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Coordinator:
PD Dr. Stefan Wiemann
German Cancer Research Center
Im Neuenheimer Feld 580
69120 Heidelberg
Germany
Phone: +49 6221 42 4646




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Publications

  1. Zhang, J.D., Wiemann, S., (2009) KEGGgraph: a graph approach to KEGG PATHWAY in R and Bioconductor. Bioinformatics, 25:1470-1471
     link to pubmed

  2. Temple, G., Gerhard, D. S., Rasooly, R., Feingold, E. A., Good, P. J., Robinson, C., Mandich, A., Derge, J. G., Lewis, J., Shoaf, D., Collins, F. S., Jang, W., Wagner, L., Shenmen, C. M., Misquitta, L., Schaefer, C. F., Buetow, K. H., Bonner, T. I., Yankie, L., Ward, M., Phan, L., Astashyn, A., Brown, G., Farrell, C., Hart, J., Landrum, M., Maidak, B. L., Murphy, M., Murphy, T., Rajput, B., Riddick, L., Webb, D., Weber, J., Wu, W., Pruitt, K. D., Maglott, D., Siepel, A., Brejova, B., Diekhans, M., Harte, R., Baertsch, R., Kent, J., Haussler, D., Brent, M., Langton, L., Comstock, C. L., Stevens, M., Wei, C., van Baren, M. J., Salehi-Ashtiani, K., Murray, R. R., Ghamsari, L., Mello, E., Lin, C., Pennacchio, C., Schreiber, K., Shapiro, N., Marsh, A., Pardes, E., Moore, T., Lebeau, A., Muratet, M., Simmons, B., Kloske, D., Sieja, S., Hudson, J., Sethupathy, P., Brownstein, M., Bhat, N., Lazar, J., Jacob, H., Gruber, C. E., Smith, M. R., McPherson, J., Garcia, A. M., Gunaratne, P. H., Wu, J., Muzny, D., Gibbs, R. A., Young, A. C., Bouffard, G. G., Blakesley, R. W., Mullikin, J., Green, E. D., Dickson, M. C., Rodriguez, A. C., Grimwood, J., Schmutz, J., Myers, R. M., Hirst, M., Zeng, T., Tse, K., Moksa, M., Deng, M., Ma, K., Mah, D., Pang, J., Taylor, G., Chuah, E., Deng, A., Fichter, K., Go, A., Lee, S., Wang, J., Griffith, M., Morin, R., Moore, R. A., Mayo, M., Munro, S., Wagner, S., Jones, S. J., Holt, R. A., Marra, M. A., Lu, S., Yang, S., Hartigan, J., Graf, M., Wagner, R., Letovksy, S., Pulido, J. C., Robison, K., Esposito, D., Hartley, J., Wall, V. E., Hopkins, R. F., Ohara, O., Wiemann, S., (2009) The Completion of the Mammalian Gene Collection (MGC). Genome Res, 19:2324-2333
     link to pubmed

  3. Sahin, O, Wiemann, S, (2009) Functional Genomics and Proteomics approaches to study the ERBB-network in cancer. FEBS Lett, 583:1766-1771
     link to pubmed

  4. Sahin, O., Froehlich, H., Loebke, C., Korf, U., Burmester, S., Majety, M., Thieffry, D., Chaouiya, C., Poustka, A., Wiemann, S., Beissbarth, T., Arlt, D., (2009) Modeling of ERBB receptor-regulated G1/S transition to find novel targets for de novo trastuzumab resistance. BMC Systems Biology, 3:1
     link to pubmed

  5. Laketa, V., Zarbakhsh, S., Morbier, E., Subramanian, D., Dinkel, C., Brumbaugh, J., Zimmermann, P., Pepperkok, R., Schultz, C., (2009) Membrane-permeant phosphoinositide derivatives as modulators of growth factor signaling and neurite outgrowth. Chem Biol, 16:1190-6
     link to pubmed

  6. Jones, A. R., Lister, A. L., Hermida, L., Wilkinson, P., Eisenacher, M., Belhajjame, K., Gibson, F., Lord, P., Pocock, M., Rosenfelder, H., Santoyo-Lopez, J., Wipat, A., Paton, N. W., (2009) Modeling and managing experimental data using FuGE. Omics, 13:239-51
     link to pubmed

  7. Haller, F., Von Heydebreck, A., Zhang, JD., Gunawan, B., Langer, C., Ramadori, G., Wiemann, S., Sahin, O, (2009) Localisation- and mutation-dependent microRNA (miRNA) expression signatures in gastrointestinal stromal tumors (GISTs), with a cluster of coexpressed miRNAs located at 14q32.31. J Pathol, 220:71-86
     link to pubmed

  8. Gilbert, D. F., Meinhof, T., Pepperkok, R., Runz, H., (2009) DetecTiff: a novel image analysis routine for high-content screening microscopy. J Biomol Screen, 14:944-55
     link to pubmed

  9. Bartz, F., Kern, L., Erz, D., Zhu, M., Gilbert, D., Meinhof, T., Wirkner, U., Erfle, H., Muckenthaler, M., Pepperkok, R., Runz, H., (2009) Identification of cholesterol-regulating genes by targeted RNAi screening. Cell Metab, 10:63-75
     link to pubmed

