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Staff at EMBL

Georg Zeller

Postdoctoral Fellow
Bork Group

EMBL Heidelberg, Meyerhofstra├če 1, 69117 Heidelberg, Germany

E-mail: send a mail

Publications

Novel drug candidates for the treatment of metastatic colorectal cancer through global inverse gene expression profiling. van Noort, V.V., Scholch, S., Iskar, M., Zeller, G., Ostertag, K., Schweitzer, C., Werner, K., Weitz, J., Koch, M. & Bork, P. Cancer Res. 2014 Jul 18. pii: canres.3540.2013. Europe PMC

Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis. Sreedharan, V.T., Schultheiss, S.J., Jean, G., Kahles, A., Bohnert, R., Drewe, P., Mudrakarta, P., Gornitz, N., Zeller, G. & Ratsch, G. Bioinformatics. 2014 May 1;30(9):1300-1. doi: 10.1093/bioinformatics/btt731. Epub2014 Jan 11. Europe PMC

A fair comparison. Costea, P.I., Zeller, G., Sunagawa, S. & Bork, P. Nat Methods. 2014 Apr;11(4):359. doi: 10.1038/nmeth.2897. Europe PMC

Metagenomic species profiling using universal phylogenetic marker genes. Sunagawa, S., Mende, D.R., Zeller, G., Izquierdo-Carrasco, F., Berger, S.A., Kultima, J.R., Coelho, L.P., Arumugam, M., Tap, J., Nielsen, H.B., Rasmussen, S., Brunak, S., Pedersen, O., Guarner, F., de Vos, W.M., Wang, J., Li, J., Dore, J., Ehrlich, S.D., Stamatakis, A. & Bork, P. Nat Methods. 2013 Dec;10(12):1196-9. doi: 10.1038/nmeth.2693. Epub 2013 Oct 20. Europe PMC

Accurate and universal delineation of prokaryotic species. Mende, D.R., Sunagawa, S., Zeller, G. & Bork, P. Nat Methods. 2013 Sep;10(9):881-4. doi: 10.1038/nmeth.2575. Epub 2013 Jul 28. Europe PMC

Characterization of drug-induced transcriptional modules: towards drug repositioning and functional understanding. Iskar, M., Zeller, G., Blattmann, P., Campillos, M., Kuhn, M., Kaminska, K.H., Runz, H., Gavin, A.C., Pepperkok, R., van Noort, V. & Bork, P. Mol Syst Biol. 2013;9:662. doi: 10.1038/msb.2013.20. Europe PMC

Drug discovery in the age of systems biology: the rise of computational approaches for data integration. Iskar, M., Zeller, G., Zhao, X.M., van Noort, V. & Bork, P. Curr Opin Biotechnol. 2012 Aug;23(4):609-16. doi: 10.1016/j.copbio.2011.11.010.Epub 2011 Dec 5. Europe PMC

Prediction of drug combinations by integrating molecular and pharmacological data. Zhao, X.M., Iskar, M., Zeller, G., Kuhn, M., Noort, V. & Bork, P. PLoS Comput Biol. 2011 Dec;7(12):e1002323. Epub 2011 Dec 29. Europe PMC

Enterotypes of the human gut microbiome. Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D.R., Fernandes, G.R., Tap, J., Bruls, T., Batto, J.M., Bertalan, M., Borruel, N., Casellas, F., Fernandez, L., Gautier, L., Hansen, T., Hattori, M., Hayashi, T., Kleerebezem, M., Kurokawa, K., Leclerc, M., Levenez, F., Manichanh, C., Nielsen, H.B., Nielsen, T., Pons, N., Poulain, J., Qin, J., Sicheritz-Ponten, T., Tims, S., Torrents, D., Ugarte, E., Zoetendal, E.G., Wang, J., Guarner, F., Pedersen, O., de Vos, W.M., Brunak, S., Dore, J., Antolin, M., Artiguenave, F., Blottiere, H.M., Almeida, M., Brechot, C., Cara, C., Chervaux, C., Cultrone, A., Delorme, C., Denariaz, G., Dervyn, R., Foerstner, K.U., Friss, C., van de Guchte, M., Guedon, E., Haimet, F., Huber, W., van Hylckama-Vlieg, J., Jamet, A., Juste, C., Kaci, G., Knol, J., Lakhdari, O., Layec, S., Le Roux, K., Maguin, E., Merieux, A., Melo Minardi, R., M'rini, C., Muller, J., Oozeer, R., Parkhill, J., Renault, P., Rescigno, M., Sanchez, N., Sunagawa, S., Torrejon, A., Turner, K., Vandemeulebrouck, G., Varela, E., Winogradsky, Y., Zeller, G., Weissenbach, J., Ehrlich, S.D. & Bork, P. Nature. 2011 May 12;473(7346):174-80. Epub 2011 Apr 20. Europe PMC

