Georg Weiller

Georg Weiller studied physics at the Technical University and Biology at the Ludwig-Maximilans University (both Munich, Germany) and received his PhD in 1987 studying mobile genetic elements in yeast mitochondria. This work was continued during a postdoctoral fellowship at the Department of Biochemistry, University of Texas, South Western Medical Center at Dallas, USA (1987-90). He was appointed to ANU as a research fellow (1990) and later fellow (1995) in bioinformatics to develop new computational analytical methods and software for sequence analysis and collaborate with experimentalists in data analysis.

Research interests

  • Development of novel computational approaches to sequence analysis
  • Non-coding RNA genes
  • Gene expression networks.

Recent grants

  • ARC Centre of Excellence for Integrative Legume Research, 2003-2010; $16,900,000; P Gresshoff; BG Rolfe, MB Singh, RJ Rose, BJ Carroll, CA Beveridge, U Mathesius, MA Djordjevic, PL Bhalla, GF Weiller, CR Parrish.>
  • ARC Discovery grant, 2008-2010, jointly with J Keith, P Adams, $240,000.

Selected publications

  • Frickey T, Weiller GF (2007). Mclip: Motif detection based on cliques of gapped local profile-to-profile alignments. Bioinformatics 23(4):502–503.
  • Frickey T, Weiller GF (2007). Analysing microarray data using CLANS. Bioinformatics 23(9):1170–1171.
  • Goffard N, Weiller GF (2007). GeneBins: a database for classifying gene expression data, with application to legume genome arrays. BMC Bioinformatics 8:87. doi:10.1186/1471-2105-8-87 (March 2007)
  • Goffard N, Weiller GF (2007). PathExpress: a web-based tool to identify relevant pathways in gene expression data. Nucleic Acids Research 35(Suppl 2):W176–W181.
  • Wen J, Parker, BJ, Weiller GF (2007) In silico identification and characterization of mRNA-like noncoding transcripts in Medicago truncatula. In Silico Biology 7:485–505. 
  • Benedito VA, Udvardi M, Weiller GF (2008). AffyTrees: facilitating comparative analysis of Affymetrix plant microarray chips. Plant Physiology 146:377–386.
  • Oelkers K, Goffard N, Weiller GF, Gresshof, PM, Mathesius U, Frickey T (2008). Bioinformatic analysis of the CLE signalling peptide family. BMC Plant Biology 8:1 doi:10.1186/1471-2229-8-1.
  • Wen J, Parker BJ, Weiller GF (2008). Analysis of structural strand asymmetry in non-coding RNAs. In: Brazma A, Miyano S, Akutsu T, (eds), Advances in Bioinformatics and Computational Biology, Imperial College Press. 
  • Holmes P, Goffard N, Weiller GF, Rolfe BG, Imin N (2008). Transcriptional profiling of Medicago truncatula meristematic root cells. BMC Plant Biology 8:21.
  • Weiller GF (2008). Detecting genetic recombination. In: Bioinformatics, Volume 1: Data, Sequence Analysis and Evolution. Methods in Molecular Biology, Keith JM (ed), Humana Press, Totowa, New Jersey, 471–483. 
  • Goffard N, Weiller GF (2008). Identifying components of complexes. In: Bioinformatics, Volume 2: Structure, Function and Applications. Methods in Molecular Biology, Keith JM (ed), Humana Press, Totowa, New Jersey, 257–265. 
  • Benedito V, Torez-Jerez I, Murray J, Andriankaja A, Allen S, Kakar K, Wandrey M, Verdier J, Zuber H, Ott T, Moreau S, Niebel A, Frickey T, Weiller G, He J, Dai X, Zhao P, Tang Y, Udvardi M (2008). A gene expression atlas of the model legume Medicago truncatula. The Plant Journal doi:10.1111/j.1365-313X.2008.03519.x
  • Wen J, Frickey, T, Weiller GF (2008). Computational prediction of candidate miRNAs and their targets from Medicago truncatula non-protein-coding transcripts. In Silico Biology 8, 0024.
  • Goffard N, Frickey T, Imin N, Weiller GF (2008). Exploring the enzyme neighbourhood to interpret gene expression data. In: Beyer A, Schroeder M (eds), Lecture Notes in Informatics P-136, 21–29. 
  • Høgslund N, Radutoiu S, Krusell L, Voroshilova V, Hannah M, Goffard N, Sanchez DH, Lippold,F, Ott T, Sato S, Tabata S, Liboriussen P, Lohmann G, Schauser L, Weiller G, Udvardi M K, Stougaard J (2009). Legume transcriptomics: dissection of symbiosis and organ development by integrated transcriptome analysis of Lotus japonicus mutant and wild-type plants. PLoS One 4(8), e6556 DOI:10.1371/journal.pone.0006556. 
  • Goffard N, Frickey T, Weiller GF (2009). PathExpress update: the enzyme neighbourhood method of associating gene-expression data with metabolic pathways.Nucleic Acids Research 37, W335–339. 
  • Hernández G, Valdés-López O, Ramirez M, Goffard N, Weiller G, Aparicio-Fabre, R, Fuentes S I, Erban A, Kopka J, Udvardi MK, Vance CP (2009). Phosphorus deficiency in common bean nodules: global changes in the transcript and metabolic profiles during symbiotic nitrogen fixation in phosphorus-stressed common bean plants. Plant Physiology 151(3), 1221–1238. 
  • Hueber SD, Weiller GF, Djordjevic MA, Frickey T (2010). Improving Hox protein classification across the major model organisms. PLoS One 5(5), e10820 doi: 10.1371/journal.pone.0010820. 

Selected computer programs

  • RAPDistance - Armstrong J, Gibbs A, Peakall R, Weiller GF
    A PC-DOS program suite that determines the distances between DNA samples using the presence of shared RFLP or RAPD segments
  • DiPloMO - Weiller GF
    An interactive computer graphics application for windows that uses the distance plot principle in a new and powerful approach to phylogenetic analysis
  • TreDis - Weiller GF
    A C++ program that finds the patristic distances between all taxa in a phylogenetic tree
  • GPRIME - Armstrong JS, Gibbs AJ, Weiller GF 
    A program package for designing degenerative PCR primers that are specific to a group of aligned homologous nucleotide sequences
  • PhylPro - Weiller GF
    An interactive computer graphics application for Windows 95/NT that provides a new and sensitive approach to recombination analysis
  • TransAlign - Weiller GF 
    A Java program package for aligning coding nucleotide sequences according to the corresponding amino acid alignments 
  • BlatView - Frickey T, Weiller GF 
    A Java program that displays ESTs mapped to a genome
  • CLANS - Frickey T, Weiller GF
    Microarray analysis using CLANS.

Selected Webservers

  • GeneBins - Goffard N, Weiller GF 
    A databse for classifying gene expression data, application to plant genome arrays
  • Mclip - Frickey T, Weiller GF 
    Motif detection based on cliques of profile-profile alignments
  • CLANS - Frickey T, Weiller GF 
    Microarray analysis using CLANS
  • PathExpress - Goffard N, Weiller GF 
    A web-based tool to identify relevant pathways in gene expression data
  • AffyTrees - Frickey T, Weiller GF 
    Facilitates comparative analysis of Affymetrix plant microarray chips
  • Medicago-MIRATdb - Wen J, Frickey T, Weiller GF 
    Medicago truncatula putative miRNA and target database
  • Web-CLUEs - Frickey T, Weiller GF 
    Web-based CLUstering of expression data 
  • MotifDraw - Frickey T, Weiller GF
    Create a graphical representation of a motif .