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MPI-INF D3 Publications, generated: 17:55, 21 November 2019

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  1. Predrag Radivojac, Wyatt T Clark, Tal Ronnen Oron, Alexandra M Schnoes, Tobias Wittkop, Artem Sokolov, Kiley Graim, Christopher Funk, Karin Verspoor, Asa Ben-Hur, Gaurav Pandey, Jeffrey M Yunes, Ameet S Talwalkar, Susanna Repo, Michael L Souza, Damiano Piovesan, Rita Casadio, Zheng Wang, Jianlin Cheng, Hai Fang, Julian Gough, Patrik Koskinen, Petri T\"{o}r\"{o}nen, Jussi Nokso-Koivisto, Liisa Holm, Domenico Cozzetto, Daniel W A Buchan, Kevin Bryson, David T Jones, Bhakti Limaye, Harshal Inamdar, Avik Datta, Sunitha K Manjari, Rajendra Joshi, Meghana Chitale, Daisuke Kihara, Andreas M Lisewski, Serkan Erdin, Eric Venner, Olivier Lichtarge, Robert Rentzsch, Haixuan Yang, Alfonso E Romero, Prajwal Bhat, Alberto Paccanaro, Tobias Hamp, Rebecca Ka\ss ner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Boehm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter H\"{o}nigschmid, Thomas A Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass, Cedric Landerer, Yannick Mahlich, Manfred Roos, Jari Bj\"{o}rne, Tapio Salakoski, Andrew Wong, Hagit Shatkay, Fanny Gatzmann, Ingolf Sommer, Mark N Wass, Michael J E Sternberg, Nives Skunca, Fran Supek, Matko Bo\v{s}njak, Pan\v{c}e Panov, Sa\v{s}o D\v{z}eroski, Tomislav Smuc, Yiannis A I Kourmpetis, Aalt D J van Dijk, Cajo J F Ter Braak, Yuanpeng Zhou, Qingtian Gong, Xinran Dong, Weidong Tian, Marco Falda, Paolo Fontana, Enrico Lavezzo, Barbara {Di Camillo}, Stefano Toppo, Liang Lan, Nemanja Djuric, Yuhong Guo, Slobodan Vucetic, Amos Bairoch, Michal Linial, Patricia C Babbitt, Steven E Brenner, Christine Orengo, Burkhard Rost, Sean D Mooney, and Iddo Friedberg
    A large-scale evaluation of computational protein function prediction
    Nature Methods 10 (3): 221-227, 2013
  2. Juan Sandoval, Jesus Mendez-Gonzales, Ernest Nadal, Guoan Chen, F. Javier Carmona, Sergi Sayols, Sebastian Moran, Holger Heyn, Miguel Vizoso, Antonio Gomez, Montse Sanchez-Cespedes, Yassen Assenov, Fabian Müller, Christoph Bock, Miquel Taron, Josefina Mora, Lucia A. Muscarella, Triantafillos Liloglou, Michael Davies, Marina Pollan, Maria J. Pajares, Wenceslao Torre, Luis M. Montuenga, Elisabeth Brambilla, John K. Field, Luca Roz, Marco Lo Iacono, Giorgio V. Scagliotti, Rafael Rosell, David G. Beer, and Manel Esteller
    A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
    Journal of Clinical Oncology 31 (32): 4140-4147, 2013
  3. T Steijger, JF Abril, PG Engström, F Kokocinski, JF Abril, M Akerman, T Alioto, G Ambrosini, SE Antonarakis, J Behr, R Bohnert, P Bucher, N Cloonan, T Derrien, S Djebali, J Du, S Dudoit, PG Engström, M Gerstein, TR Gingeras, D Gonzalez, SM Grimmond, L Habegger, C Iseli, G Jean, A Kahles, F Kokocinski, J Lagarde, J Leng, G Lefebvre, S Lewis, A Mortazavi, P Niermann, G Rätsch, A Reymond, P Ribeca, H Richard, J Rougemont, J Rozowsky, M Sammeth, A Sboner, Marcel Holger Schulz, SM Searle, ND Solorzano, V Solovyev, M Stanke, T Steijger, BJ Stevenson, H Stockinger, A Valsesia, D Weese, S White, BJ Wold, J Wu, TD Wu, G Zeller, D Zerbino, MQ Zhang, TJ Hubbard, R Guigó, J Harrow, and P Bertone
