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Year

Author(s) [non member]

Title

Type

Günther, Simone

2007

[Hampe, Jochen]
[Franke, Andre]
[Rosenstiel, Philip]
[Till, Andreas]
[Teuber, Markus]
[Huse, Klaus]
Albrecht, Mario
Mayr, Gabriele
[De La Vega, Francisco M.]
[Briggs, Jason]
[Günther, Simone]
[Prescott, Natalie J.]
[Onnie, Clive M.]
[Häsler, Robert]
[Sipos, Bence]
[Fölsch, Ulrich R.]
Lengauer, Thomas
[Platzer, Matthias]
[Mathew, Christopher G.]
[Krawczak, Michael]
[Schreiber, Stefan]

A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211

Journal Article

Guo, Xin

2006

Guo, Xin

Improving Fold Recognition Using Protein
and Domain Interactions
Universität des Saarlandes

Thesis - Masters thesis

Guo, Yuhong

2013

[Radivojac, Predrag]
[Clark, Wyatt T]
[Oron, Tal Ronnen]
[Schnoes, Alexandra M]
[Wittkop, Tobias]
[Sokolov, Artem]
[Graim, Kiley]
[Funk, Christopher]
[Verspoor, Karin]
[Ben-Hur, Asa]
[Pandey, Gaurav]
[Yunes, Jeffrey M]
[Talwalkar, Ameet S]
[Repo, Susanna]
[Souza, Michael L]
[Piovesan, Damiano]
[Casadio, Rita]
[Wang, Zheng]
[Cheng, Jianlin]
[Fang, Hai]
[Gough, Julian]
[Koskinen, Patrik]
[T\"{o}r\"{o}nen, Petri]
[Nokso-Koivisto, Jussi]
[Holm, Liisa]
[Cozzetto, Domenico]
[Buchan, Daniel W A]
[Bryson, Kevin]
[Jones, David T]
[Limaye, Bhakti]
[Inamdar, Harshal]
[Datta, Avik]
[Manjari, Sunitha K]
[Joshi, Rajendra]
[Chitale, Meghana]
[Kihara, Daisuke]
[Lisewski, Andreas M]
[Erdin, Serkan]
[Venner, Eric]
[Lichtarge, Olivier]
[Rentzsch, Robert]
[Yang, Haixuan]
[Romero, Alfonso E]
[Bhat, Prajwal]
[Paccanaro, Alberto]
[Hamp, Tobias]
[Ka\ss ner, Rebecca]
[Seemayer, Stefan]
[Vicedo, Esmeralda]
[Schaefer, Christian]
[Achten, Dominik]
[Auer, Florian]
[Boehm, Ariane]
[Braun, Tatjana]
[Hecht, Maximilian]
[Heron, Mark]
[H\"{o}nigschmid, Peter]
[Hopf, Thomas A]
[Kaufmann, Stefanie]
[Kiening, Michael]
[Krompass, Denis]
[Landerer, Cedric]
[Mahlich, Yannick]
[Roos, Manfred]
[Bj\"{o}rne, Jari]
[Salakoski, Tapio]
[Wong, Andrew]
[Shatkay, Hagit]
Gatzmann, Fanny
Sommer, Ingolf
[Wass, Mark N]
[Sternberg, Michael J E]
[Skunca, Nives]
[Supek, Fran]
[Bo\v{s}njak, Matko]
[Panov, Pan\v{c}e]
[D\v{z}eroski, Sa\v{s}o]
[Smuc, Tomislav]
[Kourmpetis, Yiannis A I]
[van Dijk, Aalt D J]
[Braak, Cajo J F Ter]
[Zhou, Yuanpeng]
[Gong, Qingtian]
[Dong, Xinran]
[Tian, Weidong]
[Falda, Marco]
[Fontana, Paolo]
[Lavezzo, Enrico]
[{Di Camillo}, Barbara]
[Toppo, Stefano]
[Lan, Liang]
[Djuric, Nemanja]
[Guo, Yuhong]
[Vucetic, Slobodan]
[Bairoch, Amos]
[Linial, Michal]
[Babbitt, Patricia C]
[Brenner, Steven E]
[Orengo, Christine]
[Rost, Burkhard]
[Mooney, Sean D]
[Friedberg, Iddo]

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Gurbuz, Yesim

2005

[Costello, Christine M.]
[Mah, Nancy]
[Häsler, Robert]
[Rosenstiel, Philip]
[Waetzig, Georg H.]
Hahn, Andreas
[Lu, Tim]
[Gurbuz, Yesim]
[Nikolaus, Susanna]
Albrecht, Mario
[Hampe, Jochen]
[Lucius, Ralph]
[Klöppel, Günther]
[Eickhoff, Holger]
[Lehrach, Hans]
Lengauer, Thomas
[Schreiber, Stefan]

Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787

Journal Article

Gürtler, Lutz

2012

[Obermeier, Martin]
[Camacho, Ricardo]
[Charpentier, Charlotte]
[Deschamps, Diane]
[Eberle, Joseph]
[Gürtler, Lutz]
[Ruelle, Jean]
Pironti, Alejandro
[Brun-Veziet, Francoise]
[Stürmer, Martin]
[Kaiser, Rolf]

HIV2EU: supporting standardized HIV-2 drug resistance interpretation in Europe
In: Journal of the International AIDS Society, 135

Poster

Gusfield, Dan (ed.)

2004

Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, 36-44

Proceedings Article

Gutierrez-Achury, Javier

2013

[Liu, Jimmy Z.]
[Hov, Johannes Roksund]
[Folseraas, Trine]
[Ellinghaus, Eva]
[Rushbrook, Simon M.]
Doncheva, Nadezhda T.
[Andreassen, Ole A.]
[Weersma, Rinse K.]
[Weismuller, Tobias J.]
[Eksteen, Bertus]
[Invernizzi, Pietro]
[Hirschfield, Gideon M.]
[Gotthardt, Daniel Nils]
[Pares, Albert]
[Ellinghaus, David]
[Shah, Tejas]
[Juran, Brian D.]
[Milkiewicz, Piotr]
[Rust, Christian]
[Schramm, Christoph]
[Muller, Tobias]
[Srivastava, Brijesh]
[Dalekos, Georgios]
[Nothen, Markus M.]
[Herms, Stefan]
[Winkelmann, Juliane]
[Mitrovic, Mitja]
[Braun, Felix]
[Ponsioen, Cyriel Y.]
[Croucher, Peter J. P.]
[Sterneck, Martina]
[Teufel, Andreas]
[Mason, Andrew L.]
[Saarela, Janna]
[Leppa, Virpi]
[Dorfman, Ruslan]
[Alvaro, Domenico]
[Floreani, Annarosa]
[Onengut-Gumuscu, Suna]
[Rich, Stephen S.]
[Thompson, Wesley K.]
[Schork, Andrew J.]
[Naess, Sigrid]
[Thomsen, Ingo]
Mayr, Gabriele
[Konig, Inke R.]
[Hveem, Kristian]
[Cleynen, Isabelle]
[Gutierrez-Achury, Javier]
[Ricano-Ponce, Isis]
[van Heel, David]
[Bjornsson, Einar]
[Sandford, Richard N.]
[Durie, Peter R.]
[Melum, Espen]
[Vatn, Morten H.]
[Silverberg, Mark S.]
[Duerr, Richard H.]
[Padyukov, Leonid]
[Brand, Stephan]
[Sans, Miquel]
[Annese, Vito]
[Achkar, Jean-Paul]
[Boberg, Kirsten Muri]
[Marschall, Hanns-Ulrich]
[Chazouilleres, Olivier]
[Bowlus, Christopher L.]
[Wijmenga, Cisca]
[Schrumpf, Erik]
[Vermeire, Severine]
Albrecht, Mario
[The UK-PSCSC Consortium,]
[The International IBD Genetics Consortium,]
[Rioux, John D.]
[Alexander, Graeme]
[Bergquist, Annika]
[Cho, Judy]
[Schreiber, Stefan]
[Manns, Michael P.]
[Farkkila, Martti]
[Dale, Anders M.]
[Chapman, Roger W.]
[Lazaridis, Konstantinos N.]
[The International PSC Study Group,]
[Franke, Andre]
[Anderson, Carl A.]
[Karlsen, Tom H.]

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Gut, Ivo

2012

[Adams, David]
[Altucci, Lucia]
[Antonarakis, Stylianos E]
[Ballesteros, Juan]
[Beck, Stephan]
[Bird, Adrian]
Bock, Christoph
[Boehm, Bernhard]
[Campo, Elias]
[Caricasole, Andrea]
[Dahl, Fredrik]
[Dermitzakis, Emmanouil T]
[Enver, Tariq]
[Esteller, Manel]
[Estivill, Xavier]
[Ferguson-Smith, Anne]
[Fitzgibbon, Jude]
[Flicek, Paul]
[Giehl, Claudia]
[Graf, Thomas]
[Grosveld, Frank]
[Guigó, Roderic]
[Gut, Ivo]
[Helin, Kristian]
[Jarvius, Jonas]
[Küppers, Ralf]
[Lehrach, Hans]
Lengauer, Thomas
[Lernmark, Åke]
[Leslie, David]
[Loeffler, Markus]
[Macintyre, Elizabeth]
[Mai, Antonello]
[Martens, Joost H A]
[Minucci, Saverio]
[Ouwehand, Willem H]
[Pelicci, Pier Giuseppe]
[Pendeville, Hèléne]
[Porse, Bo]
[Rakyan, Vardhman]
[Reik, Wolf]
[Schrappe, Martin]
[Schübeler, Dirk]
[Seifert, Martin]
[Siebert, Reiner]
[Simmons, David]
[Soranzo, Nicole]
[Spicuglia, Salvatore]
[Stratton, Michael]
[Stunnenberg, Hendrik G]
[Tanay, Amos]
[Torrents, David]
[Valencia, Alfonso]
[Vellenga, Edo]
[Vingron, Martin]
[Walter, Jörn]
[Willcocks, Spike]

