Center for Computational and Theoretical Biology

Jörg Schultz

Prof. Dr. Jörg Schultz

Group Leader at the CCTB


Professor for Bioinformatics

Department of Bioinformatics, Biocenter, University Würzburg

Tel: 0931 - 31 84553

eMail: Joerg.Schultz@uni-wuerzburg.de


There are just two questions to be asked in evolution:

How are things related - and what makes them differ?

  AM Dean EMBO reports (2010) 11, 409

Curriculum Vitae

2015 - 2019 Managing Board Center for Computational and Theoretical Biology, University Würzburg
2004 - now Co-opted Faculty for Mathematics and Informatics, University Würzburg
2003 - now C3 Professor for Bioinformatics Faculty of Biology, University Würzburg
2002 - 2003 Groupleader Max-Planck-Institut for Molecular Genetics, Department Computational Molecular Biology, Berlin
2000 - 2002 Groupleader Bioinformatics cellzome, Heidelberg
1996 - 2000 PhD student (PreDoc) EMBL Heidelberg
1995 - 1996 Diploma thesis EMBL Heidelberg
1991 - 1996 Study of biology at the university of Konstanz  


[ 2020 ] [ 2019 ] [ 2018 ] [ 2016 ] [ 2015 ] [ 2014 ] [ 2013 ] [ 2012 ] [ 2010 ] [ 2009 ] [ 2008 ] [ 2007 ] [ 2006 ] [ 2005 ] [ 2004 ] [ 2002 ] [ 2001 ] [ 2000 ] [ 1999 ] [ 1998 ] [ 1997 ] [ 1996 ]

2020 [ to top ]

  • The Venus flytrap trigger hair-specific potassium channel KDM1 can reestablish the K+ gradient required for hapto-electric signaling. Iosip, A. L.; Böhm, J.; Scherzer, S.; Al-Rasheid, K. A. S.; Dreyer, I.; Schultz, J.; Becker, D.; Kreuzer, I.; Hedrich, R. in PLoS Biol (2020). 18(12) e3000964.
  • How to Grow a Tree: Plant Voltage-Dependent Cation Channels in the Spotlight of Evolution. Dreyer, I.; Sussmilch, F. C.; Fukushima, K.; Riadi, G.; Becker, D.; Schultz, J.; Hedrich, R. in Trends Plant Sci (2020).
  • Genomes of the Venus Flytrap and Close Relatives Unveil the Roots of Plant Carnivory. Palfalvi, G.; Hackl, T.; Terhoeven, N.; Shibata, T. F.; Nishiyama, T.; Ankenbrand, M.; Becker, D.; Förster, F.; Freund, M.; Iosip, A.; Kreuzer, I.; Saul, F.; Kamida, C.; Fukushima, K.; Shigenobu, S.; Tamada, Y.; Adamec, L.; Hoshi, Y.; Ueda, K.; Winkelmann, T.; Fuchs, J.; Schubert, I.; Schwacke, R.; Al-Rasheid, K.; Schultz, J.; Hasebe, M.; Hedrich, R. in Curr Biol (2020). 30(12) 2312–2320.
  • BCdatabaser: on-the-fly reference database creation for DNA (meta-)barcoding. Keller, Alexander; Hohlfeld, Sonja; Kolter, Andreas; Schultz, Jörg; Gemeinholzer, Birgit; Ankenbrand, Markus J. in Bioinformatics (2020). in press.

2019 [ to top ]

  • Venus flytrap microbiotas withstand harsh conditions during prey digestion. Sickel, W.; Van de Weyer, A. L.; Bemm, F.; Schultz, J.; Keller, A. in FEMS Microbiol. Ecol. (2019). 95(3)
  • Acquiring Control: The Evolution of Stomatal Signalling Pathways. Sussmilch, F. C.; Schultz, J.; Hedrich, R.; Roelfsema, M. R. G. in Trends Plant Sci. (2019). 24(4) 342–351.

2018 [ to top ]

  • reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome. Terhoeven, Niklas; Schultz, Jörg; Hackl, Thomas in Journal of Open Source Software (2018). 3(22) 527.