    Assessment of transcript reconstruction methods for RNA-seq
    Nature Methods 10 (12): 1177-84, 2013
  4. David Ellinghaus, Hu Zhang, Sebastian Zeissig, Simone Lipinski, Andreas Till, Tao Jiang, Björn Stade, Yana Bromberg, Eva Ellinghaus, Andreas Keller, Manuel A. Rivas, Jurgita Skieceviciene, Nadezhda T. Doncheva, Xiao Liu, Qing Liu, Fuman Jiang, Michael Forster, Gabriele Mayr, Mario Albrecht, Robert Häsler, Bernhard O. Boehm, Jane Goodall, Carlo R. Berzuini, James Lee, Vibeke Andersen, Ulla Vogel, Limas Kupcinskas, Manfred Kayser, Michael Krawczak, Susanna Nikolaus, Rinse K. Weersma, Cyriel Y. Ponsioen, Miquel Sans, Cisca Wijmenga, David P. Strachan, Wendy L. McArdle, Séverine Vermeire, Paul Rutgeerts, Jeremy D. Sanderson, Christopher G. Mathew, Morten H. Vatn, Jun Wang, Markus M. Nöthen, Richard H. Duerr, Carsten Büning, Stephan Brand, Jürgen Glas, Juliane Winkelmann, Thomas Illig, Anna Latiano, Vito Annese, Jonas Halfvarson, Mauro D'Amato, Mark J. Daly, Michael Nothnagel, Tom H. Karlsen, Suresh Subramani, Philip Rosenstiel, Stefan Schreiber, Miles Parkes, and Andre Franke
    Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
    Gastroenterology 145 (2): 339-347, 2013
  5. J. Dietz, Sven-Eric Schelhorn, D. Fitting, U. Mihm, S. Susser, M.-W. Welker, C. Füller, M. Däumer, G. Teuber, H. Wedemeyer, T. Berg, Thomas Lengauer, Stefan Z., E. Herrmann, and C. Sarrazin
    Deep sequencing reveals mutagenic effects of ribavirin during monotherapy of HCV genotype 1-infected patients
    Journal of Virology 87 (11): 6172-6181, 2013
  6. Jimmy Z. Liu, Johannes Roksund Hov, Trine Folseraas, Eva Ellinghaus, Simon M. Rushbrook, Nadezhda T. Doncheva, Ole A. Andreassen, Rinse K. Weersma, Tobias J. Weismuller, Bertus Eksteen, Pietro Invernizzi, Gideon M. Hirschfield, Daniel Nils Gotthardt, Albert Pares, David Ellinghaus, Tejas Shah, Brian D. Juran, Piotr Milkiewicz, Christian Rust, Christoph Schramm, Tobias Muller, Brijesh Srivastava, Georgios Dalekos, Markus M. Nothen, Stefan Herms, Juliane Winkelmann, Mitja Mitrovic, Felix Braun, Cyriel Y. Ponsioen, Peter J. P. Croucher, Martina Sterneck, Andreas Teufel, Andrew L. Mason, Janna Saarela, Virpi Leppa, Ruslan Dorfman, Domenico Alvaro, Annarosa Floreani, Suna Onengut-Gumuscu, Stephen S. Rich, Wesley K. Thompson, Andrew J. Schork, Sigrid Naess, Ingo Thomsen, Gabriele Mayr, Inke R. Konig, Kristian Hveem, Isabelle Cleynen, Javier Gutierrez-Achury, Isis Ricano-Ponce, David van Heel, Einar Bjornsson, Richard N. Sandford, Peter R. Durie, Espen Melum, Morten H. Vatn, Mark S. Silverberg, Richard H. Duerr, Leonid Padyukov, Stephan Brand, Miquel Sans, Vito