BLUEPRINT to decode the epigenetic signature written in blood
In: Nature Biotechnology [30], 224-226

Journal Article

Gu, Hongcang

2013

[Ziller, Michael J.]
[Gu, Hongcang]
Müller, Fabian
[Donaghey, Julie]
[Tsai, Linus T.-Y.]
[Kohlbacher, Oliver]
[De Jager, Philip L.]
[Rosen, Evan D.]
[Bennett, David A.]
[Bernstein, Bradley E.]
[Gnirke, Andreas]
[Meissner, Alexander]

Charting a dynamic DNA methylation landscape of the human genome
In: Nature [500], 477–481

Journal Article

2011

[Ziller, Michael J.]
Müller, Fabian
[Liao, Jing]
[Zhang, Yingying]
[Gu, Hongcang]
Bock, Christoph
[Boyle, Patrick]
[Epstein, Charles B.]
[Bernstein, Bradley E.]
Lengauer, Thomas
[Gnirke, Andreas]
[Meissner, Alexander]

Genomic distribution and inter-sample variation of non-CpG methylation across human cell types
In: PLoS Genetics [17], e1002389,1-e1002389,15

Electronic Journal Article

2011

[Gu, Hongcang]
[Smith, Zachary D.]
Bock, Christoph
[Boyle, Patrick]
[Gnirke, Andreas]
[Meissner, Alexander]

Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling
In: Nature Protocols [6], 468-481

Journal Article

2011

Bock, Christoph
[Kiskinis, Evangelos]
[Verstappen, Griet]
[Gu, Hongcang]
[Boulting, Gabriella]
[Smith, Zachary D.]
[Ziller, Michael]
[Croft, Gist F.]
[Amoroso, MacKenzie W.]
[Oakley, Derek H.]
[Gnirke, Andreas]
[Eggan, Kevin]
[Meissner, Alexander]

Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines
In: Cell [144], 439-452

Journal Article

2010

[Harris, R. Alan]
[Wang, Ting]
[Coarfa, Cristian]
[Nagarajan, Raman P.]
[Hong, Chibo]
[Downey, Sara L.]
[Johnson, Brett E.]
[Fouse, Shaun D.]
[Delaney, Allen]
[Zhao, Yongjun]
[Olshen, Adam]
[Ballinger, Tracy]
[Zhou, Xin]
[Forsberg, Kevin J.]
[Gu, Junchen]
[Echipare, Lorigail]
[O'Geen, Heriette]
[Lister, Ryan]
[Pelizzola, Mattia]
[Xi, Yuanxin]
[Epstein, Charles B.]
[Bernstein, Bradley E.]
[Hawkins, R. David]
[Ren, Bing]
[Chung, Wen-Yu]
[Gu, Hongcang]
Bock, Christoph
[Gnirke, Andreas]
[Zhang, Michael Q.]
[Haussler, David]
[Ecker, Joseph R.]
[Li, Wei]
[Farnham, Peggy J.]
[Waterland, Robert a.]
[Meissner, Alexander]
[Marra, Marco A.]
[Hirst, Martin]
[Milosavljevic, Aleksandar]
[Costello, Joseph F.]

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

2010

[Gu, Hongcang]
Bock, Christoph
[Mikkelsen, Tarjei S.]
[Jäger, Natalie]
[Smith, Zachary D.]
[Tomazou, Eleni]
[Gnirke, Andreas]
[Lander, Eric S.]
[Meissner, Alexander]

Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution
In: Nature Methods [7], 133-136

Journal Article

2010

Bock, Christoph
[Tomazou, Eleni M.]
[Brinkman, Arie B.]
Müller, Fabian
[Simmer, Femke]
[Gu, Hongcang]
[Jäger, Natalie]
[Gnirke, Andreas]
[Stunnenberg, Hendrik G.]
[Meissner, Alexander]

Quantitative comparison of genome-wide DNA methylation mapping technologies
In: Nature Biotechnology [28], 1106-1114

Journal Article

Gu, Junchen

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Gu, Wei

2005

[Gu, Wei]
[Kofler, Michael]
Antes, Iris
[Freund, Christian]
[Helms, Volkhard]

Alternative Binding Modes of Polyproline Peptides Binding to the GYF Domain
In: Biochemistry [44], 6404-6415

Journal Article

Gwinner, Frederik

2009

Gwinner, Frederik

Assessing the Conservation of Protein Function on Evolutionary Defined Patches
Universität des Saarlandes

Thesis - Masters thesis

"{o}nigschmid, Peter

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Haacke, Annette

2006

[Boeddrich, Annett]
[Gaumer, Sébastien]
[Haacke, Annette]
[Tzvetkov, Nikolay]
Albrecht, Mario
[Evert, Bernd O.]
[Müller, Eva C.]
[Lurz, Rudi]
[Breuer, Peter]
[Schugardt, Nancy]
[Plaßmann, Stephanie]
[Xu, Kexiang]
[Warrick, John M.]
[Suopanki, Jaana]
[Wüllner, Ullrich]
[Frank, Ronald]
[Hartl, Ulrich F.]
[Bonini, Nancy M.]
[Wanker, Erich E.]

An arginine/lysine-rich motif is crucial for VCP/p97-mediated modulation of ataxin-3 fibrillogenesis
In: EMBO Journal [25], 1547-1558

Journal Article

Haasis, Klaus (ed.)

2006

Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas

Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99

Part of a Book

Habegger, L

2013

[Steijger, T]
[Abril, JF]
[Engström,PG]
[Kokocinski, F]
[Abril, JF]
[Akerman, M]
[Alioto, T]
[Ambrosini, G]
[Antonarakis, SE]
[Behr, J]
[Bohnert, R]
[Bucher, P]
[Cloonan, N]
[Derrien, T]
[Djebali, S]
[Du, J]
[Dudoit, S]
[Engström, PG]
[Gerstein, M]
[Gingeras, TR]
[Gonzalez, D]
[Grimmond, SM]
[Habegger, L]
[Iseli, C]
[Jean, G]
[Kahles, A]
[Kokocinski, F]
[Lagarde, J]
[Leng, J]
[Lefebvre, G]
[Lewis, S]
[Mortazavi, A]
[Niermann, P]
[Rätsch, G]
[Reymond, A]
[Ribeca, P]
[Richard, H]
[Rougemont, J]
[Rozowsky, J]
[Sammeth, M]
[Sboner, A]
Schulz, Marcel Holger
[Searle, SM]
[Solorzano, ND]
[Solovyev, V]
[Stanke, M]
[Steijger, T]
[Stevenson, BJ]
[Stockinger, H]
[Valsesia, A]
[Weese, D]
[White, S]
[Wold, BJ]
[Wu, J]
[Wu, TD]
[Zeller, G]
[Zerbino, D]
[Zhang, MQ]
[Hubbard, TJ]
[Guigó, R]
[Harrow, J]
[Bertone, P]

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Hader, Christiane

2007

[Schulz, Wolfgang A.]
Alexa, Adrian
[Jung, Volker]
[Hader, Christiane]
[Hoffmann, Michele J.]
[Yamanaka, Masanori]
[Fritzsche, Sandy]
[Wlazlinski, Agnes]
[Müller, Mirko]
Lengauer, Thomas
[Engers, Rainer]
[Florl, Andrea R.]
[Wullich, Bernd]
Rahnenführer, Jörg

Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer
In: Molecular Cancer [6], 1-16

Journal Article

Haesler, Robert

2005

[Valentonyte, Ruta]
[Hampe, Jochen]
[Huse, Klaus]
[Rosenstiel, Philip]
Albrecht, Mario
[Stenzel, Annette]
[Nagy, Marion]
[Gaede, Karoline I.]
[Franke, Andre]
[Haesler, Robert]
[Koch, Andreas]
Lengauer, Thomas
[Seegert, Dirk]
[Reiling, Norbert]
[Ehlers, Stefan]
[Schwinger, Eberhard]
[Platzer, Mathias]
[Krawczak, Michael]
[Müller-Quernheim, Joachim]
[Schürmann, Manfred]
[Schreiber, Stefan]

Sarcoidosis is associated with a truncating splice site mutation in BTNL2
In: Nature Genetics [37], 357-364

Journal Article

Haeussinger, Dieter

2011

[Reuter, Stefan]
[Oette, Mark]
[Wilhelm, Frank Clemens]
Beggel, Bastian
[Kaiser, Rolf]
[Balduin, Melanie]
[Schweitzer, Finja]
[Verheyen, Jens]
[Adams, Ortwin]
Lengauer, Thomas
[Faetkenheuer, Gerd]
[Pfister, Herbert]
[Haeussinger, Dieter]

Erratum to: Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients.
In: Medical Microbiology and Immunology [200], 51-51

Journal Article

2011

Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients
In: Medical Microbiology and Immunology [200], 39-49

Journal Article

Hahn, Andreas

2005

Hahn, Andreas
Rahnenführer, Jörg
Talwar, Priti
Lengauer, Thomas

Confirmation of human protein interaction data by human expression data
In: BMC Bioinformatics [6], 1-11

Journal Article

2005

Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787

Journal Article

2004

Hahn, Andreas
[Costello, Christine M.]
[Lu, Tim]
Lengauer, Thomas
[Schreiber, Stefan]

Expression analysis for inflammatory bowel disease
In: Workshop Poster Competition, ?

Poster

2002

Hahn, Andreas
[Costello, Christine M.]
[Lu, Tim]
Lengauer, Thomas
[Schreiber, Stefan]

Expression analysis for inflammatory bowel disease
In: Proceedings of the n?th Conference on, ?