A spatial and temporal map of C. elegans gene expression. Spencer, W.C., Zeller, G., Watson, J.D., Henz, S.R., Watkins, K.L., McWhirter, R.D., Petersen, S., Sreedharan, V.T., Widmer, C., Jo, J., Reinke, V., Petrella, L., Strome, S., Von Stetina, S.E., Katz, M., Shaham, S., Ratsch, G. & Miller DM, 3rd Genome Res. 2011 Feb;21(2):325-41. Epub 2010 Dec 22. Europe PMC

Receptor-type guanylate cyclase is required for carbon dioxide sensation by Caenorhabditis elegans. Hallem, E.A., Spencer, W.C., McWhirter, R.D., Zeller, G., Henz, S.R., Ratsch, G., Miller DM, 3rd, Horvitz, H.R., Sternberg, P.W. & Ringstad, N. Proc Natl Acad Sci U S A. 2011 Jan 4;108(1):254-9. Epub 2010 Dec 20. Europe PMC

Support vector machines-based identification of alternative splicing in Arabidopsis thaliana from whole-genome tiling arrays. Eichner, J., Zeller, G., Laubinger, S. & Ratsch, G. BMC Bioinformatics. 2011 Feb 16;12:55. Europe PMC

Network neighbors of drug targets contribute to drug side-effect similarity. Brouwers, L., Iskar, M., Zeller, G., van Noort, V. & Bork, P. PLoS One. 2011;6(7):e22187. Epub 2011 Jul 13. Europe PMC

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Gerstein, M.B., Lu, Z.J., Van Nostrand, E.L., Cheng, C., Arshinoff, B.I., Liu, T., Yip, K.Y., Robilotto, R., Rechtsteiner, A., Ikegami, K., Alves, P., Chateigner, A., Perry, M., Morris, M., Auerbach, R.K., Feng, X., Leng, J., Vielle, A., Niu, W., Rhrissorrakrai, K., Agarwal, A., Alexander, R.P., Barber, G., Brdlik, C.M., Brennan, J., Brouillet, J.J., Carr, A., Cheung, M.S., Clawson, H., Contrino, S., Dannenberg, L.O., Dernburg, A.F., Desai, A., Dick, L., Dose, A.C., Du, J., Egelhofer, T., Ercan, S., Euskirchen, G., Ewing, B., Feingold, E.A., Gassmann, R., Good, P.J., Green, P., Gullier, F., Gutwein, M., Guyer, M.S., Habegger, L., Han, T., Henikoff, J.G., Henz, S.R., Hinrichs, A., Holster, H., Hyman, T., Iniguez, A.L., Janette, J., Jensen, M., Kato, M., Kent, W.J., Kephart, E., Khivansara, V., Khurana, E., Kim, J.K., Kolasinska-Zwierz, P., Lai, E.C., Latorre, I., Leahey, A., Lewis, S., Lloyd, P., Lochovsky, L., Lowdon, R.F., Lubling, Y., Lyne, R., MacCoss, M., Mackowiak, S.D., Mangone, M., McKay, S., Mecenas, D., Merrihew, G., Miller DM, 3rd, Muroyama, A., Murray, J.I., Ooi, S.L., Pham, H., Phippen, T., Preston, E.A., Rajewsky, N., Ratsch, G., Rosenbaum, H., Rozowsky, J., Rutherford, K., Ruzanov, P., Sarov, M., Sasidharan, R., Sboner, A., Scheid, P., Segal, E., Shin, H., Shou, C., Slack, F.J., Slightam, C., Smith, R., Spencer, W.C., Stinson, E.O., Taing, S., Takasaki, T., Vafeados, D., Voronina, K., Wang, G., Washington, N.L., Whittle, C.M., Wu, B., Yan, K.K., Zeller, G., Zha, Z., Zhong, M., Zhou, X., Ahringer, J., Strome, S., Gunsalus, K.C., Micklem, G., Liu, X.S., Reinke, V., Kim, S.K., Hillier, L.W., Henikoff, S., Piano, F., Snyder, M., Stein, L., Lieb, J.D. & Waterston, R.H. Science. 2010 Dec 24;330(6012):1775-87. Epub 2010 Dec 22. Europe PMC