Annese, Jean-Paul Achkar, Kirsten Muri Boberg, Hanns-Ulrich Marschall, Olivier Chazouilleres, Christopher L. Bowlus, Cisca Wijmenga, Erik Schrumpf, Severine Vermeire, Mario Albrecht, The UK-PSCSC Consortium, The International IBD Genetics Consortium, John D. Rioux, Graeme Alexander, Annika Bergquist, Judy Cho, Stefan Schreiber, Michael P. Manns, Martti Farkkila, Anders M. Dale, Roger W. Chapman, Konstantinos N. Lazaridis, The International PSC Study Group, Andre Franke, Carl A. Anderson, and Tom H. Karlsen
    Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
    Nature Genetics 45 (6): 670-677, 2013
  7. T. Bhadra, M. Battacharya, L. Feuerbach, Thomas Lengauer, and S. Bandyopadhyay
    DNA Methylation Patterns Facilitate the Identification of Transcription Start Sites: A Brain-specofoc Study
    PLOSONE 8 (6), 2013
  8. Bastian Beggel, C. Münk, M. Däumer, K. Hauck, D. Häussinger, Thomas Lengauer, and A. Ehrhardt
    Full genome ultra-deep pyrosequencing associates G-to-A-hypermutation of the hepatitis B virus genome with the natural progression of hepatitis B
    Journal of Viral Hepatitis 12: 882-889, 2013
  9. Sven-Eric Schelhorn, M. Fischer, Laura Tolosi, J. Altmüller, P. Nürnberg, H. Pfister, Thomas Lengauer, and F. Berthold
    Sensitive detection of viral transcripts in human tumor transcriptomes
    PLOS Computational Biology 9 (10), 2013
  10. Christoph Welsch, Sabine Schweizer, Testsuro Shimakami, Francisco S. Domingues, Seungtaek Kim, Stanley, M. Lemon, and Iris Antes
    Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants of the NS3 Serine Protease
    Antimicrobial Agents and Chemotherapy 56 (4): 1907-1915, 2012
  11. Christoph Welsch, Tetsuro Shimakami, Christoph Hartmann, Yan Yang, Francisco S. Domingues, Thomas Lengauer, Stefan Zeuzem, and Stanley M. Lemon
    Peptidomimetic Escape Mechanisms Arise via Genetic Diversity in the Ligand-Binding Site of the Hepatitis C Virus NS3/4A Serine Protease
    Gastroenterology 142 (3): 654-663, 2012
  12. John H. Morris, Leonard Apeltsin, Aaron M. Newman, Jan Baumbach, Tobias Wittkop, Gang Su, Gary D. Bader, and Thomas E. Ferrin
    clusterMaker: A Multi-algorithm Clustering Plugin for Cytoscape
    BMC Bioinformatics 12 (1): 436,1-436,14, 2011
  13. M.-W. Welker, Christoph Welsch, D. Ochs, W. P. Hofmann, E. Herrmann, A. Piiper, R. W. Hartmann, S. Zeuzem, C. Sarrazin, and Bernd Kronenberger
    Comparison of Envelope 2 CD81 binding regions in PBMC-derived versus serum-derived hepatitis C virus isolates: higher conservation of CD81 region 2 in PBMC isolates
    Journal of Viral Hepatitis 18 (3): 181-192, 2011
