Name: Weiner, January 3rd

Status: Postdoc


Tel.: +49-(0)251-83-



  • 2010: venia docendi
  • 2009: postdoc at the Institute of Bioinformatics, Universitätsklinikum, Münster
  • 2003 -- 2009: postdoc at the University Münster
  • 2003 : postdoc at the ZMBH, University of Heidelberg
  • 2003: Ph.D. at the ZMBH, University of Heidelberg
  • Bornberg-Bauer E, Beaussart F, Kummerfeld SK, Teichmann SA, Weiner J 3rd. The evolution of domain arrangements in proteins and interaction networks. Cell Mol Life Sci. 2005 Feb;62(4):435-45. Review. (corresponding author)
Research articles
  • Moore AD, Held A, Terrapon N, Weiner J and Bornberg-Bauer E
    DoMosaics: Software for domain arrangement visualization and domain-centric analysis of proteins.
    Bioinformatics, 2014
  • Terrapon N*, Weiner J*, Grath S, Moore AD and Bornberg-Bauer E
    Rapid similarity search of proteins using alignments of domain arrangements
    Bioinformatics, 2014
  • Terrapon N, Grath S, Weiner J, Moore AD and Bornberg-Bauer E
    Fast Homology Search Using Domain-Architecture Alignment
    JOBIM, Conference proceedings, 2012
  • January Weiner 3rd, Francois Beaussart, Erich Bornberg-Bauer
    Rapid similarity search of proteins using alignments of domain arrangements
  • B. Oeser, F. Beaussart, T. Haarmann, N. Lorenz, E. Nathues, Y. Rolke, J. Sche er, J. Weiner 3rd and P. Tudzynski. Expressed sequence tags from the ower pathogen Claviceps purpurea. Mol. Plant. Path. in press, 2009.
  • J. Weiner 3rd, A. D. Moore, E. Bornberg-Bauer. Just how versatile are domains?  BMC Evolutionary Biology, 8:285, 2008
  • F. Friedrichs, L. Henckaerts, S. Vermaire, T. Kucharzik, T. Seehafer, M. Krull, E. Bornberg-Bauer, M. Stoll, J. Weiner. Discovery of a caspase recruitment domain in the Crohn's disease susceptibility gene DLG5 by sequence comparison and phylogenies . J. Mol. Med., 86(4):423-432, 2008. (corresponding author)
  • H. Schulenburg, M. Hoeppner, J. Weiner III, E. Bornberg-Bauer
    Specificity of the innate immune system and diversity of C-type lectin domain (CTLD) proteins in the nematode Caenorhabditis elegans . Immunobiology, 213(3-4):237-250, 2008.
  • Thorsten BH Reusch*, Amelie S Veron*, Christoph Sapper, January Weiner, Lothar Wissler, Alfred Beck, Sven Klages, Michael Kube, Richard Reinhardt and Erich Bornberg-Bauer
    Comparative analysis of expressed sequence tag libraries in the seagrass Zostera marina subjected to temperature stress
    Marine Biotechnology. 10(3):297-309, 2008.
  • E. A. Tsavkelova, C. Bomke, A. I. Netrusov, J. Weiner 3rd and B. Tudzynski. Production of gibberellic acids by an orchid-associated Fusarium proliferatum strain Fungal Genet. Biol., 45:1393-1403, 2008.
  • Francois Beaussart, January Weiner 3rd, Erich Bornberg-Bauer
    Automated Improvement of Domain ANnotations using context analysis of Domain Arrangements (AIDAN)
    Supplementary material
    Bioinformatics 2007 doi: 10.1093/bioinformatics/btm240
    [Online access]
  • G. Amoutzias, A. Veron, J. Weiner, M. Robinson-Rechavi, E. Bornberg-Bauer, S. Oliver, D. Robertson
    One billion years of bZIP transcription factor evolution: conservation and change in dimerization and DNA-binding site specificity
    Mol Biol Evol 2007 24: 827-835 doi:10.1093/molbev/msl211 [MBE abstract]
  • J. Weiner, F. Beaussart, E. Bornberg-Bauer
    Domain Deletions and Substitutions in the Modular Protein Evolution
    FEBS J. 2006, 273:2037-2047, doi:10.1111/j.1742-4658.2006.05220.x
  • Weiner J 3rd, Bornberg-Bauer E.
    Evolution of Circular Permutations In Multi-Domain Proteins
    Mol Biol Evol, 2006
  • Weiner J 3rd, Thomas G, Bornberg-Bauer E.
    Rapid motif-based prediction of circular permutations in multi-domain proteins.
    Bioinformatics, 2005
  • Bornberg-Bauer E, Beaussart F, Kummerfeld S, Teichmann S and Weiner J
    The Evolution of Domain Arrangements in Proteins and Interaction Networks (Review)
    CMLS, 2005
  • Amoutzias GD, Weiner J, Bornberg-Bauer E.
    Phylogenetic profiling of protein interaction networks in eukaryotic transcription factors reveals focal proteins being ancestral to hubs. Gene. 2005 Feb 23; (equal 1st author)
  • Catrein I, Dumke R, Weiner J 3rd, Jacobs E, Herrmann R.
    Cross-complementation between the products of the genes P1 and ORF6 of Mycoplasma pneumoniae subtypes 1 and 2. Microbiology. 2004 Dec;150(Pt 12):3989-4000
  • Weiner J 3rd, Zimmerman CU, Gohlmann HW, Herrmann R. Transcription profiles of the bacterium Mycoplasma pneumoniae grown at different temperatures. Nucleic Acids Res. 2003 Nov 1;31(21):6306-20.
  • Bornberg-Bauer E, Weiner J 3rd. A putative transcription factor inducing mobility in Mycoplasma pneumoniae. Microbiology. 2002 Dec;148(Pt 12):3764-5.
  • Weiner J 3rd, Herrmann R, Browning GF. Transcription in Mycoplasma pneumoniae. Nucleic Acids Res. 2000 Nov 15;28(22):4488-96.
  • Gohlmann HW, Weiner J 3rd, Schon A, Herrmann R. Identification of a small RNA within the pdh gene cluster of Mycoplasma pneumoniae and Mycoplasma genitalium. J Bacteriol. 2000 Jun;182(11):3281-4. (equal 1st author)
  • Weiner 3rd, J., Zimmermann, C.-U., Ueberle, B. and Herrmann, R. (2002) Transcriptome and Proteome Analyses of Mollicutes. In: "Molecular Biology and Pathogenicity of Mycoplasmas (Eds.: S. Razin and R. Herrmann) Kluwer Academic Plenum Publishers, 279-302.
Conference Proceedings
  • Herrmann, R., H.W.H. Göhlmann, J.T. Regula, J. Weiner III, E. Pirkl, B. Ueberle and R. Frank (1999). Mycoplasmas, the smallest known bacteria. In: Göbel, U.T. (ed.) Mikrobielle Evolution und Infektion - 50. Tagung der DGHM und 25. Jahrestagung der DGI. Einhorn-Presse Verlag GMBH, Reinebek.