Select Publications

by Dr Bruno Andre Gaeta

Journal articles

Corpas M; Jimenez RC; Bongcam-Rudloff E; Budd A; Brazas MD; Fernandes PL; Gaeta B; van Gelder C; Korpelainen E; Lewitter F; McGrath A; MacLean D; Palagi PM; Rother K; Taylor J; Via A; Watson M; Schneider MV; Attwood TK, 2015, 'The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers.', Bioinformatics, vol. 31, no. 1, pp. 140 - 142, http://dx.doi.org/10.1093/bioinformatics/btu601

Zhou L; Griffith R; Gaeta B, 2014, 'Combining spatial and chemical information for clustering pharmacophores.', BMC Bioinformatics, vol. 15 Suppl 16, pp. S5, http://dx.doi.org/10.1186/1471-2105-15-s16-s5

Ballouz S; Liu JY; Oti M; Gaeta B; Fatkin D; Bahlo M; Wouters MA, 2014, 'Candidate disease gene prediction using Gentrepid: application to a genome-wide association study on coronary artery disease.', Molecular Genetics and Genomic Medicine, vol. 2, no. 1, pp. 44 - 57, http://dx.doi.org/10.1002/mgg3.40

Wang Y; Jackson KJ; Davies J; Chen Z; Gaeta BA; Rimmer J; Sewell WA; Collins AM, 2014, 'IgE-associated IGHV genes from venom and peanut allergic individuals lack mutational evidence of antigen selection.', PLoS One, vol. 9, no. 2, pp. e89730, http://dx.doi.org/10.1371/journal.pone.0089730

Welch L; Lewitter F; Schwartz R; Brooksbank C; Radivojac P; Gaeta B; Schneider MV, 2014, 'Bioinformatics curriculum guidelines: toward a definition of core competencies.', PLoS Computational Biology, vol. 10, no. 3, pp. e1003496, http://dx.doi.org/10.1371/journal.pcbi.1003496

Ballouz S; Liu JY; George RA; Bains N; Liu A; Oti M; Gaeta B; Fatkin D; Wouters MA, 2013, 'Gentrepid V2.0: a web server for candidate disease gene prediction.', BMC Bioinformatics, vol. 14, pp. 249, http://dx.doi.org/10.1186/1471-2105-14-249

Jackson KJ; Wang Y; Gaeta BA; Pomat W; Siba P; Rimmer J; Sewell WA; Collins AM, 2012, 'Divergent human populations show extensive shared IGK rearrangements in peripheral blood B cells.', Immunogenetics, vol. 64, no. 1, pp. 3 - 14, http://dx.doi.org/10.1007/s00251-011-0559-z

Boyd SD; Gaëta BA; Jackson KJ; Fire AZ; Marshall EL; Merker JD; Maniar JM; Zhang LN; Sahaf B; Jones CD; Simen BB; Hanczaruk B; Nguyen KD; Nadeau KC; Egholm M; Miklos DB; Zehnder JL; Collins AM, 2010, 'Individual variation in the germline Ig gene repertoire inferred from variable region gene rearrangements.', Journal of Immunology, vol. 184, no. 12, pp. 6986 - 6992, http://dx.doi.org/10.4049/jimmunol.1000445

Jackson KJ; Boyd S; Gaëta BA; Collins AM, 2010, 'Benchmarking the performance of human antibody gene alignment utilities using a 454 sequence dataset.', Bioinformatics, vol. 26, no. 24, pp. 3129 - 3130, http://dx.doi.org/10.1093/bioinformatics/btq604

Kadupitige SR; Leung KC; Sellmeier J; Sivieng J; Catchpoole DR; Bain ME; Gaëta BA, 2009, 'MINER: exploratory analysis of gene interaction networks by machine learning from expression data.', BMC Genomics, vol. 10 Suppl 3, pp. S17, http://dx.doi.org/10.1186/1471-2164-10-s3-s17

Fei W; Shui G; Gaeta B; Du X; Kuerschner L; Li P; Brown AJ; Wenk MR; Parton RG; Yang H, 2008, 'Fld1p, a functional homologue of human seipin, regulates the size of lipid droplets in yeast.', The Journal of Cell Biology, vol. 180, no. 3, pp. 473 - 482, http://dx.doi.org/10.1083/jcb.200711136

Gaëta BA; Malming HR; Jackson KJ; Bain ME; Wilson P; Collins AM, 2007, 'iHMMune-align: hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences.', Bioinformatics, vol. 23, no. 13, pp. 1580 - 1587, http://dx.doi.org/10.1093/bioinformatics/btm147

