German Cancer Research Center
Im Neuenheimer Feld 580 69120 Heidelberg
Germany
Phone: +49 6221 42 4646
Publications
Zhang, J.D.,
Wiemann, S.,
(2009)
KEGGgraph: a graph approach to KEGG PATHWAY in R and Bioconductor. Bioinformatics,
25:1470-1471
link to pubmed
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
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
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
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
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
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
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
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
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
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
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
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
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
Pepperkok, R.,
Wiemann, S.,
(2008)
Integrating systems biology with clinical research. Genome Biol,
9:314
link to pubmed
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
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
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
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
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