Select Publications by Dr Bruno Andre Gaeta

Journal articles

Bayat A;Gaëta B;Ignjatovic A;Parameswaran S, 2016, 'Improved VCF normalization for accurate VCF comparison.', Bioinformatics,

Welch L;Brooksbank C;Schwartz R;Morgan SL;Gaeta B;Kilpatrick AM;Mietchen D;Moore BL;Mulder N;Pauley M;Pearson W;Radivojac P;Rosenberg N;Rosenwald A;Rustici G;Warnow T, 2016, 'Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB’s Education Committee)', PLoS Computational Biology, vol. 12,

Atwood TK;Bongcam-Rudloff E;Brazas ME;Corpas M;Gaudet P;Lewitter F;Mulder N;Palagi PM;Schneider MV;van Gelder CW G;Attwood TK;Banag C;Blackford S;Blatter MC;Bongcam-Rudloff E;Brazas MD;Brooksbank C;Budd A;Charleston M;Christoffels A;Conesa A;Corpas M;Crowe M;Davies A;de Crecy-Lagard V;De Las Rivas J;Doyle M;Edwards R;Facchiano A;Fernandes P;Gaeta B;Gaudet P;Heger A;Herringa J;Hughes D;Jimenez RC;Kille P;Korpelainen E;Kumuthini J;Lewitter F;MacLean D;Martinez SA R;McGrath A;Michalopoulos I;Mulder N;Ouellette BF;Palagi PM;Pearson WR;Qi W;Romano P;Rother K;Sansone SA;Schneider MV;Schönbach C;Tastan-Bishop O;Trelles O;Twells R;van Gelder CW G;Via A;Vriend G;Warnow T;Watson M;Westervelt N;Zanzoni A, 2015, 'GOBLET: The Global Organisation for Bioinformatics Learning, Education and Training', PLoS Computational Biology, vol. 11,

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, pp. 140 - 142,

Zhou L;Griffith R;Gaeta B, 2014, 'Combining spatial and chemical information for clustering pharmacophores', BMC Bioinformatics, vol. 15,

Wang Y;Jackson KJ L;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,

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,

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.', Mol Genet Genomic Med, vol. 2, pp. 44 - 57,

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,

Jackson KJ L;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, pp. 3 - 14,

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, pp. 6986 - 6992,

Jackson KJ L;Boyd S;Gaëta BA;Collins AM, 2010, 'Benchmarking the performance of human antibody gene alignment utilities using a 454 sequence dataset', Bioinformatics, vol. 26, pp. 3129 - 3130,

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

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', Journal of Cell Biology, vol. 180, pp. 473 - 482,

Gaëta BA;Malming HR;Jackson KJ L;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, pp. 1580 - 1587,

Jackson KJ L;Gaëta BA;Collins AM, 2007, 'Identifying highly mutated IGHD genes in the junctions of rearranged human immunoglobulin heavy chain genes', Journal of Immunological Methods, vol. 324, pp. 26 - 37,

Lee CE H;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, pp. 917 - 925,

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, pp. 340 - 348

Jackson KJ L;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,

Littlejohn T;Gaëta B, 2001, 'A bioinformatics perspective on the complexity of being human', Today's Life Science, vol. 13, pp. 26 - 33

Ross BC;Czajkowski L;Hocking D;Margetts M;Webb E;Rothel L;Patterson M;Agius C;Camuglia S;Reynolds E;Littlejohn T;Gaeta B;Ng A;Kuczek ES;Mattick JS;Gearing D;Barr IG, 2001, 'Identification of vaccine candidate antigens from a genomic analysis of Porphyromonas gingivalis', Vaccine, vol. 19, pp. 4135 - 4142,

Gaëta BA, 2000, 'BLAST on the Web.', BioTechniques, vol. 28

Gaëta B, 2000, 'BLAST ... what next?', BioTechniques, vol. 28, pp. 874 - 876

Gaëta BA;Bucholtz CA;Campbell R;Huynh C;Kim S;Reisner AH, 1996, 'Biocomputing education by the Australian National Genomic Information Service.', Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, pp. 319 - 330

Littlejohn TG;Bucholtz CA;Campbell RM M;Gaëta BA;Huynh C;Kim SH, 1996, 'Computing for biotechnology - WebANGIS', Australasian Biotechnology, vol. 6, pp. 211 - 217


Gaëta BA;Borthwick I;Stanley KK, 1994, 'The 5′-flanking region of the α2MR/LRP gene contains an enhancer-like cluster of Sp1 binding sites', BBA - Gene Structure and Expression, vol. 1219, pp. 307 - 313,

Gaëta BA;Sharp SJ;Stewart TS, 1990, 'Saturation mutagenesis of the Drosophila tRNAArg gene B-box intragenic promoter element: Requirements for transcription activation and stable complex formation', Nucleic Acids Research, vol. 18, pp. 1541 - 1548,

Valencia A;Markel S;Gaeta B;Gaasterland T;Lengauer T;Berger B;Orengo C, 'ISCB’s initial reaction to New England Journal of Medicine editorial on data sharing', F1000Research,

Conference Papers

Chen Z;Collins AM;Wang Y;Gata BA, 2010, 'Clustering-based identification of clonally-related immunoglobulin gene sequence sets', in Immunome Research,

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,

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

Gaeta B;Graves J;Lee SY;Panchenko A;Nicholas F, 2006, 'Bioinfomatics Australia 2006: Inaugural National Conference - Connecting Australian Bioinformatics 21-22 November 2006, Sydney Convention & Exhibition Centre', in Australasian Biotechnology, pp. 64

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, Workshop on Intelligent systems for bioinformatics, 2006, Hobart, presented at Workshop on Intelligent systems for bioinformatics, 2006, Hobart, 04 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, DENVER, COLORADO, pp. C193 - C193, presented at 90th Annual Meeting of the American-Association-for-Immunologists, DENVER, COLORADO, 06 - 10 May 2003,

Bain ME;Gaeta BA, 2003, 'Learning Quantitative Gene Interactions from Microarray Data', in 2003 Congress on Evolutionary Computation CEC 2003, IEEE Congress on Evolutionary Computation (CEC 2003), Canberra, presented at IEEE Congress on Evolutionary Computation (CEC 2003), Canberra, 08 - 12 December 2003

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