2016 [ to top ]

  • WHAMY is a novel actin polymerase promoting myoblast fusion, macrophage cell motility and sensory organ development in Drosophila. Brinkmann, K.; Winterhoff, M.; Onel, S. F.; Schultz, J.; Faix, J.; Bogdan, S. in J. Cell. Sci. (2016). 129(3) 604–620.
  • Venus flytrap carnivorous lifestyle builds on herbivore defense strategies. Bemm, F.; Becker, D.; Larisch, C.; Kreuzer, I.; Escalante-Perez, M.; Schulze, W. X.; Ankenbrand, M.; Van de Weyer, A. L.; Krol, E.; Al-Rasheid, K. A.; Mithofer, A.; Weber, A. P.; Schultz, J.; Hedrich, R. in Genome Res. (2016). 26(6) 812–825.
  • Genome of a tardigrade: Horizontal gene transfer or bacterial contamination?. Bemm, F.; Weiss, C. L.; Schultz, J.; Forster, F. in Proc. Natl. Acad. Sci. U.S.A. (2016).
  • Gating of the two-pore cation channel AtTPC1 in the plant vacuole is based on a single voltage-sensing domain. Ja?lan, D.; Mueller, T. D.; Becker, D.; Schultz, J.; Cuin, T. A.; Marten, I.; Dreyer, I.; Schonknecht, G.; Hedrich, R. in Plant Biol (Stuttg) (2016). 18(5) 750–760.
  • ALVIS: interactive non-aggregative visualization and explorative analysis of multiple sequence alignments. Schwarz, R. F.; Tamuri, A. U.; Kultys, M.; King, J.; Godwin, J.; Florescu, A. M.; Schultz, J.; Goldman, N. in Nucleic Acids Res. (2016). 44(8) e77.

2015 [ to top ]

  • ITS2 Database V: Twice as Much. Ankenbrand, M. J.; Keller, A.; Wolf, M.; Schultz, J.; Forster, F. in Mol. Biol. Evol. (2015). 32(11) 3030–3032.
  • Identification of divergent WH2 motifs by HMM-HMM alignments. Weiss, C.; Schultz, J. in BMC Res Notes (2015). 8(1) 18.

2014 [ to top ]

  • Word formation is aware of morpheme family size. Keller, D. B.; Schultz, J. in PLoS ONE (2014). 9(4) e93978.
  • proovread: large-scale high-accuracy PacBio correction through iterative short read consensus. Hackl, T.; Hedrich, R.; Schultz, J.; Forster, F. in Bioinformatics (2014).
  • ISAAC - InterSpecies Analysing Application using Containers. Baier, H.; Schultz, J. in BMC Bioinformatics (2014). 15(1) 18.
  • FHOD proteins in actin dynamics-a formin’ class of its own. Bechtold, M.; Schultz, J.; Bogdan, S. in Small GTPases (2014). 5(2) 1–6.
  • Evolutionary and Structural Analyses of the Mammalian Haloacid Dehalogenase-Type Phosphatases AUM and Chronophin Provide Insight into the Basis of their Different Substrate Specificities. Seifried, A.; Knobloch, G.; Duraphe, P. S.; Segerer, G.; Manhard, J.; Schindelin, H.; Schultz, J.; Gohla, A. in J. Biol. Chem. (2014). 289(6) 3416–31.
  • Computational integration of genomic traits into 16S rDNA microbiota sequencing studies. Keller, A.; Horn, H.; Forster, F.; Schultz, J. in Gene (2014).

2013 [ to top ]

  • The bilaterian roots of cordon-bleu. Schultz, J.; Terhoeven, N. in BMC Res Notes (2013). 6(1) 393.
  • Human HAD phosphatases: structure, mechanism, and roles in health and disease. Seifried, A.; Schultz, J.; Gohla, A. in FEBS J. (2013). 280(2) 549–571.
  • Formin’ cellular structures. Bogdan, Sven; Schultz, Jörg; Grosshans, Jörg in Communicative & Integrative Biology (2013). 6(6) e27634.
  • Connectivity, not frequency, determines the fate of a morpheme. Keller, D. B.; Schultz, J. in PLoS ONE (2013). 8(7) e69945.

