UMBER (University of Manchester: Bioinformatics Education and Research) is a Specialist Node, with main expertise in database development, design of visualisation, database search & protein family annotation software, and provision of bioinformatics training.
UMBER is home of: - the PRINTS protein fingerprint database and its relational cousin, PRINTS-S
- the CADRE, Central Aspergillus Data REpository
- the Chick Website
- the Drosophila DNaseI footprint database
- the fuGIMS multiple fungal species resource
- the Phosphabase protein phosphatase information resource
- UTOPIA, an interoperable toolkit uniting CINEMA & Ambrosia
- the myGrid platform
- automatic & decision-support annotation tools, such as PRECIS, METIS & BioIE
- the Crescendo tool for identifying functional sites in proteins
- naccess for calculating the accessible area of a molecule from a PDB file
- PhosPatch for analysing charge and accessibility at potential phosphorylation sites
- EMBER, a Web- and CD-ROM-based interactive bioinformatics tutorial
- the first Bioinformatics MSc in the UK
- a vigorous graduate research programme
Our Faculty Researcher of the Year is Dr Casey Bergman: http://www.ls.manchester.ac.uk/research/themes/bioinformatics/people/index.asp?id=3055
References | 1 | Aerts S, Haeussler M, van Vooren S, Griffith OL, Hulpiau P, Jones SJ, Montgomery SB, Bergman CM, The Open Regulatory Annotation Consortium (2008) Text-mining assisted regulatory annotation. Genome Biology 9: R31. | | 2 | Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ, (2008) miRBase: tools for microRNA genomics. Nucleic acids research 36(Database issue): D154-8. | | 3 | Hakes L, Pinney JW, Robertson DL, Lovell SC, (2008) Protein-protein interaction networks and biology--what's the connection?. Nature biotechnology 26(1): 69-72. | | 4 | Laing E, Sidhu K, Hubbard SJ, (2008) Predicted transcription factor binding sites as predictors of operons in Escherichia coli and Streptomyces coelicolor. BMC genomics 9(1): 79. | | 5 | Nacher JC, Schwartz JM (2008) A global view of drug-therapy interactions. BMC Pharmacology 8: 5. | | 6 | Whelan S (2008) Spatial and Temporal Heterogeneity in Nucleotide Sequence Evolution. Mol. Biol. Evol. 25: 1683-1694.
| | 7 | Siepen JA, Belhajjame K, Selley JN, Embury SM, Paton NW, Goble CA, Oliver SG, Stevens R, Zamboulis L, Martin N, Poulovassillis A, Jones P, Côté R, Hermjakob H, Pentony MM, Jones DT, Orengo CA, Hubbard SJ, (2008) ISPIDER Central: an integrated database web-server for proteomics. Nucleic acids research. | | 8 | Stockinger, H., Attwood, T.K., Chohan, S.N., Cote, R., Cudre-Mauroux, P., Falquet, L., Fernandes, P., Finn, R.D., Hupponen, T., Korpelainen, E., Labarga, A., Laugraud, A., Lima, T., Pafilis, E., Pagni, M., Pettifer, S., Phan, I., Rahman, N. (2008) Experience using Web services for biological sequence analysis. Briefings in Bioinformatics, doi:10.1093/bib/bbn029. | | 9 | Archer J, Robertson DL, (2007) Understanding the diversification of HIV-1 groups M and O. AIDS 21(13): 1693-700. | 10
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| Bergman CM, Bensasson D (2007) Recent LTR retrotransposon insertion contrasts with waves of non-LTR insertion since speciation in Drosophila melanogaster. Proceedings of the National Academy of Sciences (USA) 104: 11340-11345. Mulder, N.J., Apweiler, R., Attwood, T.K., Bairoch, A., Binns, D., Bork, P., Cerutti, L., Copley, R., Courcelle, E., Das, U., Daugherty, L., Dibley, M., Finn, R., Fleischmann, W., Haft, D., Hulo, N., Hunter, S., Kanapin, A., Kejariwal, A., Labarga, A. (2007) New developments in the InterPro database. Nucleic Acids Res., 35, D224-D228. |
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