  10. Yamasaki, C., Murakami, K., Fujii, Y., Sato, Y., Harada, E., Takeda, J., Taniya, T., Sakate, R., Kikugawa, S., Shimada, M., Tanino, M., Koyanagi, K. O., Barrero, R. A., Gough, C., Chun, H. W., Habara, T., Hanaoka, H., Hayakawa, Y., Hilton, P. B., Kaneko, Y., Kanno, M., Kawahara, Y., Kawamura, T., Matsuya, A., Nagata, N., Nishikata, K., Noda, A. O., Nurimoto, S., Saichi, N., Sakai, H., Sanbonmatsu, R., Shiba, R., Suzuki, M., Takabayashi, K., Takahashi, A., Tamura, T., Tanaka, M., Tanaka, S., Todokoro, F., Yamaguchi, K., Yamamoto, N., Okido, T., Mashima, J., Hashizume, A., Jin, L., Lee, K. B., Lin, Y. C., Nozaki, A., Sakai, K., Tada, M., Miyazaki, S., Makino, T., Ohyanagi, H., Osato, N., Tanaka, N., Suzuki, Y., Ikeo, K., Saitou, N., Sugawara, H., O'Donovan, C., Kulikova, T., Whitfield, E., Halligan, B., Shimoyama, M., Twigger, S., Yura, K., Kimura, K., Yasuda, T., Nishikawa, T., Akiyama, Y., Motono, C., Mukai, Y., Nagasaki, H., Suwa, M., Horton, P., Kikuno, R., Ohara, O., Lancet, D., Eveno, E., Graudens, E., Imbeaud, S., Debily, M. A., Hayashizaki, Y., Amid, C., Han, M., Osanger, A., Endo, T., Thomas, M. A., Hirakawa, M., Makalowski, W., Nakao, M., Kim, N. S., Yoo, H. S., De Souza, S. J., Bonaldo Mde, F., Niimura, Y., Kuryshev, V., Schupp, I., Wiemann, S., Bellgard, M., Shionyu, M., Jia, L., Thierry-Mieg, D., Thierry-Mieg, J., Wagner, L., Zhang, Q., Go, M., Minoshima, S., Ohtsubo, M., Hanada, K., Tonellato, P., Isogai, T., Zhang, J., Lenhard, B., Kim, S., Chen, Z., Hinz, U., Estreicher, A., Nakai, K., Makalowska, I., Hide, W., Tiffin, N., Wilming, L., Chakraborty, R., Soares, M. B., Chiusano, M. L., Suzuki, Y., Auffray, C., Yamaguchi-Kabata, Y., Itoh, T., Hishiki, T., Fukuchi, S., Nishikawa, K., Sugano, S., Nomura, N., Tateno, Y., Imanishi, T., Gojobori, T., (2008) The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. Nucleic Acids Res, 36:D793-799
     link to pubmed

  11. Taylor, C. F., Field, D., Sansone, S. A., Aerts, J., Apweiler, R., Ashburner, M., Ball, C. A., Binz, P. A., Bogue, M., Booth, T., Brazma, A., Brinkman, R. R., Michael Clark, A., Deutsch, E. W., Fiehn, O., Fostel, J., Ghazal, P., Gibson, F., Gray, T., Grimes, G., Hancock, J. M., Hardy, N. W., Hermjakob, H., Julian, R. K., Jr., Kane, M., Kettner, C., Kinsinger, C., Kolker, E., Kuiper, M., Novere, N. L., Leebens-Mack, J., Lewis, S. E., Lord, P., Mallon, A. M., Marthandan, N., Masuya, H., McNally, R., Mehrle, A., Morrison, N., Orchard, S., Quackenbush, J., Reecy, J. M., Robertson, D. G., Rocca-Serra, P., Rodriguez, H., Rosenfelder, H., Santoyo-Lopez, J., Scheuermann, R. H., Schober, D., Smith, B., Snape, J., Stoeckert, C. J., Jr., Tipton, K., Sterk, P., Untergasser, A., Vandesompele, J., Wiemann, S., (2008) Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol, 26:889-96
     link to pubmed

  12. Sauermann, M., Sahin, O., Sultmann, H., Hahne, F., Blaszkiewicz, S., Majety, M., Zatloukal, K., Fuzesi, L., Poustka, A., Wiemann, S., Arlt, D., (2008) Reduced expression of vacuole membrane protein 1 affects the invasion capacity of tumor cells. Oncogene, 27:1320-6
     link to pubmed

  13. Sansone, S. A., Rocca-Serra, P., Brandizi, M., Brazma, A., Field, D., Fostel, J., Garrow, A. G., Gilbert, J., Goodsaid, F., Hardy, N., Jones, P., Lister, A., Miller, M., Morrison, N., Rayner, T., Sklyar, N., Taylor, C., Tong, W., Warner, G., Wiemann, S., (2008) The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?". Omics, 12:143-9
     link to pubmed