Poster

Haid, Carla

2007

Haid, Carla

BSIFlex: Binding Site Identification including protein flexibility
Universität des Saarlandes

Thesis - Masters thesis

Halachev, Konstantin

2013

Tolosi, Laura
[Theißen, J.]
Halachev, Konstantin
[Hero, B.]
[Berthold, F.]
Lengauer, Thomas

A method for finding consensus breakpoints in the cancer genome from copy number data
In: Bioinformatics [29], 1793-1800

Journal Article

2013

Halachev, Konstantin
Bast, H.
Lengauer, Thomas
Bock, Christoph

Interactive exploration of large genome and epigenome datasets in real time
In: Genome Biology [13], xx

Journal Article

2012

[Feuerbach, Lars]
Halachev, Konstantin
Assenov, Yassen
Mueller, Fabian
Bock, Christoph
Lengauer, Thomas

Analyzing epigenome data in context of genome evolution and human diseases
In: Evolutionary Genomics : Statistical and Computational Methods, Volume 2, 431-467
In: Methods of Molecular Biology [856], 431-467

Part of a Book

2012

Halachev, Konstantin
[Bast, Hannah]
Albrecht, Felipe
Lengauer, Thomas
Bock, Christoph

EpiExplorer: live exploration and global analysis of large epigenomic datasets
In: Genome Biology [13], R96,1-R96,14

Electronic Journal Article

2010

Bock, Christoph
[Von Kuster, Greg]
Halachev, Konstantin
[Taylor, James]
[Nekrutenko, Anton]
Lengauer, Thomas

Web-based analysis of (epi-) genome data using EpiGRAPH and Galaxy.
In: Genetic Variation : Methods and Protocols, 275-296
In: Methods of Molecular Biology [628], 275-296

Part of a Book

2009

Feuerbach, Lars
Halachev, Konstantin
Lengauer, Thomas
Bock, Christoph

An exhaustive methode for CpG island annotation
In: Special Issue: Abstracts of the 3rd MC-GARD Meeting, 146-146

Poster

2009

Bock, Christoph
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas

EpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data
In: Genome Biology [10], R14.1-R14.14

Journal Article

2008

Feuerbach, Lars
Christopher, Bock
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas

Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis
In: Abstracts of the 2nd MC-GARD Meeting, 230

Electronic Proceedings Article

2006

Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas

Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99

Part of a Book

2006

Halachev, Konstantin

EpiGRAPHregression: A toolkit for (epi-)genomic correlation analysis and prediction of quantitative attributes
Universität des Saarlandes

Thesis - Masters thesis

Halachev, K.

2012

Halachev, K.
[Bast, H.]
Albrecht, F.
Lengauer, Thomas
Bock, Christoph

EpiExplorer: live exploration and global analysis of large epigenomic datasets
In: Genome Biology [13], R96,1-R96,14

Journal Article

Halfvarson, Jonas

2013

[Ellinghaus, David]
[Zhang, Hu]
[Zeissig, Sebastian]
[Lipinski, Simone]
[Till, Andreas]
[Jiang, Tao]
[Stade, Björn]
[Bromberg, Yana]
[Ellinghaus, Eva]
[Keller, Andreas]
[Rivas, Manuel A.]
[Skieceviciene, Jurgita]
Doncheva, Nadezhda T.
[Liu, Xiao]
[Liu, Qing]
[Jiang, Fuman]
[Forster, Michael]
Mayr, Gabriele
Albrecht, Mario
[Häsler, Robert]
[Boehm, Bernhard O.]
[Goodall, Jane]
[Berzuini, Carlo R.]
[Lee, James]
[Andersen, Vibeke]
[Vogel, Ulla]
[Kupcinskas, Limas]
[Kayser, Manfred]
[Krawczak, Michael]
[Nikolaus, Susanna]
[Weersma, Rinse K.]
[Ponsioen, Cyriel Y.]
[Sans, Miquel]
[Wijmenga, Cisca]
[Strachan, David P.]
[McArdle, Wendy L.]
[Vermeire, Séverine]
[Rutgeerts, Paul]
[Sanderson, Jeremy D.]
[Mathew, Christopher G.]
[Vatn, Morten H.]
[Wang, Jun]
[Nöthen, Markus M.]
[Duerr, Richard H.]
[Büning, Carsten]
[Brand, Stephan]
[Glas, Jürgen]
[Winkelmann, Juliane]
[Illig, Thomas]
[Latiano, Anna]
[Annese, Vito]
[Halfvarson, Jonas]
[D'Amato, Mauro]
[Daly, Mark J.]
[Nothnagel, Michael]
[Karlsen, Tom H.]
[Subramani, Suresh]
[Rosenstiel, Philip]
[Schreiber, Stefan]
[Parkes, Miles]
[Franke, Andre]

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

Hall, Rabea

2007

[Kupfer, Bernd]
Sing, Tobias
Schüffler, Peter
[Hall, Rabea]
[Kurz, Ralf]
[McKeown, Astrid]
[Schneweis, Karl-Eduard]
[Eberl, Wolfgang]
[Oldenburg, Johannes]
[Brackmann, Hans H.]
[Rockstroh, Jürgen K.]
[Spengler, Ulrich]
Däumer, Martin
[Kaiser, Rolf]
Lengauer, Thomas
[Matz, Bertfried]

Fifteen years of env C2V3C3 evolution in six individuals clonally infected with human immunodeficiency virus type 1
In: Journal of Medical Virology [79], 1629-1639

Journal Article

Hamilton, Peter (ed.)

2009

Feuerbach, Lars
Halachev, Konstantin
Lengauer, Thomas
Bock, Christoph

An exhaustive methode for CpG island annotation
In: Special Issue: Abstracts of the 3rd MC-GARD Meeting, 146-146

Poster

2008

Feuerbach, Lars
Christopher, Bock
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas

Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis
In: Abstracts of the 2nd MC-GARD Meeting, 230

Electronic Proceedings Article

Hamouda, O. (ed.)

2007

European Journal of Medical Research

Journal

Hampe, Jochen

2007

A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211

Journal Article

2007

[Franke, Andre]
[Hampe, Jochen]
[Rosenstiel, Philip]
[Becker, Christoph]
[Wagner, Florian]
[Häsler, Robert]
[Little, Randall D.]
[Huse, Klaus]
[Ruether, Andreas]
[Balschun, Tobias]
[Wittig, Michael]
[ElSharawy, Abdou]
Mayr, Gabriele
Albrecht, Mario
[Prescott, Natalie J.]
[Onnie, Clive M.]
[Fournier, Hélène]
[Keith, Tim]
[Radelof, Uwe]
[Platzer, Matthias]
[Mathew, Christopher G.]
[Stoll, Monika]
[Krawczak, Michael]
[Nürnberg, Peter]
[Schreiber, Stefan]

Systematic association mapping identifies NELL1 as a novel IBD disease gene
In: PLoS ONE [2], e691.1-13

Journal Article

2005

Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787

Journal Article

2005

[Schreiber, Stefan]
[Rosenstiel, Philip]
Albrecht, Mario
[Hampe, Jochen]
[Krawczak, Michael]

Genetics of Crohn disease, an archetypal inflammatory barrier disease
In: Nature Reviews Genetics [6], 376-388

Journal Article

2005

Sarcoidosis is associated with a truncating splice site mutation in BTNL2
In: Nature Genetics [37], 357-364

Journal Article

2004

[Stoll, Monika]
[Corneliussen, Brit]
[Costello, Christine M.]
[Waetzig, Georg H.]
[Mellgard, Bjorn]
[Koch, W. Andreas]
[Rosenstiel, Philip]
Albrecht, Mario
[Croucher, Peter J.P.]
[Seegert, Dirk]
[Nikolaus, Susanna]
[Hampe, Jochen]
Lengauer, Thomas
[Pierrou, Stefan]
[Foelsch, Ulrich R.]
[Mathew, Christopher G.]
[Lagerstrom-Fermer, Maria]
[Schreiber, Stefan]

Genetic variation in DLG5 is associated with inflammatory bowel disease
In: Nature Genetics [36], 376-380

Journal Article

Hamp, Tobias

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Hancock, Robert E. W.

2011

[Aranda, Bruno]
Blankenburg, Hagen
[Kerrien, Samuel]
[Brinkman, Fiona S.]
[Ceol, Arnaud]
[Chautard, Emilie]
[Dana, Jose M.]
[De Las Rivas, Javier]
[Dumousseau, Marine]
[Galeota, Eugenia]
[Gaulton, Anna]
[Goll, Johannes]
[Hancock, Robert E. W.]
[Isserlin, Ruth]
[Jimenez, Rafael C.]
[Kerssemakers, Jules]
[Khadake, Jyoti]
[Lynn, David J.]
[Michaut, Magali]
[O'Kelly, Gavin]
[Ono, Keiichiro]
[Orchard, Sandra]
[Prieto, Carlos]
[Razick, Sabry]
[Rigina, Olga]
[Salwinski, Lukasz]
[Simonovic, Milan]
[Velankar, Sameer]
[Winter, Andrew]
[Wu, Guanming]
[Bader, Gary D.]
[Cesareni, Gianni]
[Donaldson, Ian M.]
[Eisenberg, David]
[Kleywegt, Gerard J.]
[Overington, John]
[Ricard-Blum, Sylvie]
[Tyers, Mike]
Albrecht, Mario
[Hermjakob, Henning]

