p. 4732-4741 10 p.

    Research output: Contribution to journalArticlepeer-review

  101. E-pub ahead of print

    Immune tolerance maintained by cooperative interactions between T cells and antigen presenting cells shapes a diverse TCR repertoire

    Best, K., Chain, B. & Watkins, C., 7 Aug 2015, In: Frontiers in Immunology. 6, p. 1-14 14 p., 360.

    Research output: Contribution to journalArticlepeer-review

  102. Published

    Improving GO semantic similarity measures by exploring the ontology beneath the terms and modelling uncertainty

    Yang, H., Nepusz, T. & Paccanaro, A., 2012, In: Bioinformatics. 28, 10, p. 1383-1389 7 p.

    Research output: Contribution to journalArticlepeer-review

  103. Published

    INFOGENE: a database of known gene structures and predicted genes and proteins in sequences of genome sequencing projects

    Solovyev, V. V. & Salamov, A. A., 1 Jan 1999, In: Nucleic Acids Research. 27, 1, p. 248-250 3 p.

    Research output: Contribution to journalArticlepeer-review

  104. Published

    Insights into social insects from the genome of the honeybee Apis mellifera

    Solovyev, V. & Honeybee Genome Sequencing Consortium, 26 Oct 2006, In: Nature. 443, 7114, p. 931-49 19 p.

    Research output: Contribution to journalArticlepeer-review

  105. Published

    Integrated databases and computer systems for studying eukaryotic gene expression

    Kolchanov, N. A., Ponomarenko, M. P., Frolov, A. S., Ananko, E. A., Kolpakov, F. A., Ignatieva, E. V., Podkolodnaya, O. A., Goryachkovskaya, T. N., Stepanenko, I. L., Merkulova, T. I., Babenko, V. V., Ponomarenko, Y. V., Kochetov, A. V., Podkolodny, N. L., Vorobiev, D. V., Lavryushev, S. V., Grigorovich, D. A., Kondrakhin, Y. V., Milanesi, L., Wingender, E. & 2 others, Solovyev, V. & Overton, G. C., 1999, In: Bioinformatics. 15, 7-8, p. 669-86 18 p.

    Research output: Contribution to journalArticlepeer-review

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