Database Reference
In-Depth Information
[37] Rastan, S., and Beeley, L. J. Functional genomics: going forwards from
the databases.
Curr Opin Genet Dev. 7
, 6 (1997), 777-783.
[38] Altschul, S. F., Gish, W., Miller, W., Meyers, E. W., and Lipman, D. J.
Basic local alignment search tool.
J Mol Biol. 215
, 3 (1990), 403-410.
[39] Altschul, S. F., Madden, T. L., Schiffer, A. A., Zhang, J., Zhang, Z.,
Miller, W., and Lipman, D. J. Gapped BLAST and PSI-BLAST: a new
generation of protein database search programs.
Nucleic Acids Research
25
, 17 (1997), 3389-3402.
[40] Devos, D., and Valencia, A. Practical limits of function prediction.
Pro-
teins 41
, 1 (2000), 98-107.
[41] Whisstock, J. C., and Lesk, A. M. Prediction of protein function from
protein sequence and structure.
Q Rev Biophys. 36
, 3 (2003), 307-340.
[42] Pandey, G., Kumar, V., and Steinbach, M. Computational approaches
for protein function prediction: A survey. Tech. Rep. 06-028, Department
of Computer Science and Engineering, University of Minnesota, Twin
Cities, 2006.
[43] Bork, P., Dandekar, T., Diaz-Lazcoz, Y., Eisenhaber, F., Huynen, M.,
and Yuan, Y. Predicting function: from genes to genomes and back.
J
Mol Biol. 283
, 4 (1998), 707-725.
[44] Rost, B., Liu, J., Nair, R., Wrzeszczynski, K. O., and Ofran, Y. Auto-
matic prediction of protein function.
Cell Mol Life Sci. 60
, 12 (2003),
2637-2650.
[45] Gabaldon, T., and Huynen, M. A. Prediction of protein function and
pathways in the genome era.
Cell Mol Life Sci. 61
, 7-8 (2004), 930-944.
[46] Seshasayee, A. S. N., and Babu, M. M. Contextual inference of protein
function. In
Encyclopaedia of Genetics and Genomics and Proteomics
and Bioinformatics
, M. J. Dunn, L. B. Jorde, P. F. R. Little, and S.
Subramaniam (Eds.), Hoboken, NJ: John Wiley and Sons, 2005.
[47] Tan, P.-N., Steinbach, M., and Kumar, V.
Introduction to Data Mining
.
Pearson Addison-Wesley, 2006.
[48] Huynen, M. A., Snel, B., Bork, P., and Gibson, T. J. The phylogenetic
distribution of frataxin indicates a role in iron-sulfur cluster protein
assembly.
Hum Mol Genet. 10
, 21 (2001), 2463-2468.
[49] Myers, C. L., Robson, D., Wible, A., Hibbs, M. A., Chiriac, C., et al.
Discovery of biological networks from diverse functional genomic data.
Genome Biology 6
(2005), R114.
[50] Ashburner, M., Ball, C. A., Blake, J. A., Botstein, D., Butler, H., et al.
Gene ontology: tool for the unification of biology.
Nature Genetics 25
,
1 (2000), 25-29.