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

Hanc, Yue

2011

[Svichera, Valentina]
[Centoa, Valeria]
[Salpinia, Romina]
[Mercurioa, Fabio]
[Fraune, Maria]
Beggel, Bastian
[Hanc, Yue]
[Gorid, Caterina]
[Wittkope, Linda]
[Bertolif, Ada]
[Michelig, Valeria]
[Gubertinig, Guido]
[Longoh, Roberta]
[Romanoh, Sara]
[Viscah, Michela]
[Gallinaroi, Valentina]
[Marinoj, Nicoletta]
[Mazzottaj, Francesco]
[De Sanctisi, Giuseppe Maria]
[Fleurye, Hervè]
[Trimoulete, Pascale]
[Angelicoa, Mario]
[Cappielloh, Giuseppina]
[Zhangc, Xin Xin]
[Verheyenb, Jens]
[Ceccherini-Silbersteina, Francesca]
[Pernoa, Carlo Federico]

Role of hepatitis B virus genetic barrier in drug-resistance and immune-escape development
In: Digestive and Liver Disease [43], 975–983

Journal Article

Hanisch, Daniel

2002

[Freudenberg, Jan]
[Zimmer, Ralf]
[Hanisch, Daniel]
Lengauer, Thomas

A hypergraph-based method for unification of existing protein structure- and sequence-families
In: In Silico Biology [2], 339 - 349

Journal Article

2002

[Hoffmann, Daniel]
[Schnaible, Volker]
[Wefing, Stephan,]
Albrecht, Mario
[Hanisch, Daniel]
[Zimmer, Ralf]

A new method for the fast solution of protein-3D-structures, combining experiments and bioinformatics
In: Coupling of Biological and Electronic Systems: Proceedings of the 2nd Caesarium, Bonn, 1-3 November 2000, 59-78

Proceedings Article

2002

[Hanisch, Daniel]
[Zien, Alexander]
[Zimmer, Ralf]
Lengauer, Thomas

Co-clustering of biological networks and gene expression data
In: Proceedings of the Tenth Conference on Intelligent Systems for Molecular Biology (ISMB 2002), 145-154

Proceedings Article

2002

Albrecht, Mario
[Hanisch, Daniel]
[Zimmer, Ralf]
Lengauer, Thomas

Improving fold recognition of protein threading by experimental distance constraints
In: In Silico Biology [2], 325-337

Journal Article

2002

[Hanisch, Daniel]
[Zimmer, Ralf]
Lengauer, Thomas

ProML - the Protein Markup Language for specification of protein sequences, structures and families
In: In Silico Biology [2], 313 - 324

Journal Article

Hanna, megan

2009

[Sos, Martin L.]
[Michel, Kathrin]
[Zander, Thomas]
[Weiss, Jonathan]
[Frommolt, Peter]
[Pfeifer, Martin]
[Li, Danan]
[Ullrich, Roland]
[Koker, Mirjam]
[Fischer, Florian]
[Shimamura, Takeshi]
[Rauh, Daniel]
[Mermel, Craig]
[Fischer, Stefanie]
[Stückrath, Isabel]
[Heynck, Stefanie]
[Beroukhim, Rameen]
[Lin, William]
[Winckler, Wendy]
[Shah, Kinjal]
[LaFramboise, Thomas]
[Moriarty, Whei F.]
Hanna, megan
Tolosi, Laura
[Rahnenführer, Jörg]
[Verhaak, Roel]
[Chiang, Derek]
[Getz, Gad]
[Hellmich, Martin]
[Wolf, Jürgen]
[Girard, Luc]
[Peyton, Michael]
[Weir, Barbara A.]
[Chen, Tzu-Hsiu]
[Greulich, Heidi]
[Barretina, Jordi]
[Shapiro, Geoffrey I.]
[Garraway, Levi A.]
[Gazdar, Adi F.]
[Minna, John D.]
[Meyerson, Matthew]
[Wong, Kwok-Kin]
[Thomas, Roman K.]

Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions
In: Journal of Clinical Investigation [119], 1727-1740

Journal Article

Hannemann, A.

2004

[Hannemann, A.]
[Schön, J.C.]
[Jansen, M.]
[Putz, H.]
Lengauer, Thomas

Modelling amorphous Si3B3N7: Structure and elastic properties
In: Physical Review [B 70], 144201-144201

Journal Article

Hannemann, Frank

2011

[Bleif, Sabrina]
[Hannemann, Frank]
[Lisurek, Michael]
[von Kries, Jens Peter]
[Zapp, Josef]
Dietzen, Matthias
[Antes, Iris]
[Bernhardt, Rita]

Identification of CYP106A2 as a Regioselective Allylic Bacterial Diterpene Hydroxylase
In: ChemBioChem [12], 576-582

Journal Article

Hannenhalli, Sridhar (ed.)

2002

[Zien, Alexander]
[Fluck, Juliane]
[Zimmer, Ralf]
Lengauer, Thomas

Microarrays: How Many Do You Need?
In: Proceedings of the Sixth Annual Conference on Research in Computational Molecular Biology (RECOMB2002), 321-330

Proceedings Article

Hansen, Mark H. (ed.)

2003

Rahnenführer, Jörg

Statistical Inference for Clustering Microarrays
In: Proceedings of the MSRI Workshop: Nonlinear Estimation and Classification, 323-332

Proceedings Article

Han, Yue

2011

[Svicher, Valentina]
[Cento, Valeria]
[Salpini, Romina]
[Mercurio, Fabio]
[Fraune, Maria]
Beggel, Bastian
[Han, Yue]
[Gori, Caterina]
[Wittkop, Linda]
[Bertoli, Ada]
[Micheli, Valeria]
[Gubertini, Guido]
[Longo, Roberta]
[Romano, Sara]
[Visca, Michela]
[Gallinaro, Valentina]
[Marino, Nicoletta]
[Mazzotta, Francesco]
[De Sanctis, Giuseppe Maria]
[Fleury, Hervè]
[Trimoulet, Pascale]
[Angelico, Mario]
[Cappiello, Giuseppina]
[Zhang, Xin Xin]
[Verheyen, Jens]
[Ceccherini-Silberstein, Francesca]
[Perno, Carlo Federico]

Role of hepatitis B virus genetic barrier in drug-resistance and immune-escape development
In: Digestive and Liver Disease [43], 975-983

Journal Article

Harigan, Richard

2010

[Zazzi, Maurizio]
[Kaiser, Rolf]
[Sönnerborg, Anders]
[Struck, Daniel]
Altmann, Andre
[Prosperi, Mattia C. F.]
[Rosen-Zvi, Michal]
[Petroczi, Andrea]
[Peres, Yardena]
[Schülter, Eugen]
[Boucher, Charles]
[Brun-Vezinet, Francoise]
[Harigan, Richard]
[Morris, Lynn]
[Obermeier, Martin]
[Perno, Federico]
[Shafer, Robert]
[Vandamme, Anne-Mieke]
[van Laethem, Kristel]
[Wensing, Annemarie]
Lengauer, Thomas
[Incardona, Francesca]

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE Study)
In: HIV Medicine [Early View], 1-8

Electronic Journal Article

Haring, Michel A.

2006

[Tameling, Wladimir I.]
[Vossen, Jack H.]
Albrecht, Mario
Lengauer, Thomas
[Berden, Jan A.]
[Haring, Michel A.]
[Cornelissen, Ben J.C.]
Takken, Frank L. W.

Mutations in the NB-ARC domain of I-2 that impair ATP hydrolysis cause autoactivation
In: Plant Physiology [140], 1233-1245

Journal Article

Harrigan, P Richard

2011

[Swenson, Luke C]
[Mo, Theresa]
[Dong, Winnie WY]
[Zhong, Xiaoyin]
[Woods, Conan K]
Thielen, Alexander
[Jensen, Mark A]
[Knapp, David JHF]
[Chapman, Douglass]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742

Journal Article

2011

Thielen, Alexander
Lengauer, Thomas
[Swenson, Luke C]
[Dong, Winnie W.Y.]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially
In: Antiviral Therapy [16], 319-328

Journal Article

2010

Thielen, Alexander
Lengauer, Thomas
[Harrigan, P Richard]
[Swenson, Luke]
[Dong, Winnie WY]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]

Mutations within GP41 are correlated with coreceptor tropism but do not substantially improve coreceptor usage prediction
In: Reviews in Antiviral Therapy & Infectious Diseases, 47-47

Poster

2010

[McGovern, Rachel A]
Thielen, Alexander
[Mo, Theresa]
[Dong, Winnie]
[Woods, Conan K]
[Chapman, Douglass]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies
In: AIDS [24], 2517-2525

Journal Article

2009

[Harrigan, P Richard]
[McGovern, Rachel]
[Dong, Winnie]
Thielen, Alexander
[Jensen, Mark]
[Mo, Theresa]
[Chapman, Douglas]
[Lewis, Marilyn]
[James, Ian]
[Valdez, Hernan]

Screening for HIV tropism using population-based V3 genotypic analysis: a retrospective outcome analysis using stored plasma screening samples from MOTIVATE-1
In: Abstracts presented at the XVIII International HIV Drug Resistance Workshop : Basic Principles & Clinical Implications, A17-A17

Poster

2008

[Moores, Andrew]
Thielen, Alexander
[Dong, Winnie]
Low, Andrew J.
[Woods, Conan]
[Jensen, Mark]
[Wynhoven, Brian]
[Chan, Dennison]
[Glascock, Christopher]
[Harrigan, P Richard]

Improved detection of X4 virus by V3 genotyping: application to plasma RNA and proviral DNA
In: Antiviral Therapy, A99

Poster

2008

Thielen, Alexander
[Harrigan, P Richard]
Low, Andrew J.
[Moores, A]
Altmann, Andre
Bozek, Kasia
[Heger, Eva]
[Sichtig, Nadine]
[Kaiser, Rolf]
Lengauer, Thomas

Improved genotypic prediction of HIV-1 coreceptor usage by incorporating V2 loop sequence variation
In: Antiviral Therapy, A100