  14. Retz, W., Rosler, M., Kissling, C., Wiemann, S., Hunnerkopf, R., Coogan, A., Thome, J., Freitag, C., (2008) Norepinephrine transporter and catecholamine-O-methyltransferase gene variants and attention-deficit/hyperactivity disorder symptoms in adults. J Neural Transm, 115:323-9
     link to pubmed

  15. Pepperkok, R., Wiemann, S., (2008) Integrating systems biology with clinical research. Genome Biol, 9:314
     link to pubmed

  16. Mathivanan, S., Ahmed, M., Ahn, N. G., Alexandre, H., Amanchy, R., Andrews, P. C., Bader, J. S., Balgley, B. M., Bantscheff, M., Bennett, K. L., Bjorling, E., Blagoev, B., Bose, R., Brahmachari, S. K., Burlingame, A. S., Bustelo, X. R., Cagney, G., Cantin, G. T., Cardasis, H. L., Celis, J. E., Chaerkady, R., Chu, F., Cole, P. A., Costello, C. E., Cotter, R. J., Crockett, D., DeLany, J. P., De Marzo, A. M., DeSouza, L. V., Deutsch, E. W., Dransfield, E., Drewes, G., Droit, A., Dunn, M. J., Elenitoba-Johnson, K., Ewing, R. M., Van Eyk, J., Faca, V., Falkner, J., Fang, X., Fenselau, C., Figeys, D., Gagne, P., Gelfi, C., Gevaert, K., Gimble, J. M., Gnad, F., Goel, R., Gromov, P., Hanash, S. M., Hancock, W. S., Harsha, H. C., Hart, G., Hays, F., He, F., Hebbar, P., Helsens, K., Hermeking, H., Hide, W., Hjerno, K., Hochstrasser, D. F., Hofmann, O., Horn, D. M., Hruban, R. H., Ibarrola, N., James, P., Jensen, O. N., Jensen, P. H., Jung, P., Kandasamy, K., Kheterpal, I., Kikuno, R. F., Korf, U., Korner, R., Kuster, B., Kwon, M. S., Lee, H. J., Lee, Y. J., Lefevre, M., Lehvaslaiho, M., Lescuyer, P., Levander, F., Lim, M. S., Lobke, C., Loo, J. A., Mann, M., Martens, L., Martinez-Heredia, J., McComb, M., McRedmond, J., Mehrle, A., Menon, R., Miller, C. A., Mischak, H., Mohan, S. S., Mohmood, R., Molina, H., Moran, M. F., Morgan, J. D., Moritz, R., Morzel, M., Muddiman, D. C., Nalli, A., Navarro, J. D., Neubert, T. A., Ohara, O., Oliva, R., Omenn, G. S., Oyama, M., Paik, Y. K., Pennington, K., Pepperkok, R., Periaswamy, B., Petricoin, E. F., Poirier, G. G., Prasad, T. S., Purvine, S. O., Rahiman, B. A., Ramachandran, P., Ramachandra, Y. L., Rice, R. H., Rick, J., Ronnholm, R. H., Salonen, J., Sanchez, J. C., Sayd, T., Seshi, B., Shankari, K., Sheng, S. J., Shetty, V., Shivakumar, K., Simpson, R. J., Sirdeshmukh, R., Siu, K. W., Smith, J. C., Smith, R. D., States, D. J., Sugano, S., Sullivan, M., Superti-Furga, G., Takatalo, M., Thongboonkerd, V., Trinidad, J. C., Uhlen, M., Vandekerckhove, J., Vasilescu, J., Veenstra, T. D., Vidal-Taboada, J. M., Vihinen, M., Wait, R., Wang, X., Wiemann, S., Wu, B., Xu, T., Yates, J. R., Zhong, J., Zhou, M., Zhu, Y., Zurbig, P., Pandey, A., (2008) Human Proteinpedia enables sharing of human protein data. Nat Biotechnol, 26:164-7
     link to pubmed

  17. Lobke, C., Laible, M., Rappl, C., Ruschhaupt, M., Sahin, O., Arlt, D., Wiemann, S., Poustka, A., Sultmann, H., Korf, U., (2008) Contact spotting of protein microarrays coupled with spike-in of normalizer protein permits time-resolved analysis of ERBB receptor signaling. Proteomics, 8:1586-94
     link to pubmed

  18. Kohl, T., Schmidt, C., Wiemann, S., Poustka, A., Korf, U., (2008) Automated production of recombinant human proteins as resource for proteome research. Proteome Science, 6:4
     link to pubmed

  19. Kissling, C., Retz, W., Wiemann, S., Coogan, A. N., Clement, R. M., Hunnerkopf, R., Conner, A. C., Freitag, C. M., Rosler, M., Thome, J., (2008) A polymorphism at the 3'-untranslated region of the CLOCK gene is associated with adult attention-deficit hyperactivity disorder. Am J Med Genet B Neuropsychiatr Genet, 147:333-8
     link to pubmed

  20. Hahne, F, Mehrle, A, Arlt, D. H., Poustka, A, Wiemann, S, Beissbarth, T., (2008) Extending pathways based on gene lists using InterPro domain signatures. BMC Bioinformatics, 9:3
     link to pubmed

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