  14. Jeronimo C. Ruiz, Vivian D'Afonseca, Artur Silva, Amjad Ali, Anne C. Pinto, Anderson R. Santos, Aryanne A. M. C. Rocha, Debora O. Lopes, Fernanda A. Dorella, Luis G. C. Pacheco, Marcilia P. Costa, Meritxell Z. Turk, Nubia Seyffert, Pablo M. R. O. Moraes, Siomar C. Soares, Sintia S. Almeida, Thiago L. P. Castro, Vinicius A. C. Abreu, Eva Trost, Jan Baumbach, Andreas Tauch, Maria P. C. Schneider, John McCulloch, Louise T. Cerdeira, Rommel T. J. Ramos, Adhemar Zerlotini, Anderson Dominitini, Daniela M. Resende, Elisangela M. Coser, Luciana M. Oliveira, Andre L. Pedrosa, Carlos U. Vieira, Claudia T. Guimaraes, Daniela C. Bartholomeu, Diana M. Oliveira, Fabricio R. Santos, Elida Mara Rabelo, Francisco P. Lobo, Gloria R. Franco, Ana Flavia Costa, Ieso M. Castro, Silvia Regina Dias, Jesus A. Ferro, Jose Miguel Ortega, Luciano V. Paiva, Luiz R. Goulart, Juliana Franco Almeida, Maria Ines Ferro, Newton P. Carneiro, Paula R. K. Falcao, Priscila Grynberg, Santuza M. R. Teixeira, Sergio Brommonschenkel, Sergio C. Oliveira, Roberto Meyer, Robert J. Moore, Anderson Miyoshi, Guilherme C. Oliveira, and Vaco Azevedo
    Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
    PLoS One 6 (4): e18551 p., 2011
  15. Eduardo Seclen, Vincente Soriano, Maria M González, Sagrario Gómez, Alexander Thielen, and Eva Poveda
    High Concordance between the Position-Specific Scoring Matrix and Geno2pheno Algorithms for Genotypic Interpretation of HIV-1 Tropism: V3 Length as the Major Cause of Disagreement
    Journal of Clinical Microbiology 49: 3380-3382, 2011
  16. Sima J. Zacharek, Christine M. Fillmore, Allison N. Lau, David W. Gludish, alan Chou, Joshua W. K. Ho, Raffaella Zamponi, Roi Gazit, Christoph Bock, Natalie Jäger, Zachary D. Smith, Tae-min Kim, Arven H. Saunders, Janice Wong, Joo-Hyeon Lee, Rebecca R. Roach, Derrick J. Rossi, Alex Meissner, Alexander A. Gimelbrant, Peter J. Park, and Carla F. Kim
    Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
    Cell Stem Cell 9 (3): 272-280, 2011
  17. M. Zazzi, R. Kaiser, A. Sönnerborg, D Struck, Andre Altmann, M. Prosperi, M. Rosen-Zvi, A. Petroczi, Y. Peres, E. Schülter, C.A. Boucher, F. Brun-Vezinet, R. Harrigan, L. Morris, M. Obermeier, C.-F. Perno, P. Phanuphak, D Pillay, R.W. Shafer, A.-M. Vandamme, K. Van Laethem, A. Wensing, Thomas Lengauer, and F. Incardona
    Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE study)
    HIV Medicine 12 (4): 211-218, 2011
  18. Tetsuro Shimakami, Christoph Welsch, Daisuke Yamane, David R. McGivern, MinKyung Yi, Stefan Zeuzem, and Stanley M. Lemon
    Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
    Gastroenterology 140 (2): 667-675, 2011
  19. Bruno Aranda, Hagen Blankenburg, Samuel Kerrien, Fiona S. Brinkman, Arnaud Ceol, Emilie Chautard, Jose M. Dana, Javier De Las Rivas, Marine Dumousseau, Eugenia Galeota, Anna Gaulton, Johannes Goll, Robert E. W. Hancock, Ruth Isserlin, Rafael C. Jimenez, Jules Kerssemakers, Jyoti Khadake, David J. Lynn, Magali Michaut, Gavin O'Kelly, Keiichiro Ono, Sandra Orchard, Carlos Prieto, Sabry Razick, Olga Rigina, Lukasz Salwinski, Milan Simonovic, Sameer Velankar, Andrew Winter, Guanming Wu, Gary D. Bader, Gianni Cesareni, Ian M. Donaldson, David Eisenberg, Gerard J. Kleywegt, John Overington, Sylvie Ricard-Blum, Mike Tyers, Mario Albrecht, and Henning Hermjakob