Poster

Harrigan, P. Richard

2011

[Swenson, Luke C.]
[Mo, Theresa]
[Dong, Winnie W. Y.]
[Zhong, Xiaoyin]
[Woods, Conan K.]
[Jensen, Mark A.]
Thielen, Alexander
[Chapman, Douglass]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P. Richard]

Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
In: The Journal of Infectious Diseases [203], 237-245

Journal Article

2010

[Swenson, Luke C.]
[Boehme‌, Richard]
Thielen, Alexander
[McGovern‌, Rachel A.]
[Harrigan, P. Richard]

Genotypic determination of HIV-1 tropism in the clinical setting
In: HIV Therapy [4], 293-303

Journal Article

2010

[Swenson, Luke C.]
[Moores, Andrew]
[Low, Andrew J.]
Thielen, Alexander
[Dong, Winnie]
[Woods, Conan]
[Jensen, Mark A.]
[Wynhoven, Brian]
[Chan, Dennison]
[Glascock, Christopher]
[Harrigan, P. Richard]

Improved detection of CXCR4-using HIV by V3 genotyping: application of population-based and "deep" sequencing to plasma RNA and proviral DNA
In: Journal of Acquired Immune Deficiency Syndromes [54], 506-510

Journal Article

2010

Thielen, Alexander
[Sichtig, Nadine]
[Kaiser, Rolf]
[Lam, Jeffrey]
[Harrigan, P. Richard]
Lengauer, Thomas

Improved prediction of HIV-1 coreceptor usage with sequence information from the second hypervariable loop of gp120
In: Journal of Infectious Diseases [202], 1435-1443

Journal Article

2007

[Low, Andrew J.]
[Dong, Winnie]
[Chan, Dennison]
Sing, Tobias
[Swanstrom, Ronald]
[Jensen, Mark]
[Pillai, Satish]
[Good, Benjamin]
[Harrigan, P. Richard]

Current V3 genotyping algorithms are inadequate for predicting X4 co-receptor usage in clinical isolates
In: AIDS [21], F19-F26

Journal Article

2007

[Skrabal, Katharina]
[Low, Andrew J.]
[Dong, Winnie]
Sing, Tobias
[Cheung, Peter K.]
[Mammano, Fabrizio]
[Harrigan, P. Richard]

Determining human immunodeficiency virus coreceptor use in a clinical setting: Degree of correlation between two phenotypic assays and a bioinformatic model
In: Journal of Clinical Microbiology [45], 279-284

Journal Article

2007

Sing, Tobias
Low, Andrew J.
Beerenwinkel, Niko
Sander, Oliver
[Cheung, Peter K.]
Domingues, Francisco S.
Büch, Joachim
[Däumer, Martin]
[Kaiser, Rolf]
Lengauer, Thomas
[Harrigan, P. Richard]

Predicting HIV coreceptor usage on the basis of genetic and clinical covariates
In: Antiviral Therapy [12], 1097-1106

Journal Article

2007

Sander, Oliver
Sing, Tobias
Sommer, Ingolf
[Low, Andrew J.]
[Cheung, Peter K.]
[Harrigan, P. Richard]
Lengauer, Thomas
Domingues, Francisco S.

Structural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage
In: PLoS Computational Biology [3], 555-564

Journal Article

Harrigan, R.

2011

[Zazzi, M.]
[Kaiser, R.]
[Sönnerborg, A.]
[Struck, D]
Altmann, Andre
[Prosperi, M.]
[Rosen-Zvi, M.]
[Petroczi, A.]
[Peres, Y.]
[Schülter, E.]
[Boucher, C.A.]
[Brun-Vezinet, F.]
[Harrigan, R.]
[Morris, L.]
[Obermeier, M.]
[Perno, C.-F.]
[Phanuphak, P.]
[Pillay, D]
[Shafer, R.W.]
[Vandamme, A.-M.]
[Van Laethem, K.]
[Wensing, A.]
Lengauer, Thomas
[Incardona, F.]

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE study)
In: HIV Medicine [12], 211-218

Journal Article

Harrington, Eoghan D.

2009

[Frishman, Dmitrij]
Albrecht, Mario
Blankenburg, Hagen
[Bork, Peer]
[Harrington, Eoghan D.]
[Hermjakob, Henning]
[Jensen, Lars J.]
[Juan, David A.]
Lengauer, Thomas
[Pagel, Philipp]
[Schachter, Vincent]
[Valencia, Alfonso]

Protein-protein interactions: analysis and prediction
In: Modern Genome Annotation - The Biosapiens Network, 353-410

Part of a Book

Harris, R. Alan

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Harrow, J

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Harrow, Jennifer

2007

[Tress, Michael L.]
[Martelli, Pier L.]
[Frankish, Adam]
[Reeves, Gabrielle A.]
[Wesselink, Jan J.]
[Yeats, Corin]
[Ólason, Páll Í.]
Albrecht, Mario
[Hegyi, Hedi]
[Giorgetti, Alejandro]
[Raimondo, Domenico]
[Lagarde, Julien]
[Laskowski, Roman A.]
[López, Gonzalo]
[Sadowski, Michael I.]
[Watson, James D.]
[Fariselli, Piero]
[Rossi, Ivan]
[Nagy, Alinda]
[Kai, Wang]
[Størling, Zenia]
[Orsini, Massimiliano]
Assenov, Yassen
Blankenburg, Hagen
Huthmacher, Carola
Ramírez, Fidel
Schlicker, Andreas
[Denoued, France]
[Jones, Phil]
[Kerrien, Samuel]
[Orchard, Sandra]
[Antonarakis, Stylianos E.]
[Reymond, Alexandre]
[Birney, Ewan]
[Brunak, Søren]
[Casadio, Rita]
[Guigo, Roderic]
[Harrow, Jennifer]
[Hermjakob, Henning]
[Jones, David T.]
Lengauer, Thomas
[Orengo, Christine A.]
[Patthy, László]
[Thornton, Janet M.]
[Tramontano, Anna]
[Valencia, Alfonso]

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Hartl, Ulrich F.

2006

An arginine/lysine-rich motif is crucial for VCP/p97-mediated modulation of ataxin-3 fibrillogenesis
In: EMBO Journal [25], 1547-1558

Journal Article

Hartmann, Christian

2005

Rahnenführer, Jörg
Beerenwinkel, Niko
[Schulz, Wolfgang A.]
[Hartmann, Christian]
[von Deimling, Andreas]
[Wullich, Bernd]
Lengauer, Thomas

Estimating cancer survival and clinical outcome based on genetic tumor progression scores
In: Bioinformatics [21], 2438-2446

Journal Article

2005

[Wemmert, Silke]
[Ketter, Ralf]
Rahnenführer, Jörg
Beerenwinkel, Niko
[Strowitzki, Martin]
[Feiden, Wolfgang]
[Hartmann, Christian]
Lengauer, Thomas
[Stockhammer, Florian]
[Zang, Klaus D.]
[Meese, Eckart]
[Steudel, Wolf-Ingo]
[von Deimling, Andreas]
[Urbschat, Steffi]

Patients with high grade gliomas harboring delections of chromosomes 9p and 10q benefit from temozolomide treatment
In: Neoplasia [7], 883-893

Journal Article

Hartmann, Christoph

2012

[Welsch, Christoph]
[Shimakami, Tetsuro]
[Hartmann, Christoph]
[Yang, Yan]
[Domingues, Francisco S.]
Lengauer, Thomas
[Zeuzem, Stefan]
[Lemon, Stanley M.]

Peptidomimetic Escape Mechanisms Arise via Genetic Diversity in the Ligand-Binding Site of the Hepatitis C Virus NS3/4A Serine Protease
In: Gastroenterology [142], 654-663

Journal Article

2009

Hartmann, Christoph
Antes, Iris
Lengauer, Thomas

Docking and scoring with alternative side-chain conformations
In: Proteins: Structure, Function, and Bioinformatics [74], 712-726

Journal Article

2008

Hartmann, Christoph

Modeling of Flexible Side Chains for Protein-Ligand Docking
Universität des Saarlandes

Thesis - PhD thesis

2008

[Welsch, Christoph]
Domingues, Francisco S.
[Susser, Simone]
Antes, Iris
Hartmann, Christoph
Mayr, Gabriele
Schlicker, Andreas
[Sarrazin, Christoph]
Albrecht, Mario
[Zeuzem, Stefan]
Lengauer, Thomas

Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of HCV
In: Genome Biology [9], R16

Journal Article

2007

Hartmann, Christoph
Antes, Iris
Lengauer, Thomas

IRECS: A new algorithm for the selection of most probable ensembles of side-chain conformations in protein models.
In: Protein Science [16], 1294-1307

Journal Article

Hartmann, Rolf

2003

Antes, Iris
Lengauer, Thomas
Mueller, Ursula
[Ulmschneider, Sarah]
[Hartmann, Rolf]

Docking into the homology models of CYP11B1 and CYP11B2
In: Proceedings of the German Conference on Bioinformatics 2003, 13

Poster

Hartmann, Rolf W.

2008

[Lucas, Simon]
[Heim, Ralph]
[Negri, Matthias]
Antes, Iris
[Ries, Christina]
[Schewe, Katarzyna E.]
[Bisi, Alessandra]
[Gobbi, Silvia]
[Hartmann, Rolf W.]

Novel Aldosterone Synthase Inhibitors with Extended Carbocyclic Skeleton by a Combined Ligand-Based and Structure-Based Drug Design Approach
In: Journal of Medical Chemistry [51], 6138-6149

Journal Article

2006

[Voets, Marieke]
Antes, Iris
[Scherer, Christiane]
[Müller-Vieira, Ursula]
[Biemel, Klaus]
[Marchais-Oberwinkler, Sandrine]
[Hartmann, Rolf W.]