2012 [ to top ]

  • The protein composition of the digestive fluid from the venus flytrap sheds light on prey digestion mechanisms. Schulze, W. X.; Sanggaard, K. W.; Kreuzer, I.; Knudsen, A. D.; Bemm, F.; Th?gersen, I. B.; Brautigam, A.; Thomsen, L. R.; Schliesky, S.; Dyrlund, T. F.; Escalante-Perez, M.; Becker, D.; Schultz, J.; Karring, H.; Weber, A.; H?jrup, P.; Hedrich, R.; Enghild, J. J. in Mol. Cell Proteomics (2012). 11(11) 1306–1319.
  • The ITS2 Database. Merget, B.; Koetschan, C.; Hackl, T.; Forster, F.; Dandekar, T.; Muller, T.; Schultz, J.; Wolf, M. in J Vis Exp (2012). (61)
  • Morpheme networks reveal language dynamics. Keller, Daniela Barbara; Schultz, Jörg (2012).
  • ITS2 database IV: interactive taxon sampling for internal transcribed spacer 2 based phylogenies. Koetschan, C.; Hackl, T.; Muller, T.; Wolf, M.; Forster, F.; Schultz, J. in Mol. Phylogenet. Evol. (2012). 63(3) 585–588.

2010 [ to top ]

  • The ITS2 Database III--sequences and structures for phylogeny. Koetschan, C.; Forster, F.; Keller, A.; Schleicher, T.; Ruderisch, B.; Schwarz, R.; Muller, T.; Wolf, M.; Schultz, J. in Nucleic Acids Res. (2010). 38 D275–279.
  • Protein interaction networks--more than mere modules. Pinkert, S.; Schultz, J.; Reichardt, J. in PLoS Comput. Biol. (2010). 6 e1000659.
  • Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. Keller, A.; Forster, F.; Muller, T.; Dandekar, T.; Schultz, J.; Wolf, M. in Biol. Direct (2010). 5 4.
  • Evolutionary distances in the twilight zone--a rational kernel approach. Schwarz, R. F.; Fletcher, W.; Forster, F.; Merget, B.; Wolf, M.; Schultz, J.; Markowetz, F. in PLoS ONE (2010). 5 e15788.

2009 [ to top ]

  • When one plus one equals three: biochemistry and bioinformatics combine to answer complex questions. Kroiss, M.; Fischer, U.; Schultz, J. in Fly (Austin) (2009). 3 210–212.
  • Positive selection in tick saliva proteins of the Salp15 family. Schwalie, P. C.; Schultz, J. in J. Mol. Evol. (2009). 68 186–191.
  • Partially-supervised protein subclass discovery with simultaneous annotation of functional residues. Georgi, B.; Schultz, J.; Schliep, A. in BMC Struct. Biol. (2009). 9 68.
  • ITS2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics. Schultz, J.; Wolf, M. in Mol. Phylogenet. Evol. (2009). 52 520–523.
  • Evolutionary flexibility of protein complexes. Seidl, M. F.; Schultz, J. in BMC Evol. Biol. (2009). 9 155.
  • Detecting species-site dependencies in large multiple sequence alignments. Schwarz, R.; Seibel, P. N.; Rahmann, S.; Schoen, C.; Huenerberg, M.; Muller-Reible, C.; Dandekar, T.; Karchin, R.; Schultz, J.; Muller, T. in Nucleic Acids Res. (2009). 37 5959–5968.
  • A kinome of 2600 in the ciliate Paramecium tetraurelia. Bemm, F.; Schwarz, R.; Forster, F.; Schultz, J. in FEBS Lett. (2009). 583 3589–3592.
  • 5.8S-28S rRNA interaction and HMM-based ITS2 annotation. Keller, A.; Schleicher, T.; Schultz, J.; Muller, T.; Dandekar, T.; Wolf, M. in Gene (2009). 430 50–57.

2008 [ to top ]

  • The ITS2 Database II: homology modelling RNA structure for molecular systematics. Selig, C.; Wolf, M.; Muller, T.; Dandekar, T.; Schultz, J. in Nucleic Acids Res. (2008). 36 D377–380.
  • ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments. Wolf, M.; Ruderisch, B.; Dandekar, T.; Schultz, J.; Muller, T. in Bioinformatics (2008). 24 2401–2402.
  • Heat shock protein-90-alpha, a prolactin-STAT5 target gene identified in breast cancer cells, is involved in apoptosis regulation. Perotti, C.; Liu, R.; Parusel, C. T.; Bocher, N.; Schultz, J.; Bork, P.; Pfitzner, E.; Groner, B.; Shemanko, C. S. in Breast Cancer Res. (2008). 10 R94.
  • Explorative data analysis of MCL reveals gene expression networks implicated in survival and prognosis supported by explorative CGH analysis. Blenk, S.; Engelmann, J. C.; Pinkert, S.; Weniger, M.; Schultz, J.; Rosenwald, A.; Muller-Hermelink, H. K.; Muller, T.; Dandekar, T. in BMC Cancer (2008). 8 106.
  • Evolution of an RNP assembly system: a minimal SMN complex facilitates formation of UsnRNPs in Drosophila melanogaster. Kroiss, M.; Schultz, J.; Wiesner, J.; Chari, A.; Sickmann, A.; Fischer, U. in Proc. Natl. Acad. Sci. U.S.A. (2008). 105 10045–10050.