    PSICQUIC and PSISCORE: accessing and scoring molecular interactions
    Nature Methods 8 (7): 528-529, 2011
  20. Francisco M Codoñer, Christian Pou, Alexander Thielen, Federico García, Rafael Delgado, David Dalmau, José Ramon Santos, Maria José Buzón, Javier Alvarez-Tejado, Miguel Martínez-Picado, Bonaventura Clotet, Lidia Ruiz, and Roger Paredes
    Dynamic escape of pre-existing raltegravir-resistant HIV-1 from raltegravir selection pressure
    Antiviral Research 88 (3): 281-286, 2010
  21. Andre Franke, Tobias Balschun, Christian Sina, David Ellinghaus, Robert Häsler, Gabriele Mayr, Mario Albrecht, Michael Wittig, Eva Buchert, Susanna Nikolaus, Christian Gieger, H. Erich Wichmann, Jurgita Sventoraityte, Limas Kupcinskas, Clive M. Onnie, Maria Gazouli, Nicholas P. Anagnou, David Strachan, Wendy L. McArdle, Christopher G. Mathew, Paul Rutgeerts, Séverine Vermeire, Morten H. Vatn, Michael Krawczak, Philip Rosenstiel, Tom H. Karlsen, and Stefan Schreiber
    Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL)
    Nature Genetics 42 (4): 292-294, 2010
  22. Christoph Bock, Eleni M. Tomazou, Arie B. Brinkman, Fabian Müller, Femke Simmer, Hongcang Gu, Natalie Jäger, Andreas Gnirke, Hendrik G. Stunnenberg, and Alexander Meissner
    Quantitative comparison of genome-wide DNA methylation mapping technologies
    Nature Biotechnology 28 (10): 1106-1114, 2010
    [PDF: Download: Genome-wide mapping of DNA methylation - a quantitative technology comparison.pdf]
  23. Kasia Bozek, Angela Relógio, Szymon M. Kielbasa, Markus Heine, Christof Dame, Achim Kramer, and Hanspeter Herzel
    Regulation of clock-controlled genes in mammals.
    PLoS One 4 (3): e4882:1-e4882:12, 2009
  24. Hagen Blankenburg, Robert D. Finn, Andreas Prlić, Andrew M. Jenkinson, Fidel Ramírez, Dorothea Emig, Sven-Eric Schelhorn, Joachim Büch, Thomas Lengauer, and Mario Albrecht
    DASMI: exchanging, annotating and assessing molecular interaction data
    Bioinformatics 25 (10): 1321-1328, 2009
  25. Andrew M. Jenkinson, Mario Albrecht, Ewan Birney, Hagen Blankenburg, Thomas Down, Robert D. Finn, Henning Hermjakob, Tim J. P. Hubbard, Rafael C. Jimenez, Philip Jones, Andreas Kähäri, Eugene Kulesha, José R. Macías, Gabrielle A. Reeves, and Andreas Prlić
    Integrating biological data - the Distributed Annotation System
    BMC Bioinformatics 9 (Suppl. 8): S3.1-7, 2008
  26. Andre Franke, Tobias Balschun, Tom H. Karlsen, Jurgita Sventoraityte, Susanna Nikolaus, Gabriele Mayr, Francisco S. Domingues, Mario Albrecht, Michael Nothnagel, David Ellinghaus, Christian Sina, Clive M. Onnie, Rinse K. Weersma, Pieter C. F. Stokkers, Cisca Wijmenga, Maria Gazouli, David Strachan, Wendy L. McArdle, Séverine Vermeire, Paul Rutgeers, Philip Rosenstiel, Michael Krawczak, Morten H. Vatn, the IBSEN study group, Christopher G. Mathew, and Stefan Schreiber