Lee CE; Gaëta B; Malming HR; Bain ME; Sewell WA; Collins AM, 2006, 'Reconsidering the human immunoglobulin heavy-chain locus: 1. An evaluation of the expressed human IGHD gene repertoire.', Immunogenetics, vol. 57, no. 12, pp. 917 - 925, http://dx.doi.org/10.1007/s00251-005-0062-5

Collins AM; Ikutani M; Puiu D; Buck GA; Nadkarni A; Gaeta B, 2004, 'Partitioning of rearranged Ig genes by mutation analysis demonstrates D-D fusion and V gene replacement in the expressed human repertoire.', Journal of Immunology, vol. 172, no. 1, pp. 340 - 348, http://dx.doi.org/10.4049/jimmunol.172.1.340

Jackson KJ; Gaeta B; Sewell W; Collins AM, 2004, 'Exonuclease activity and P nucleotide addition in the generation of the expressed immunoglobulin repertoire.', BMC Immunology, vol. 5, pp. 19, http://dx.doi.org/10.1186/1471-2172-5-19

Gaëta BA, 2000, 'BLAST on the Web.', BioTechniques: the journal of laboratory technology for bioresearch, vol. 28, no. 3, pp. 436 - 440

Littlejohn TG; Bucholtz CA; Campbell RMM; Gaeta BA; Huynh C; Kim SH, 1996, 'Computing for biotechnology - WebANGIS', Australasian Biotechnology, vol. 6, no. 4, pp. 211 - 217

GAETA BA, 1995, 'DATABASE SIMILARITY SEARCHING USING BLAST AND FASTA', Australasian Biotechnology, vol. 5, no. 5, pp. 282 - 290

Gaëta BA; Borthwick I; Stanley KK, 1994, 'The 5'-flanking region of the alpha 2MR/LRP gene contains an enhancer-like cluster of Sp1 binding sites.', Biochimica et Biophysica Acta: international journal of biochemistry and biophysics, vol. 1219, no. 2, pp. 307 - 313

Gaëta BA; Sharp SJ; Stewart TS, 1990, 'Saturation mutagenesis of the Drosophila tRNA(Arg) gene B-Box intragenic promoter element: requirements for transcription activation and stable complex formation.', Nucleic Acids Research, vol. 18, no. 6, pp. 1541 - 1548, http://dx.doi.org/10.1093/nar/18.6.1541

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Conference Papers

Chen Z; Collins AM; Wang Y; Gaëta BA, 2010, 'Clustering-based identification of clonally-related immunoglobulin gene sequence sets.', in Immunome research, pp. S4, http://dx.doi.org/10.1186/1745-7580-6-s1-s4

Helal M; El-Gindy H; Mullin L; Gaeta B, 2008, 'Parallelizing optimal multiple sequence alignment by dynamic programming', in Proceedings of the 2008 International Symposium on Parallel and Distributed Processing with Applications, ISPA 2008, pp. 669 - 674, http://dx.doi.org/10.1109/ISPA.2008.93

Helal M; Mullin LR; El-Gindy H; Gaëta B, 2007, 'Optimal distributed multiple sequence alignment using conformal computing methods', in International Conference on High Performance Computing, Networking and Communication Systems 2007, HPCNCS 2007, pp. 120 - 127

Bain ME; Ahsan N; Potter JM; Gaeta BA; Temple MD; Dawes IW, 2006, 'Learning causal networks from microarray data', in Workshop on Intelligent systems for bioinformatics, 2006, presented at Workshop on Intelligent systems for bioinformatics, 2006, Hobart, 4 December 2006

Collins A; Ikutani M; Nadkarni A; Gaeta B; Sewell W, 2003, 'Analysis of the distribution of point mutations can be used to evaluate D segment alignments of rearranged immunoglobulin heavy chain genes', in FASEB JOURNAL, FEDERATION AMER SOC EXP BIOL, pp. C193 - C193, presented at 90th Annual Meeting of the American-Association-for-Immunologists, DENVER, COLORADO, 6 - 10 May 2003

Bain ME; Gaeta BA, 2003, 'Learning Quantitative Gene Interactions from Microarray Data', in 2003 Congress on Evolutionary Computation CEC 2003, presented at IEEE Congress on Evolutionary Computation (CEC 2003), Canberra, 8 - 12 December 2003


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