2007 [ to top ]

  • Germinal center B cell-like (GCB) and activated B cell-like (ABC) type of diffuse large B cell lymphoma (DLBCL): analysis of molecular predictors, signatures, cell cycle state and patient survival. Blenk, S.; Engelmann, J.; Weniger, M.; Schultz, J.; Dittrich, M.; Rosenwald, A.; Muller-Hermelink, H. K.; Muller, T.; Dandekar, T. in Cancer Inform (2007). 3 399–420.
  • Genome Expression Pathway Analysis Tool--analysis and visualization of microarray gene expression data under genomic, proteomic and metabolic context. Weniger, M.; Engelmann, J. C.; Schultz, J. in BMC Bioinformatics (2007). 8 179.
  • Exonization of active mouse L1s: a driver of transcriptome evolution?. Zemojtel, T.; Penzkofer, T.; Schultz, J.; Dandekar, T.; Badge, R.; Vingron, M. in BMC Genomics (2007). 8 392.
  • Distinguishing species. Muller, T.; Philippi, N.; Dandekar, T.; Schultz, J.; Wolf, M. in RNA (2007). 13 1469–1472.

2006 [ to top ]

  • The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. Schultz, J.; Muller, T.; Achtziger, M.; Seibel, P. N.; Dandekar, T.; Wolf, M. in Nucleic Acids Res. (2006). 34 W704–707.
  • SMART 5: domains in the context of genomes and networks. Letunic, I.; Copley, R. R.; Pils, B.; Pinkert, S.; Schultz, J.; Bork, P. in Nucleic Acids Res. (2006). 34 D257–260.
  • Modelling interaction sites in protein domains with interaction profile hidden Markov models. Friedrich, T.; Pils, B.; Dandekar, T.; Schultz, J.; Muller, T. in Bioinformatics (2006). 22 2851–2857.
  • Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets. Gandhi, T. K.; Zhong, J.; Mathivanan, S.; Karthick, L.; Chandrika, K. N.; Mohan, S. S.; Sharma, S.; Pinkert, S.; Nagaraju, S.; Periaswamy, B.; Mishra, G.; Nandakumar, K.; Shen, B.; Deshpande, N.; Nayak, R.; Sarker, M.; Boeke, J. D.; Parmigiani, G.; Schultz, J.; Bader, J. S.; Pandey, A. in Nat. Genet. (2006). 38 285–293.
  • 4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. Seibel, P. N.; Muller, T.; Dandekar, T.; Schultz, J.; Wolf, M. in BMC Bioinformatics (2006). 7 498.

2005 [ to top ]

  • Variation in structural location and amino acid conservation of functional sites in protein domain families. Pils, B.; Copley, R. R.; Schultz, J. in BMC Bioinformatics (2005). 6 210.
  • Structural genomics of human proteins--target selection and generation of a public catalogue of expression clones. Bussow, K.; Scheich, C.; Sievert, V.; Harttig, U.; Schultz, J.; Simon, B.; Bork, P.; Lehrach, H.; Heinemann, U. in Microb. Cell Fact. (2005). 4 21.
  • Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. Wolf, M.; Achtziger, M.; Schultz, J.; Dandekar, T.; Muller, T. in RNA (2005). 11 1616–1623.
  • A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota. Schultz, J.; Maisel, S.; Gerlach, D.; Muller, T.; Wolf, M. in RNA (2005). 11 361–364.