    Sequence variants in IL10, ARPC2, and multiple other loci contribute to ulcerative colitis
    Nature Genetics 40 (11): 1319-1323, 2008
  27. Gerben Van Ooijen, Gabriele Mayr, Mobien M. A. Kasiem, Mario Albrecht, Ben J. C. Cornelissen, and Frank L. W. Takken
    Structure-function analysis of the NB-ARC domain of plant disease resistance proteins
    Journal of Experimental Botany 59 (6): 1383-1397, 2008
  28. James D. Watson, Janet M. Thornton, Michael L. Tress, Gonzalo Lopez, Alfonso Valencia, Oliver Redfern, Christine A. Orengo, Ingolf Sommer, and Francisco S. Domingues
    Structure to function
    In: Modern Genome Annotation, 2008, 239-262
  29. Jochen Hampe, Andre Franke, Philip Rosenstiel, Andreas Till, Markus Teuber, Klaus Huse, Mario Albrecht, Gabriele Mayr, Francisco M. De La Vega, Jason Briggs, Simone Günther, Natalie J. Prescott, Clive M. Onnie, Robert Häsler, Bence Sipos, Ulrich R. Fölsch, Thomas Lengauer, Matthias Platzer, Christopher G. Mathew, Michael Krawczak, and Stefan Schreiber
    A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
    Nature Genetics 39 (2): 207-211, 2007
  30. Ralf Ketter, Yoo-Jin Kim, Simone Storck, Jörg Rahnenführer, Bernd F.M. Romeike, Wolf-Ingo Steudel, Klaus D. Zang, and Wolfram Henn
    Hyperdiploidy defines a distinct cytogenetic entity of meningiomas
    Journal of Neuro-Oncology 83 (2): 213-221, 2007

  31. G. Ahlenstiel, Kirsten Roomp, Martin Däumer, T. Nattermann, M. Vogel, J.K. Rockstroh, Niko Beerenwinkel, R. Kaiser, H.-D. Nischalke, T. Sauerbruch, Thomas Lengauer, and U. Spengler
    Selective pressures of HLA genotypes and antiviral therapy on human immunodeficiency virus type 1 sequence mutation at a population level
    Clinical and Vaccine Immunology 14 (10): 1266-1273, 2007

  32. Christoph Welsch, Mario Albrecht, Jochen Maydt, E. Herrmann, M.W. Welker, C. Sarrazin, A. Scheidig, Thomas Lengauer, and S. Zeuzem
    Structural and functional comparison of the non-structural protein 4B of flaviviridae
    Journal of Molecular Graphics and Modeling 26 (2): 546-557, 2007
  33. Andre Franke, Jochen Hampe, Philip Rosenstiel, Christoph Becker, Florian Wagner, Robert Häsler, Randall D. Little, Klaus Huse, Andreas Ruether, Tobias Balschun, Michael Wittig, Abdou ElSharawy, Gabriele Mayr, Mario Albrecht, Natalie J. Prescott, Clive M. Onnie, Hélène Fournier, Tim Keith, Uwe Radelof, Matthias Platzer, Christopher G. Mathew, Monika Stoll, Michael Krawczak, Peter Nürnberg, and Stefan Schreiber
    Systematic association mapping identifies NELL1 as a novel IBD disease gene
    PLoS ONE 2 (8): e691.1-13, 2007