Global effects of the small RNA biogenesis machinery on the Arabidopsis thaliana transcriptome. Laubinger, S., Zeller, G., Henz, S.R., Buechel, S., Sachsenberg, T., Wang, J.W., Ratsch, G. & Weigel, D. Proc Natl Acad Sci U S A. 2010 Oct 12;107(41):17466-73. Epub 2010 Sep 24. Europe PMC

AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling. Rehrauer, H., Aquino, C., Gruissem, W., Henz, S.R., Hilson, P., Laubinger, S., Naouar, N., Patrignani, A., Rombauts, S., Shu, H., Van de Peer, Y., Vuylsteke, M., Weigel, D., Zeller, G. & Hennig, L. Plant Physiol. 2010 Feb;152(2):487-99. Epub 2009 Dec 23. Europe PMC

mGene: accurate SVM-based gene finding with an application to nematode genomes. Schweikert, G., Zien, A., Zeller, G., Behr, J., Dieterich, C., Ong, C.S., Philips, P., De Bona, F., Hartmann, L., Bohlen, A., Kruger, N., Sonnenburg, S. & Ratsch, G. Genome Res. 2009 Nov;19(11):2133-43. Epub 2009 Jun 29. Europe PMC

Genomewide SNP variation reveals relationships among landraces and modern varieties of rice. McNally, K.L., Childs, K.L., Bohnert, R., Davidson, R.M., Zhao, K., Ulat, V.J., Zeller, G., Clark, R.M., Hoen, D.R., Bureau, T.E., Stokowski, R., Ballinger, D.G., Frazer, K.A., Cox, D.R., Padhukasahasram, B., Bustamante, C.D., Weigel, D., Mackill, D.J., Bruskiewich, R.M., Ratsch, G., Buell, C.R., Leung, H. & Leach, J.E. Proc Natl Acad Sci U S A. 2009 Jul 28;106(30):12273-8. Epub 2009 Jul 13. Europe PMC

mGene.web: a web service for accurate computational gene finding. Schweikert, G., Behr, J., Zien, A., Zeller, G., Ong, C.S., Sonnenburg, S. & Ratsch, G. Nucleic Acids Res. 2009 Jul 1;37(Web Server issue):W312-6. Epub 2009 Jun3. Europe PMC

Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays. Zeller, G., Henz, S.R., Widmer, C.K., Sachsenberg, T., Ratsch, G., Weigel, D. & Laubinger, S. Plant J. 2009 Jun;58(6):1068-82. Epub 2009 Feb 13. Europe PMC

Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes. Naouar, N., Vandepoele, K., Lammens, T., Casneuf, T., Zeller, G., van Hummelen, P., Weigel, D., Ratsch, G., Inze, D., Kuiper, M., De Veylder, L. & Vuylsteke, M. Plant J. 2009 Jan;57(1):184-94. Epub 2008 Sep 19. Europe PMC

Comprehensive analysis of Arabidopsis expression level polymorphisms with simple inheritance. Plantegenet, S., Weber, J., Goldstein, D.R., Zeller, G., Nussbaumer, C., Thomas, J., Weigel, D., Harshman, K. & Hardtke, C.S. Mol Syst Biol. 2009;5:242. Epub 2009 Feb 17. Europe PMC

Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana. Laubinger, S., Sachsenberg, T., Zeller, G., Busch, W., Lohmann, J.U., Ratsch, G. & Weigel, D. Proc Natl Acad Sci U S A. 2008 Jun 24;105(25):8795-800. Epub 2008 Jun 12. Europe PMC

Detecting polymorphic regions in Arabidopsis thaliana with resequencing microarrays. Zeller, G., Clark, R.M., Schneeberger, K., Bohlen, A., Weigel, D. & Ratsch, G. Genome Res. 2008 Jun;18(6):918-29. Epub 2008 Mar 6. Europe PMC

Transcript normalization and segmentation of tiling array data. Zeller, G., Henz, S.R., Laubinger, S., Weigel, D. & Ratsch, G. Pac Symp Biocomput. 2008:527-38. Europe PMC

At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana. Laubinger, S., Zeller, G., Henz, S.R., Sachsenberg, T., Widmer, C.K., Naouar, N., Vuylsteke, M., Scholkopf, B., Ratsch, G. & Weigel, D. Genome Biol. 2008;9(7):R112. Epub 2008 Jul 9. Europe PMC

Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana. Clark, R.M., Schweikert, G., Toomajian, C., Ossowski, S., Zeller, G., Shinn, P., Warthmann, N., Hu, T.T., Fu, G., Hinds, D.A., Chen, H., Frazer, K.A., Huson, D.H., Scholkopf, B., Nordborg, M., Ratsch, G., Ecker, J.R. & Weigel, D. Science. 2007 Jul 20;317(5836):338-42. Europe PMC