2004 [ to top ]

  • SMART 4.0: towards genomic data integration. Letunic, I.; Copley, R. R.; Schmidt, S.; Ciccarelli, F. D.; Doerks, T.; Schultz, J.; Ponting, C. P.; Bork, P. in Nucleic Acids Res. (2004). 32 D142–144.
  • Inactive enzyme-homologues find new function in regulatory processes. Pils, B.; Schultz, J. in J. Mol. Biol. (2004). 340 399–404.
  • HTTM, a horizontally transferred transmembrane domain. Schultz, J. in Trends Biochem. Sci. (2004). 29 4–7.
  • HMM Logos for visualization of protein families. Schuster-Bockler, B.; Schultz, J.; Rahmann, S. in BMC Bioinformatics (2004). 5 7.
  • Evolution of the multifunctional protein tyrosine phosphatase family. Pils, B.; Schultz, J. in Mol. Biol. Evol. (2004). 21 625–631.
  • A novel conserved family of nitric oxide synthase?. Zemojtel, T.; Penzkofer, T.; Dandekar, T.; Schultz, J. in Trends Biochem. Sci. (2004). 29 224–226.

2002 [ to top ]

  • Systematic identification of novel protein domain families associated with nuclear functions. Doerks, T.; Copley, R. R.; Schultz, J.; Ponting, C. P.; Bork, P. in Genome Res. (2002). 12 47–56.
  • Sequence analysis of multidomain proteins: past perspectives and future directions. Copley, R. R.; Ponting, C. P.; Schultz, J.; Bork, P. in Adv. Protein Chem. (2002). 61 75–98.
  • Recent improvements to the SMART domain-based sequence annotation resource. Letunic, I.; Goodstadt, L.; Dickens, N. J.; Doerks, T.; Schultz, J.; Mott, R.; Ciccarelli, F.; Copley, R. R.; Ponting, C. P.; Bork, P. in Nucleic Acids Res. (2002). 30 242–244.
  • Prediction of structure and functional residues for O-GlcNAcase, a divergent homologue of acetyltransferases. Schultz, J.; Pils, B. in FEBS Lett. (2002). 529 179–182.
  • Predicting protein cellular localization using a domain projection method. Mott, R.; Schultz, J.; Bork, P.; Ponting, C. P. in Genome Res. (2002). 12 1168–1174.
  • Initial sequencing and comparative analysis of the mouse genome. Waterston, R. H.; Lindblad-Toh, K.; Birney, E.; Rogers, J.; Abril, J. F.; Agarwal, P.; Agarwala, R.; Ainscough, R.; Alexandersson, M.; An, P.; Antonarakis, S. E.; Attwood, J.; Baertsch, R.; Bailey, J.; Barlow, K.; Beck, S.; Berry, E.; Birren, B.; Bloom, T.; Bork, P.; Botcherby, M.; Bray, N.; Brent, M. R.; Brown, D. G.; Brown, S. D.; Bult, C.; Burton, J.; Butler, J.; Campbell, R. D.; Carninci, P.; Cawley, S.; Chiaromonte, F.; Chinwalla, A. T.; Church, D. M.; Clamp, M.; Clee, C.; Collins, F. S.; Cook, L. L.; Copley, R. R.; Coulson, A.; Couronne, O.; Cuff, J.; Curwen, V.; Cutts, T.; Daly, M.; David, R.; Davies, J.; Delehaunty, K. D.; Deri, J.; Dermitzakis, E. T.; Dewey, C.; Dickens, N. J.; Diekhans, M.; Dodge, S.; Dubchak, I.; Dunn, D. M.; Eddy, S. R.; Elnitski, L.; Emes, R. D.; Eswara, P.; Eyras, E.; Felsenfeld, A.; Fewell, G. A.; Flicek, P.; Foley, K.; Frankel, W. N.; Fulton, L. A.; Fulton, R. S.; Furey, T. S.; Gage, D.; Gibbs, R. A.; Glusman, G.; Gnerre, S.; Goldman