  34. Michael L. Tress, Pier L. Martelli, Adam Frankish, Gabrielle A. Reeves, Jan J. Wesselink, Corin Yeats, Páll Í. Ólason, Mario Albrecht, Hedi Hegyi, Alejandro Giorgetti, Domenico Raimondo, Julien Lagarde, Roman A. Laskowski, Gonzalo López, Michael I. Sadowski, James D. Watson, Piero Fariselli, Ivan Rossi, Alinda Nagy, Wang Kai, Zenia Størling, Massimiliano Orsini, Yassen Assenov, Hagen Blankenburg, Carola Huthmacher, Fidel Ramírez, Andreas Schlicker, France Denoued, Phil Jones, Samuel Kerrien, Sandra Orchard, Stylianos E. Antonarakis, Alexandre Reymond, Ewan Birney, Søren Brunak, Rita Casadio, Roderic Guigo, Jennifer Harrow, Henning Hermjakob, David T. Jones, Thomas Lengauer, Christine A. Orengo, László Patthy, Janet M. Thornton, Anna Tramontano, and Alfonso Valencia
    The implications of alternative splicing in the ENCODE protein complement
    Proceedings of the National Academy of Sciences 104 (13): 5495-5500, 2007

  35. Maurizio Zazzi, Ehud Aharoni, Andre Altmann, Fulop Baszó, Penny Bidgood, Gabór Borgulya, J Denholm-Prince, M Fielder, Rolf Kaiser, Carmel Kent, Thomas Lengauer, T Nepusz, Hanni Neuvirth, Yardena Peres, Andrea Petroczi, Mattia Prosperi, L Romano, Michal Rosen-Zvi, Eugen Schülter, Tobias Sing, Andras Sonnerborg, R Thompson, G Ulivi, L Zalány, and Francesca Incardona
    EuResist: exploration of multiple modeling techniques for prediction of response to treatment
    In: Proceedings of the 5th European HIV Drug Resistance Workshop, Cascais, Portugal, 2007
  36. Nazila Salamat-Miller, Jianwen Fang, Christopher W. Seidel, Aaron M. Smalter, Yassen Assenov, Mario Albrecht, and C. Russell Middaugh
    A network-based analysis of polyanion-binding proteins utilizing yeast protein arrays
    Molecular and Cellular Proteomics 5 (12): 2263-2278, 2006
  37. Annett Boeddrich, Sébastien Gaumer, Annette Haacke, Nikolay Tzvetkov, Mario Albrecht, Bernd O. Evert, Eva C. Müller, Rudi Lurz, Peter Breuer, Nancy Schugardt, Stephanie Plaßmann, Kexiang Xu, John M. Warrick, Jaana Suopanki, Ullrich Wüllner, Ronald Frank, Ulrich F. Hartl, Nancy M. Bonini, and Erich E. Wanker
    An arginine/lysine-rich motif is crucial for VCP/p97-mediated modulation of ataxin-3 fibrillogenesis
    EMBO Journal 25 (7): 1547-1558, 2006
  38. Dorothee M. Heckmann-Pohl, Sabine Bastian, S. Altmeier, and Iris Antes
    Improvement of the fungal enzyme pyranose 2-oxidase using protein engineering
    Journal of Biotechnology 124 (1): 26-40, 2006
  39. Guido Plotz, Christoph Welsch, Luis Giron-Monzon, Peter Friedhoff, Mario Albrecht, Albrecht Piiper, Ricardo M. Biondi, Thomas Lengauer, Stefan Zeuzem, and Jochen Raedle
    Mutations in the MutSalpha interaction interface of MLH1 can abolish DNA mismatch repair
    Nucleic Acids Research 34 (22): 6574-6586, 2006
    [PDF: Download: Plotz.pdf]
  40. Valentina Svicher, Francesca Ceccherini-Silberstein, Tobias Sing, Maria Mercedes Santoro, C. Gori, Niko Beerenwinkel, F. Gago, R. D'Arrigo, M.C. Bellochi, S. Giannella, A. Bertoli, A. D'Arminio Monforte, A. Antinori, and Carlo-Federico Perno
    A highly ordered network of HIV-1 RT mutations regulates the continuous escape from antiviral drugs
    In: International Workshop in HIV Dynamics and Evolution, Cleveland, Ohio, USA, 2005