Synthesis and evaluation of heteroaryl substituted dihydronaphthalenes and indenes: potent and selective inhibitors of aldosterone synthase (CYP11B2) for the treatment of congestive heart failure and myocardial fibrosis
In: Journal of Medicinal Chemistry [49], 2222-2231

Journal Article

2005

[Ulmschneider, Sarah]
[Mueller-Vieira, Ursula]
[Mitrenga, Markus]
[Hartmann, Rolf W.]
[Oberwinkler-Marchais, S]
[Klein, Christian D.]
[Bureik, M.]
[Bernhardt, R.]
Antes, Iris
Lengauer, Thomas

Synthesis and Evaluation of Imidazolylmethylenetetrahydronaphthalenes and Imidazolylmethyleneindanes: Potent Inhibitors of Aldosterone Synthase
In: Journal of Medicinal Chemistry [48], 1796-1805

Journal Article

2005

[Ulmschneider, Sarah]
[Mueller-Vieira, Ursula]
[Klein, Christian D.]
Antes, Iris
Lengauer, Thomas
[Hartmann, Rolf W.]

Synthesis and Evaluation of Pyridylmethylene-tetrahydronaphthalenes and -indanes: Potent and Selective Inhibitors of Aldosterone Synthase (CYP11B2)
In: Journal of Medicinal Chemistry [48], 4489-4490

Journal Article

Hartmann, R. W.

2011

[Welker, M.-W.]
Welsch, Christoph
[Ochs, D.]
[Hofmann, W. P.]
[Herrmann, E.]
[Piiper, A.]
[Hartmann, R. W.]
[Zeuzem, S.]
[Sarrazin, C.]
[Kronenberger, Bernd]

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
In: Journal of Viral Hepatitis [18], 181-192

Journal Article

2005

[Voets, Marieke]
Antes, Iris
[Scherer, C]
[Mueller-Vieira, U.]
[Biemel, K.]
[Barrassin, C.]
[Marchais-Oberwinkler, S.]
[Hartmann, R. W.]

Heteroaryl-substituted naphthalenes and structurally modified derivatives: selective inhibitors of CYP11B2 for the treatment of congestive heart failure and myocardial fibrosis
In: Journal of Medicinal Chemistry [48], 6632-6642

Journal Article

Häsler, Robert

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

2010

[Franke, Andre]
[Balschun, Tobias]
[Sina, Christian]
[Ellinghaus, David]
[Häsler, Robert]
Mayr, Gabriele
Albrecht, Mario
[Wittig, Michael]
[Buchert, Eva]
[Nikolaus, Susanna]
[Gieger, Christian]
[Wichmann, H. Erich]
[Sventoraityte, Jurgita]
[Kupcinskas, Limas]
[Onnie, Clive M.]
[Gazouli, Maria]
[Anagnou, Nicholas P.]
[Strachan, David]
[McArdle, Wendy L.]
[Mathew, Christopher G.]
[Rutgeerts, Paul]
[Vermeire, Séverine]
[Vatn, Morten H.]
[Krawczak, Michael]
[Rosenstiel, Philip]
[Karlsen, Tom H.]
[Schreiber, Stefan]

Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL)
In: Nature Genetics [42], 292-294

Journal Article

2007

A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211

Journal Article

2007

Systematic association mapping identifies NELL1 as a novel IBD disease gene
In: PLoS ONE [2], e691.1-13

Journal Article

2005

Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787

Journal Article

Hattori, Hiroaki

2002

[Nishida, Yoshiharu]
[Hirano, Kenichi]
[Tsukamoto, Kosuke]
[Nagano, Makoto]
[Ikegami, Chiaki]
Roomp, Kirsten
[Ishihara, Mitsuaki]
[Sakane, Naoki]
[Zhang, Zhongyan]
[Tsujii, Ken-ichi]
[Matsuyama, Akifumi]
[Ohama, Tohru]
[Matsuura, Fumihiko]
[Ishigami, Masato]
[Sakai, Naohiko]
[Hiraoka, Hisatoyo]
[Hattori, Hiroaki]
[Wellington, Cheryl L.]
[Yoshida, Yoshihide]
[Misugi, Susumu]
[Hayden, Michael R.]
[Egashira, Toru]
[Yamashita, Shizuya]
[Matsuzawa, Yuji]

Expression and Functional Analyses of Novel Mutations ot ATP-Binding Cassette Transporter-1 in Japanese Patients with High-Density Lipoprotein Deficiency
In: Biochemical and Biophysical Research Communications [290], 713-721

Journal Article

Hattori, Masahiro

2010

Saigo, Hiroto
[Hattori, Masahiro]
[Kashima, Hisashi]
[Tsuda, Koji]

Reaction graph kernels predict EC numbers of unknown enzymatic reactions in plant secondary metabolism
In: BMC Bioinformatics [11], S31,1-S31,7

Electronic Journal Article

Hauck, K.

2013

Beggel, Bastian
[Münk, C.]
[Däumer, M.]
[Hauck, K.]
[Häussinger, D.]
Lengauer, Thomas
[Ehrhardt, A.]

Full genome ultra-deep pyrosequencing associates G-to-A-hypermutation of the hepatitis B virus genome with the natural progression of hepatitis B
In: Journal of Viral Hepatitis [12], 882-889

Journal Article

Hauschild, Anne-Christin

2014

[Smolinska, Agnieszka]
Hauschild, Anne-Christin
[Fijten, Rianne]
[Dallinga, Jan]
Baumbach, Jan
[van Schooten, Frederik]

Current breathomics – A review on data pre-processing techniques and machine learning in metabolomics breath analysis

Unpublished/Draft

2014

[Maurer, Felix]
Hauschild, Anne-Christin
[Eisinger, Kathrin]
Baumbach, Jan
[Mayor, Arno]
[Baumbach, Jörg Ingo]

MIMA - A software for analyte identification in MCC/IMS chromatograms by mapping accompanying GC/MS measurements
In: International Journal for Ion Mobility Spectrometry [?], ?

Journal Article

2014

[Eckel, Sandrah]
Baumbach, Jan
Hauschild, Anne-Christin

On the importance of statistics in breath analysis - Hope or curse?

Unpublished/Draft

2013

[Schneider, Till]
Hauschild, Anne-Christin
[Baumbach, Joerg Ingo]
Baumbach, Jan

An Integrative Clinical Database and Diagnostics Platform for Biomarker Identification and Analysis in Ion Mobility Spectra of Human Exhaled Air
In: Journal of Integrative Bioinformatics [10],

Electronic Journal Article

2013

Hauschild, Anne-Christin
[Baumbach, Joerg Ingo]
Baumbach, Jan

Paving the Way for Automated Clinical Breath Analysis and Biomarker Detection

Miscellaneous

2013

Hauschild, Anne-Christin
[Kopczynski, Dominik]
[D'Addario, Marianna]
[Baumbach, Joerg Ingo]
[Rahmann, Sven]
Baumbach, Jan

Peak Detection Method Evaluation for Ion Mobility Spectrometry by using Machine Learning Approaches
In: Metabolites [3], 277-293

Electronic Journal Article

2012

Hauschild, Anne-Christin
[Schneider, Till]
Pauling, Josch
[Rupp, Kathrin]
[Jang, Mi]
[Baumbach, Jörg Ingo]
Baumbach, Jan

Computational Methods for Metabolomic Data Analysis of Ion Mobility Spectrometry Data - Reviewing the State of the Art
In: Metabolites [2], 733-755

Electronic Journal Article

2012

Hauschild, Anne-Christin
[Baumbach, Jörg Ingo]
Baumbach, Jan

Integrated statistical learning of metabolic ion mobility spectrometry profiles for pulmonary disease identification
In: Genetics and Molecular Research [11], 2733-2744

Electronic Journal Article

2011

Hauschild, Anne-Christin

Modeling HIV Neutralization
Universität des Saarlandes

Thesis - Masters thesis

Häussinger, Dieter

2012

[Reuter, Stefan]
[Oette, Mark]
[Kaiser, Rolf]
Lengauer, Thomas
[Fätkenheuer, Gerd]
[Rockstroh, Jürgen]
[Knechten, Heribert]
[Häussinger, Dieter]

Risk factors associated with older age in treatment-naive HIV-positive patients
In: Intervirology [55], 147-153

Journal Article

Häussinger, Dieter (ed.)

2004

Beerenwinkel, Niko

Das Arevir-Projekt : neue Wege zur Optimierung von Anti-HIV-Therapien
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 94-98

Part of a Book

2004

Beerenwinkel, Niko

Methoden zur Interpretation genotypischer Resistenztests
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 66-68

Part of a Book

Häussinger, D.

2013

Beggel, Bastian
[Münk, C.]
[Däumer, M.]
[Hauck, K.]
[Häussinger, D.]
Lengauer, Thomas
[Ehrhardt, A.]

Full genome ultra-deep pyrosequencing associates G-to-A-hypermutation of the hepatitis B virus genome with the natural progression of hepatitis B
In: Journal of Viral Hepatitis [12], 882-889

Journal Article

Häussinger, D. (ed.)

2007

European Journal of Medical Research

Journal

Haussler, David

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Hawkins, R. David

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Hayden, Michael R.