, N.; Goodstadt, L.; Grafham, D.; Graves, T. A.; Green, E. D.; Gregory, S.; Guigo, R.; Guyer, M.; Hardison, R. C.; Haussler, D.; Hayashizaki, Y.; Hillier, L. W.; Hinrichs, A.; Hlavina, W.; Holzer, T.; Hsu, F.; Hua, A.; Hubbard, T.; Hunt, A.; Jackson, I.; Jaffe, D. B.; Johnson, L. S.; Jones, M.; Jones, T. A.; Joy, A.; Kamal, M.; Karlsson, E. K.; Karolchik, D.; Kasprzyk, A.; Kawai, J.; Keibler, E.; Kells, C.; Kent, W. J.; Kirby, A.; Kolbe, D. L.; Korf, I.; Kucherlapati, R. S.; Kulbokas, E. J.; Kulp, D.; Landers, T.; Leger, J. P.; Leonard, S.; Letunic, I.; Levine, R.; Li, J.; Li, M.; Lloyd, C.; Lucas, S.; Ma, B.; Maglott, D. R.; Mardis, E. R.; Matthews, L.; Mauceli, E.; Mayer, J. H.; McCarthy, M.; McCombie, W. R.; McLaren, S.; McLay, K.; McPherson, J. D.; Meldrim, J.; Meredith, B.; Mesirov, J. P.; Miller, W.; Miner, T. L.; Mongin, E.; Montgomery, K. T.; Morgan, M.; Mott, R.; Mullikin, J. C.; Muzny, D. M.; Nash, W. E.; Nelson, J. O.; Nhan, M. N.; Nicol, R.; Ning, Z.; Nusbaum, C.; O’Connor, M. J.; Okazaki, Y.; Oliver, K.; Overton-Larty, E.; Pachter, L.; Parra, G.; Pepin, K. H.; Peterson, J.; Pevzner, P.; Plumb, R.; Pohl, C. S.; Poliakov, A.; Ponce, T. C.; Ponting, C. P.; Potter, S.; Quail, M.; Reymond, A.; Roe, B. A.; Roskin, K. M.; Rubin, E. M.; Rust, A. G.; Santos, R.; Sapojnikov, V.; Schultz, B.; Schultz, J.; Schwartz, M. S.; Schwartz, S.; Scott, C.; Seaman, S.; Searle, S.; Sharpe, T.; Sheridan, A.; Shownkeen, R.; Sims, S.; Singer, J. B.; Slater, G.; Smit, A.; Smith, D. R.; Spencer, B.; Stabenau, A.; Stange-Thomann, N.; Sugnet, C.; Suyama, M.; Tesler, G.; Thompson, J.; Torrents, D.; Trevaskis, E.; Tromp, J.; Ucla, C.; Ureta-Vidal, A.; Vinson, J. P.; Niederhausern, A. C. Von; Wade, C. M.; Wall, M.; Weber, R. J.; Weiss, R. B.; Wendl, M. C.; West, A. P.; Wetterstrand, K.; Wheeler, R.; Whelan, S.; Wierzbowski, J.; Willey, D.; Williams, S.; Wilson, R. K.; Winter, E.; Worley, K. C.; Wyman, D.; Yang, S.; Yang, S. P.; Zdobnov, E. M.; Zody, M. C.; Lander, E. S. in Nature (2002). 420 520–562.
  • Genome expression analysis of Anopheles gambiae: responses to injury, bacterial challenge, and malaria infection. Dimopoulos, G.; Christophides, G. K.; Meister, S.; Schultz, J.; White, K. P.; Barillas-Mury, C.; Kafatos, F. C. in Proc. Natl. Acad. Sci. U.S.A. (2002). 99 8814–8819.
  • Functional organization of the yeast proteome by systematic analysis of protein complexes. Gavin, A. C.; Bosche, M.; Krause, R.; Grandi, P.; Marzioch, M.; Bauer, A.; Schultz, J.; Rick, J. M.; Michon, A. M.; Cruciat, C. M.; Remor, M.; Hofert, C.; Schelder, M.; Brajenovic, M.; Ruffner, H.; Merino, A.; Klein, K.; Hudak, M.; Dickson, D.; Rudi, T.; Gnau, V.; Bauch, A.; Bastuck, S.; Huhse, B.; Leutwein, C.; Heurtier, M. A.; Copley, R. R.; Edelmann, A.; Querfurth, E.; Rybin, V.; Drewes, G.; Raida, M.; Bouwmeester, T.; Bork, P.; Seraphin, B.; Kuster, B.; Neubauer, G.; Superti-Furga, G. in Nature (2002). 415 141–147.