  41. Marjan M. Van Duist, Mario Albrecht, Marta Podswiadek, Daniela Giachino, Thomas Lengauer, Leonardo Punzi, and Mario De Marchi
    A new CARD15 mutation in Blau syndrome
    European Journal of Human Genetics 13 (6): 742-747, 2005
  42. Valentina Svicher, Francesca Ceccherini-Silberstein, Tobias Sing, Maria Mercedes Santoro, C. Gori, Niko Beerenwinkel, F. Gago, R. D'Arrigo, M. C. Bellocchi, S. Giannella, A. Bertoli, A. D'Arminio Monforte, A. Antinori, and Carlo-Federico Perno
    Additional Mutations in HIV-1 Reverse Transcriptase are Involved in the Highly Ordered Regulation of NRTI Resistance
    In: Proceedings of the 3rd European HIV Drug Resistance Workshop, Athens, Greece, 2005
  43. Christine M. Costello, Nancy Mah, Robert Häsler, Philip Rosenstiel, Georg H. Waetzig, Andreas Hahn, Tim Lu, Yesim Gurbuz, Susanna Nikolaus, Mario Albrecht, Jochen Hampe, Ralph Lucius, Günther Klöppel, Holger Eickhoff, Hans Lehrach, Thomas Lengauer, and Stefan Schreiber
    Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
    PLoS Medicine 2 (8): 771-787, 2005
  44. G. Hessler, M. Zimmermann, H. Matter, A. Evers, T. Naumann, Thomas Lengauer, and M. Rarey
    Multiple-Ligand-Based Virtual Screening: Methods and Applications of the MTree Approach
    Journal of Medicinal Chemistry 48 (21): 6575-6584, 2005
  45. Sarah Ulmschneider, Ursula Mueller-Vieira, Markus Mitrenga, Rolf W. Hartmann, S Oberwinkler-Marchais, Christian D. Klein, M. Bureik, R. Bernhardt, Iris Antes, and Thomas Lengauer
    Synthesis and Evaluation of Imidazolylmethylenetetrahydronaphthalenes and Imidazolylmethyleneindanes: Potent Inhibitors of Aldosterone Synthase
    Journal of Medicinal Chemistry 48 (6): 1796-1805, 2005
  46. Christian Merkwirth, H. Mauser, T. Schulz-Gasch, O. Roche, M. Stahl, and Thomas Lengauer
    Ensemble methods for classification in cheminformatics
    Journal of Chemical Information and Modeling 44 (6): 1971-1978, 2004
  47. Andreas Hahn, Christine M. Costello, Tim Lu, Thomas Lengauer, and Stefan Schreiber
    Expression analysis for inflammatory bowel disease
    In: Workshop Poster Competition, Saarbrücken, 2004
  48. Monika Stoll, Brit Corneliussen, Christine M. Costello, Georg H. Waetzig, Bjorn Mellgard, W. Andreas Koch, Philip Rosenstiel, Mario Albrecht, Peter J.P. Croucher, Dirk Seegert, Susanna Nikolaus, Jochen Hampe, Thomas Lengauer, Stefan Pierrou, Ulrich R. Foelsch, Christopher G. Mathew, Maria Lagerstrom-Fermer, and Stefan Schreiber
    Genetic variation in DLG5 is associated with inflammatory bowel disease
    Nature Genetics 36 (5): 376-380, 2004
  49. A. Hannemann, J.C. Schön, M. Jansen, H. Putz, and Thomas Lengauer
    Modelling amorphous Si3B3N7: Structure and elastic properties
    Physical Review B 70 (14): 144201-144201, 2004
  50. Thomas Lengauer, Christian Lemmen, Matthias Rarey, and M. Zimmermann
    Novel technologies for virtual screening
    Drug Discovery Today 9 (1): 27-34, 2004
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