2002

[Zwarts, K.Y.]
[Clee, Susanne M.]
[Zwinderman, A.H.]
[Engert, J.C.]
[Singaraja, Roshni]
[Loubser, O]
[James, E]
Roomp, Kirsten
[Hudson, T.J.]
[Jukema, J.W.]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
In: Clinical Genetics [61], 115-125

Journal Article

2002

Journal Article

2002

[Wellington, Cheryl L.]
[Yang, Yu-Zhou]
[Zhou, Stephen]
[Clee, Susanne M.]
[Tan, Bing]
[Hirano, Kenichi]
[Zwarts, K.Y.]
[Kwok, Anita]
[Gelfer, Allison]
[Marcil, Michel]
[Newman, Scott]
Roomp, Kirsten
[Singaraja, Roshni]
[Collins, Jennifer A.]
[Zhang, Lin-Hua]
[Groen, Albert K.]
[Hovingh, Kees]
[Brownlie, Alison]
[Tafuri, Sherrie]
[Genest, Jacques Jr]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

Truncation mutations in ABCA1 suppress normal upregulation of full-length ABCA1 by 9-cis-retinoic acid and 22-R-hydroxycholesterol
In: Journal of Lipid Research [43], 1939-1949

Journal Article

2001

[Clee, Susanne M.]
[Zwinderman, A.H.]
[Engert, J.C.]
[Zwarts, K.Y.]
[Molhuizen, H.O.]
Roomp, Kirsten
[Jukema, J.W.]
[van Wijland, M]
[van Dam, M]
[Hudson, T.J.]
[Brooks-Wilson, A]
[Genest, Jacques Jr]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

Common genetic variation in ABCA1 is associated with altered lipoprotein levels and a modified risk for coronary artery disease
In: Circulation [103], 1198-205

Journal Article

2000

[Clee, Susanne M.]
[Kastelein, J.J.P.]
[van Dam, M]
[Marcil, Michel]
Roomp, Kirsten
[Zwarts, K.Y.]
[Collins, Jennifer A.]
[Roelants, R]
[Tamasawa, N]
[Stulc, T]
[Suda, T]
[Ceska, R]
[Boucher, B]
[Rondeau, C]
[DeSouich, C]
[Brooks-Wilson, A]
[Molhuizen, H.O.]
[Frohlich, J]
[Genest, Jacques Jr]
[Hayden, Michael R.]

Age and residual cholesterol efflux affect HDL cholesterol levels and coronary artery disease in ABCA1 heterozygotes
In: Journal of Clinical Investigation [106], 1263-70

Journal Article

1999

[Brooks-Wilson, A]
[Marcil, Michel]
[Clee, Susanne M.]
[Zhang, Lin-Hua]
Roomp, Kirsten
[van Dam, M]
[Yu, L]
[Brewer, C]
[Collins, Jennifer A.]
[Molhuizen, H.O.]
[Loubser, O]
[Ouelette, B.F.]
[Fichter, K]
[Ashbourne-Excoffon, K.J.]
[Sensen, C.W.]
[Scherer, S]
[Mott, S]
[Denis, M]
[Martindale, D]
[Frohlich, J]
[Morgan, K]
[Koop, B]
[Pimstone, S]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

Mutations in ABC1 in Tangier disease and familial high-density lipoprotein
In: Nature Genetics [22], 336-45

Journal Article

1999

[Marcil, Michel]
[Brooks-Wilson, A.]
[Clee, Susanne M.]
Roomp, Kirsten
[Zhang, Lin-Hua]
[Yu, L.]
[Collins, Jennifer A.]
[van Dam, M.]
[Molhuizen, H. O.]
[Loubser, O.]
[Ouelette, B. F.]
[Sensen, C. W.]
[Fichter, K.]
[Mott, S.]
[Denis, M.]
[Boucher, B.]
[Pimstone, S.]
[Genest, Jacques]
[Kastelein, J. J. P.]
[Hayden, Michael R.]

Mutations in the ABC1 gene in familial HDL deficiency with defective cholesterol efflux
In: The Lancet [354], 1341-6

Journal Article

Hecht, Maximilian

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Heckmann-Pohl, Dorothee M.

2006

[Heckmann-Pohl, Dorothee M.]
[Bastian, Sabine]
[Altmeier, S.]
Antes, Iris

Improvement of the fungal enzyme pyranose 2-oxidase using protein engineering
In: Journal of Biotechnology [124], 26-40

Journal Article

Heera, Jayvant

2011

Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
In: The Journal of Infectious Diseases [203], 237-245

Journal Article

2011

Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742

Journal Article

2011

Thielen, Alexander
Lengauer, Thomas
[Swenson, Luke C]
[Dong, Winnie W.Y.]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially
In: Antiviral Therapy [16], 319-328

Journal Article

2010

Thielen, Alexander
Lengauer, Thomas
[Harrigan, P Richard]
[Swenson, Luke]
[Dong, Winnie WY]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]

Mutations within GP41 are correlated with coreceptor tropism but do not substantially improve coreceptor usage prediction
In: Reviews in Antiviral Therapy & Infectious Diseases, 47-47

Poster

2010

[McGovern, Rachel A]
Thielen, Alexander
[Mo, Theresa]
[Dong, Winnie]
[Woods, Conan K]
[Chapman, Douglass]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies
In: AIDS [24], 2517-2525

Journal Article

Heger, Eva

2012

[Heger, Eva]
[Thielen, Alexander]
[Gilles, Ramona]
[Obermeier, Martin]
Lengauer, Thomas
[Kaiser, Rolf]
[Trapp, Susanna]

APOBEC3G/F a one possible driving source for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16

Journal Article

2011

[Heger, Eva]
Thielen, Alexander
[Gilles, Ramona]
[Obermeier, Martin]
Lengauer, Thomas
[Kaiser, Rolf]
[Trapp, Susanna]

APOBEC3G/F as one possible driving force for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16

Journal Article

2011

[Sierra, Saleta]
[Kaiser, Rolf]
[Lübke, Nadine]
Thielen, Alexander
[Schuelter, Eugen]
[Heger, Eva]
[Däumer, Martin]
[Reuter, Stefan]
[Esser, Stefan]
[Fätkenheuer, Gerd]
[Pfister, Herbert]
[Oette, Mark]
Lengauer, Thomas

Prediction of HIV-1 coreceptor usage (tropism) by sequence analysis using a genotypic approach
In: Journal of Visualized Experiments [58], e3264,1-e3264,9

Electronic Journal Article

2008

Thielen, Alexander
[Harrigan, P Richard]
Low, Andrew J.
[Moores, A]
Altmann, Andre
Bozek, Kasia
[Heger, Eva]
[Sichtig, Nadine]
[Kaiser, Rolf]
Lengauer, Thomas

Improved genotypic prediction of HIV-1 coreceptor usage by incorporating V2 loop sequence variation
In: Antiviral Therapy, A100

Poster

Hegyi, Hedi

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Heidari, Shirin (ed.)

2012

[Schuelter, Eugen]
[Lübcke, Nadine]
[Jensen, Björn]
[Zazzi, Maurizio]
[Sönnerborg, Anders]
Lengauer, Thomas
[Incardona, Francesca]
[Camacho, Richardo]
[Schmit, J]
[Clotet, Bonaventura]
[Kaiser, Rolf]
Pironti, Alejandro

Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156

Poster

2012

HIV2EU: supporting standardized HIV-2 drug resistance interpretation in Europe
In: Journal of the International AIDS Society, 135

Poster

2012

[Sierra, Saleta]
[Dzbowski, Jan Nikolaj]
Pironti, Alejandro
[Gueney, L]
Thielen, Alexander
[Reuter, Stefan]
[Esser, Stefan]
[Fätkenheuer, Gerd]
Lengauer, Thomas
[Hider, Dominik]
[Hoffmann, Daniel]
[Pfister, Holger]
[Jensen, Björn]
[Kaiser, Rolf]

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

Heidtke, K.

2004

[Crass, T.]
Antes, Iris
[Basekow, R.]
[Bork, P.]
Buning, Christian
[Christensen, M.]
[Claußen, H.]
[Ebeling, C.]
[Ernst,P.]
[Gailus-Durner, V.]
[Glatting, K.-H.]
[Gohla, R.]
[Gößling, F.]
[Grote, K.]
[Heidtke, K.]
[Herrmann, A.]
[O Keefe, S.]
[Kießlich, O.]
[Kolibal, S.]
[Korbel, J.O.]
Lengauer, Thomas
[Liebich, I.]
[van der Linden, M.]
[Luz, H.]
[Meissner, K.]
[von Mering, C.]
[Mevissen, T.]
[Mewes, H.-W.]
[Michael, H.]
[Mokrejs, M.]
[Müller, T.]
[Pospisil, H.]
[Rarey, Matthias]
[Reich, J.G.]
[Schneider, R.]
[Schomburg, D.]
[Schulze-Kremer, S.]
[Schwarzer, K.]
Sommer, Ingolf
[Springstubbe, S.]
[Suhai, S.]
[Thoppae, G.]
[Vingron, M.]
[Warfsmann, J.]
[Werner, T.]
[Wetzler, D.]
[Wingender, E.]
[Zimmer, Ralf]

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
In: Bioinformatics [20], 268-270

Journal Article

Heil, Burkhard

2006

[Heil, Burkhard]
[Ludwig, Jost]
[Lichtenberg-Fraté, Hella]
Lengauer, Thomas

Computational recognition of potassium channel sequences
In: Bioinformatics [13], 1562-1568

Journal Article

Heim, Ralph

2008

[Lucas, Simon]
[Heim, Ralph]
[Negri, Matthias]
Antes, Iris
[Ries, Christina]
[Schewe, Katarzyna E.]
[Bisi, Alessandra]
[Gobbi, Silvia]
[Hartmann, Rolf W.]