2001 [ to top ]

  • Molecular characterization of a cDNA encoding functional human CLK4 kinase and localization to chromosome 5q35 [correction of 4q35]. Schultz, J.; Jones, T.; Bork, P.; Sheer, D.; Blencke, S.; Steyrer, S.; Wellbrock, U.; Bevec, D.; Ullrich, A.; Wallasch, C. in Genomics (2001). 71 368–370.
  • Initial sequencing and analysis of the human genome. Lander, E. S.; Linton, L. M.; Birren, B.; Nusbaum, C.; Zody, M. C.; Baldwin, J.; Devon, K.; Dewar, K.; Doyle, M.; FitzHugh, W.; Funke, R.; Gage, D.; Harris, K.; Heaford, A.; Howland, J.; Kann, L.; Lehoczky, J.; LeVine, R.; McEwan, P.; McKernan, K.; Meldrim, J.; Mesirov, J. P.; Miranda, C.; Morris, W.; Naylor, J.; Raymond, C.; Rosetti, M.; Santos, R.; Sheridan, A.; Sougnez, C.; Stange-Thomann, N.; Stojanovic, N.; Subramanian, A.; Wyman, D.; Rogers, J.; Sulston, J.; Ainscough, R.; Beck, S.; Bentley, D.; Burton, J.; Clee, C.; Carter, N.; Coulson, A.; Deadman, R.; Deloukas, P.; Dunham, A.; Dunham, I.; Durbin, R.; French, L.; Grafham, D.; Gregory, S.; Hubbard, T.; Humphray, S.; Hunt, A.; Jones, M.; Lloyd, C.; McMurray, A.; Matthews, L.; Mercer, S.; Milne, S.; Mullikin, J. C.; Mungall, A.; Plumb, R.; Ross, M.; Shownkeen, R.; Sims, S.; Waterston, R. H.; Wilson, R. K.; Hillier, L. W.; McPherson, J. D.; Marra, M. A.; Mardis, E. R.; Fulton, L. A.; Chinwalla, A. T.; Pepin, K. H.; Gish, W. R.; Chissoe, S. L.; Wendl, M. C.; Delehaunty, K. D.; Miner, T. L.; Delehaunty, A.; Kramer, J. B.; Cook, L. L.; Fulton, R. S.; Johnson, D. L.; Minx, P. J.; Clifton, S. W.; Hawkins, T.; Branscomb, E.; Predki, P.; Richardson, P.; Wenning, S.; Slezak, T.; Doggett, N.; Cheng, J. F.; Olsen, A.; Lucas, S.; Elkin, C.; Uberbacher, E.; Frazier, M.; Gibbs, R. A.; Muzny, D. M.; Scherer, S. E.; Bouck, J. B.; Sodergren, E. J.; Worley, K. C.; Rives, C. M.; Gorrell, J. H.; Metzker, M. L.; Naylor, S. L.; Kucherlapati, R. S.; Nelson, D. L.; Weinstock, G. M.; Sakaki, Y.; Fujiyama, A.; Hattori, M.; Yada, T.; Toyoda, A.; Itoh, T.; Kawagoe, C.; Watanabe, H.; Totoki, Y.; Taylor, T.; Weissenbach, J.; Heilig, R.; Saurin, W.; Artiguenave, F.; Brottier, P.; Bruls, T.; Pelletier, E.; Robert, C.; Wincker, P.; Smith, D. R.; Doucette-Stamm, L.; Rubenfield, M.; Weinstock, K.; Lee, H. M.; Dubois, J.; Rosenthal, A.; Platzer, M.; Nyakatura, G.; Taudien, S.; Rump, A.; Yang, H.; Yu, J.; Wang, J.; Huang, G.; Gu, J.; Hood, L.; Rowen, L.; Madan, A.; Qin, S.; Davis, R. W.; Federspiel, N. A.; Abola, A. P.; Proctor, M. J.; Myers, R. M.; Schmutz, J.; Dickson, M.; Grimwood, J.; Cox, D. R.; Olson, M. V.; Kaul, R.; Raymond, C.; Shimizu, N.; Kawasaki, K.; Minoshima, S.; Evans, G. A.; Athanasiou, M.; Schultz, R.; Roe, B. A.; Chen, F.; Pan, H.; Ramser, J.; Lehrach, H.; Reinhardt, R.; McCombie, W. R.; de la Bastide, M.; Dedhia, N.; Blocker, H.; Hornischer, K.; Nordsiek, G.; Agarwala, R.; Aravind, L.; Bailey, J. A.; Bateman, A.; Batzoglou, S.; Birney, E.; Bork, P.; Brown, D. G.; Burge, C. B.; Cerutti, L.; Chen, H. C.; Church, D.; Clamp, M.; Copley, R. R.; Doerks, T.; Eddy, S. R.; Eichler, E. E.; Furey, T. S.; Galagan, J.; Gilbert, J. G.; Harmon, C.; Hayashizaki, Y.; Haussler, D.; Hermjakob, H.; Hokamp, K.; Jang, W.; Johnson, L. S.; Jones, T. A.; Kasif, S.; Kaspryzk, A.; Kennedy, S.; Kent, W. J.; Kitts, P.; Koonin, E. V.; Korf, I.; Kulp, D.; Lancet, D.; Lowe, T. M.; McLysaght, A.; Mikkelsen, T.; Moran, J. V.; Mulder, N.; Pollara, V. J.; Ponting, C. P.; Schuler, G.; Schultz, J.; Slater, G.; Smit, A. F.; Stupka, E.; Szustakowski, J.; Thierry-Mieg, D.; Thierry-Mieg, J.; Wagner, L.; Wallis, J.; Wheeler, R.; Williams, A.; Wolf, Y. I.; Wolfe, K. H.; Yang, S. P.; Yeh, R. F.; Collins, F.; Guyer, M. S.; Peterson, J.; Felsenfeld, A.; Wetterstrand, K. A.; Patrinos, A.; Morgan, M. J.; de Jong, P.; Catanese, J. J.; Osoegawa, K.; Shizuya, H.; Choi, S.; Chen, Y. J.; Szustakowki, J. in Nature (2001). 409 860–921.

