Dr. Bruno Gaeta
- Position: Senior Lecturer
- Room: 231B, Biological Sciences
- Phone: (+61 2) 9385 2056
- Fax: (+61 2) 9385 1483
- email: bgaeta@unsw.edu.au
Professional Experience
- 1999-2001: Director of Education and Senior Scientist, eBioinformatics/Entigen
- 1993-1999: Liaison Officer then Education Officer, ANGIS
- 1992-1993: Research fellow, Heart Research Institute
Research Contribution
I am interested in bioinformatics and the design and use of computational methods for the analysis of biological systems, from biomolecular sequence analysis to complex system modelling. I worked for several years in industry, designing user interfaces for integration of bioinformatics applications that are widely used in Australia and overseas. Since returning to academia in 2002 I have developed iHMMune-align (in collaboration with Andrew Collins), a hidden Markov model-based software application that improves the analysis of rearranged immunoglobulin genes and facilitates the accurate identification of component germline genes and of clonally-related immunoglobulin gene sequences.
I also have an ongoing interest in gene expression and the computational inference of regulatory relationships from gene expression data, and in the application of bioinformatics methods for detecting deep homology. The latter has led to the identification of seipin, a protein whose mutation causes lipodystrophy in humans, as the ortholog of a yeast protein regulating lipid droplet size (in collaboration with Robert Yang)
Honours & Awards
- Board of Directors, International Society for Computational Biology
- Executive Committee, Asia-Pacific Bioinformatics Network
- Chair, Education Committee, ISCB
- Board of Management, Bioinformatics Australia
- Conference Chair, Bioinformatics Australia 2006 Conference
- National Organising Committee, Genome Informatics Workshop 2008
- Reviewer for Bioinformatics, BMC Bioinformatics, Briefings in Bioinformatics, Journal of Theoretical Biology, Nucleic Acid Research, Comparative and Functional Genomics, Biotechniques, PRiB 2007, InCoB 2006/2007, CASB 2006, ICISIP 2006, ISNIP 2004
Publications
- Helal, M., El-Gindy, H., Mullin, L. and Gaeta, B. (2008)
- Parallelizing optimal multiple sequence alignment by dynamic programming.
- In: International Symposium on Parallel and Distributed Processing with Applications, pp 669-674.
- Helal, M, Mullin, L, El-Gindy H and Gaëta, B (2007)
- Optimal distributed multiple sequence alignment using conformal computing methods in Grgic M, Sung AH and Wang G eds,
- Proceedings of the International Conference on High Performance Computing, Networking and Communication Systems HPCNCS-07, Orlando, Florida, USA, July 9-12
- Gaëta, B., Malming, H. R., Jackson, K.J. L., Bain, M.E., Wilson, P., and Collins, A. M. (2007)
- iHMMune-align: Hidden Markov model-based alignment and identification of germline segments in immunoglobulin gene sequences.
- Bioinformatics 23: 1580-1587
- Jackson, K.J., Gaeta, B., and Collins, A.M. (2007)
- Identifying highly mutated IGHD genes in the junctions of rearranged human immunoglobulin heavy chain genes
- Journal of Immunological Methods 324: 26-37
- Lee CEH, Gaeta B, Malming HR, Bain ME, Sewell WA and Collins A.M. (2006)
- Reconsidering the immunoglobulin heavy chain locus. 1. An evaluation of the expressed human IGHD repertoire
- Immunogenetics 57: 917-25.
- Bain M, Ahsan N, Potter J, Gaeta B, Temple M, Dawes I (2006)
- Learning causal networks from microarray data in M. Boden, T. Bailey Eds.
- Intelligent systems for bioinformatics, Australian Computer Society Inc., Sydney, Australia, pp. 3-8.
- Collins, A.M., M. Ikutani, D. Puiu, G.A. Buck, A. Nadkarni, and B. Gaeta (2004)
- Partitioning of rearranged immunoglobulin genes by mutation analysis demonstrates D-D fusion and V gene replacement in the expressed human repertoire.
- J Immunol. 172:340
- Jackson K.J., Gaeta B., Sewell W., Collins A.M. (2004)
- Exonuclease activity and P nucleotide addition in the generation of the expressed immunoglobulin repertoire.
- BMC Immunology 5:19
- Bain M, Gaeta B, (2003)
- Learning Quantitative Gene Interactions from Microarray Data in S. Simoff, G. Williams, M. Hegland Eds
- Proceedings of 2nd Australasian Data Mining Workshop, University Technology Sydney, Sydney, pp. 35 – 49
- Collins, A., Ikutani, M., Puiu, D., Buck, G., Nadkarni, A., & Gaeta, B. (2003)
- Partitioning of rearranged Ig genes by mutation analysis demonstrates D-D fusion and V gene replacement in the expressed human repertoire
- J. Immunol , 172:340-348