2000 [ to top ]

  • SMART: a web-based tool for the study of genetically mobile domains. Schultz, J.; Copley, R. R.; Doerks, T.; Ponting, C. P.; Bork, P. in Nucleic Acids Res. (2000). 28 231–234.
  • More than 1,000 putative new human signalling proteins revealed by EST data mining. Schultz, J.; Doerks, T.; Ponting, C. P.; Copley, R. R.; Bork, P. in Nat. Genet. (2000). 25 201–204.
  • Evolution of domain families. Ponting, C. P.; Schultz, J.; Copley, R. R.; Andrade, M. A.; Bork, P. in Adv. Protein Chem. (2000). 54 185–244.
  • Anopheles gambiae pilot gene discovery project: identification of mosquito innate immunity genes from expressed sequence tags generated from immune-competent cell lines. Dimopoulos, G.; Casavant, T. L.; Chang, S.; Scheetz, T.; Roberts, C.; Donohue, M.; Schultz, J.; Benes, V.; Bork, P.; Ansorge, W.; Soares, M. B.; Kafatos, F. C. in Proc. Natl. Acad. Sci. U.S.A. (2000). 97 6619–6624.

1999 [ to top ]

  • SMART: identification and annotation of domains from signalling and extracellular protein sequences. Ponting, C. P.; Schultz, J.; Milpetz, F.; Bork, P. in Nucleic Acids Res. (1999). 27 229–232.
  • Protein families in multicellular organisms. Copley, R. R.; Schultz, J.; Ponting, C. P.; Bork, P. in Curr. Opin. Struct. Biol. (1999). 9 408–415.
  • No Sec7-homology domain in guanine-nucleotide-exchange factors that act on Ras and Rho. Ponting, C. P.; Bork, P.; Schultz, J.; Aravind, L. in Trends Biochem. Sci. (1999). 24 177–178.
  • Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer. Ponting, C. P.; Aravind, L.; Schultz, J.; Bork, P.; Koonin, E. V. in J. Mol. Biol. (1999). 289 729–745.

1998 [ to top ]

  • SMART, a simple modular architecture research tool: identification of signaling domains. Schultz, J.; Milpetz, F.; Bork, P.; Ponting, C. P. in Proc. Natl. Acad. Sci. U.S.A. (1998). 95 5857–5864.

1997 [ to top ]

  • SPRY domains in ryanodine receptors (Ca(2+)-release channels). Ponting, C.; Schultz, J.; Bork, P. in Trends Biochem. Sci. (1997). 22 193–194.
  • Secreted fringe-like signaling molecules may be glycosyltransferases. Yuan, Y. P.; Schultz, J.; Mlodzik, M.; Bork, P. in Cell (1997). 88 9–11.
  • SAM as a protein interaction domain involved in developmental regulation. Schultz, J.; Ponting, C. P.; Hofmann, K.; Bork, P. in Protein Sci. (1997). 6 249–253.
  • Cytoplasmic signalling domains: the next generation. Bork, P.; Schultz, J.; Ponting, C. P. in Trends Biochem. Sci. (1997). 22 296–298.

1996 [ to top ]

  • The protein phosphatase 2C (PP2C) superfamily: detection of bacterial homologues. Bork, P.; Brown, N. P.; Hegyi, H.; Schultz, J. in Protein Sci. (1996). 5 1421–1425.