Novel Aldosterone Synthase Inhibitors with Extended Carbocyclic Skeleton by a Combined Ligand-Based and Structure-Based Drug Design Approach
In: Journal of Medical Chemistry [51], 6138-6149

Journal Article

Heine, Markus

2009

Bozek, Kasia
[Relógio, Angela]
[Kielbasa, Szymon M.]
[Heine, Markus]
[Dame, Christof]
[Kramer, Achim]
[Herzel, Hanspeter]

Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12

Electronic Journal Article

Heinzle, Elmar

2006

Talwar, Priti
Lengauer, Thomas
[Wittmann, Christoph]
[Velagapudi, V. R.]
[Heinzle, Elmar]

Development of Computational Methods for Analysis of Metabolic Profiling Data
In: Proceedings of International Conference on Systems Biology (ICSB 2006), Japan, 42-42

Proceedings Article

2006

[Velagapudi, Vidya R.]
[Wittmann, Christoph]
Lengauer, Thomas
Talwar, Priti
[Heinzle, Elmar]

Metabolic high- content screening of Saccharomyces cerevisiae reveals superior performance of single gene deletion strains
In: Process Biochemistry [41], 2170-2179

Journal Article

2005

Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
[Wittmann, Christoph]
[Velagapudi, VR]
[Heinzle, Elmar]

Computational Methods for Protein Function Prediction using Metabolomics Data
In: Proceedings of International Workshop on Systems Biology 2005, 1

Poster

2005

Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
[Heinzle, Elmar]
[Velagapudi, VR]
[Wittmann, Christoph]

Towards computational analysis of metabolic profiling data for protein function prediction.
In: Proceedings of the Yeast Systems Biology, 6th International Conference on Systems Biology (ICSB 2005), 1

Poster

2004

Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
[Velagapudi, VR]
[Wittmann, Christoph]
[Heinzle, Elmar]

Computational Methods For Metabolite Screening
In: Proceedings of the 12th International Conference on Intelligent Systems for Molecular Biology + 3rd European Conference on Computational Biology (ISMB/ECCB 2004), 1

Poster

2004

Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
[Velagapudi, VR]
[Wittmann, Christoph]
[Heinzle, Elmar]

Computational Methods For Metabolite Screening
In: Proceedings of the 5th International Conference on Systems Biology (ICSB 2004), 1

Poster

2003

Talwar, Priti
[Wittmann, Christoph]
Lengauer, Thomas
[Heinzle, Elmar]

Software tool for automated processing of 13C labeling data from mass spectrometry data
In: BioTechniques [35], 1214-1215

Journal Article

2003

Talwar, Priti
Lengauer, Thomas
[Wittmann, Christoph]
[Mangadu, Vidya]
[Heinzle, Elmar]

Towards cellular function through metabolite screening
In: Proceedings of the 3rd Annual Conference on Metabolic Profiling: Pathways in Discovery, 7

Proceedings Article

Heinzl, Armin (ed.)

2006

Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas

Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99

Part of a Book

Hein, Jotun

2011

Feuerbach, Lars
[Lyngso, Rune B.]
Lengauer, Thomas
[Hein, Jotun]

Reconstructing the ancestral germline methylation state of young repeats
In: Molecular Biology and Evolution [28], 1777-1784

Journal Article

2010

Feuerbach, Lars
Lyngsoe, Rune
Lengauer, Thomas
[Hein, Jotun]

Comparative Epigenomiocs - Towards Ancestral Germline Methylome Reconstruction
In: Abstracts of papers presented at the 2010 meeting on The Biology of genomes, 87

Poster

Helin, Kristian

2012

BLUEPRINT to decode the epigenetic signature written in blood
In: Nature Biotechnology [30], 224-226

Journal Article

Hellmich, Martin

2009

Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions
In: Journal of Clinical Investigation [119], 1727-1740

Journal Article

Helms, Volkhard

2005

[Gu, Wei]
[Kofler, Michael]
Antes, Iris
[Freund, Christian]
[Helms, Volkhard]

Alternative Binding Modes of Polyproline Peptides Binding to the GYF Domain
In: Biochemistry [44], 6404-6415

Journal Article

Hemmingsen, Lars

2003

[Olsen, Lars]
[Antony, Jens]
[Ryde, Ulf]
Adolph, Hans-Werner
[Hemmingsen, Lars]

Lactam hydrolysis catalyzed by mononuclear metallo-beta-lactamases: a density functional study
In: Journal of Physical Chemistry / B [107], 2366-2375

Journal Article

Henn, Wolfram

2007

[Ketter, Ralf]
[Urbschat, Steffi]
[Henn, Wolfram]
[Feiden, Wolfgang]
Beerenwinkel, Niko
Lengauer, Thomas
[Steudel, Wolf-Ingo]
[Zang, Klaus D.]
Rahnenführer, Jörg

Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas
In: International Journal of Cancer [121], 1473-1480

Journal Article

2007

[Ketter, Ralf]
[Kim, Yoo-Jin]
[Storck, Simone]
Rahnenführer, Jörg
[Romeike, Bernd F.M.]
[Steudel, Wolf-Ingo]
[Zang, Klaus D.]
[Henn, Wolfram]

Hyperdiploidy defines a distinct cytogenetic entity of meningiomas
In: Journal of Neuro-Oncology [83], 213-221

Journal Article

Hermjakob, Henning

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

2009

Protein-protein interactions: analysis and prediction
In: Modern Genome Annotation - The Biosapiens Network, 353-410

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2008

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Albrecht, Mario
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Blankenburg, Hagen
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[Finn, Robert D.]
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Integrating biological data - the Distributed Annotation System
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2007

The implications of alternative splicing in the ENCODE protein complement
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Herms, Stefan

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Hernández-Orallo, José (ed.)

2004

Sing, Tobias
Beerenwinkel, Niko
Lengauer, Thomas

Learning mixtures of localized rules by maximizing the area under the ROC curve
In: ROCAI-2004: 1st International Workshop on ROC Analysis in Artificial Intelligence, 89-96

Proceedings Article

Heron, Mark

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Hero, B.

2013

Tolosi, Laura
[Theißen, J.]
Halachev, Konstantin
[Hero, B.]
[Berthold, F.]
Lengauer, Thomas

A method for finding consensus breakpoints in the cancer genome from copy number data
In: Bioinformatics [29], 1793-1800

Journal Article

Herrmann, A.

2004

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
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Herrmann, Eva

2011

[Hofmann, Wolf Peter]
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[Susser, Simone]
[Karey, Ursel]
[Mihm, Ulrike]
Welsch, Christoph
[Lötsch, Jörn]
[Sarrazin, Christoph]
[Zeuzem, Stefan]
[Herrmann, Eva]

Impact of ribavirin on HCV replicon RNA decline during treatment with interferon-α and the protease inhibitors boceprevir or telaprevir
In: Antiviral Therapy [16], 695-704

Journal Article

2009

[Susser, Simone]
Welsch, Christoph
[Wang, Yalan]
[Zettler, Markus]
Domingues, Francisco S.
[Karey, Ursula]
[Hughes, Eric]
[Ralston, Robert]
[Tong, Xiao]
[Herrmann, Eva]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Characterization of resistance to the protease inhibitor boceprevir in hepatitis C virus-infected patients.
In: Hepatology [50], 1709-1718

Journal Article

2009

[Mihm, Ulrike]
[Ackermann, Oliver]
Welsch, Christoph
[Herrmann, Eva]
[Hofmann, Wolf Peter]
[Grigorian, Natalia]
[Welker, Martin Walter]
Lengauer, Thomas
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Clinical relevance of the 2'-5'-oligoadenylate synthetase/RNase L system for treatment response in chronic hepatitis C
In: Journal of Hepatology [50], 49-58

Journal Article

2007

[Welker, Martin W.]
[Hofmann, Wolf-Peter]
[Welsch, Christoph]
[von Wagner, Michael]
[Herrmann, Eva]
[Lengauer, Thomas]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Correlation nonstructural (NS)4B amino acid variations with initial viral kinetics during interferon-alpha-based therapy in HCV-1b-infected patients
In: Journal of Viral Hepatitis [14], 338-349

Journal Article

2006

[Mihm, Ulrike]
[Grigorian, Natalia]
[Welsch, Christoph]
[Herrmann, Eva]
[Kronenberger, Bernd]
[Teuber, Gerlinde]
[von Wagner, Michael]
[Hofmann, Wolf-Peter]
Albrecht, Mario
Lengauer, Thomas
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Amino acid variations in hepatitis C virus p7 and sensitivity to antiviral combination therapy with amantadine in chronic hepatitis C
In: Antiviral Therapy [11], 507-519

Journal Article

2005

[Sarrazin, Christoph]
[Mihm, Ulrike]
[Herrmann, Eva]
[Welsch, Christoph]
Albrecht, Mario
[Sarrazin, Ulrike]
[Traver, Stella]
Lengauer, Thomas
[Zeuzem, Stefan]

Clinical significance of in vitro replication-enhancing mutations of the hepatitis C virus (HCV) replicon in patients with chronic HCV infection
In: The Journal of Infectious Diseases [192], 1710-1719

Journal Article

Herrmann, E.

2013

[Dietz, J.]
Schelhorn, Sven-Eric
[Fitting, D.]
[Mihm, U.]
[Susser, S.]
[Welker, M.-W.]
[Füller, C.]
[Däumer, M.]
[Teuber, G.]
[Wedemeyer, H.]
[Berg, T.]
Lengauer, Thomas
[Z., Stefan]
[Herrmann, E.]
[Sarrazin, C.]

Deep sequencing reveals mutagenic effects of ribavirin during monotherapy of HCV genotype 1-infected patients
In: Journal of Virology [87], 6172-6181

Journal Article

2011

[Welker, M.-W.]
Welsch, Christoph
[Ochs, D.]
[Hofmann, W. P.]
[Herrmann, E.]
[Piiper, A.]
[Hartmann, R. W.]
[Zeuzem, S.]
[Sarrazin, C.]
[Kronenberger, Bernd]

Journal Article

2010

[Mihm, Ulrike]
[Hofmann, W.P.]
Welsch, Christoph
[Polta, A.]
Lengauer, Thomas
[Zeuzem, Stefan]
[Sarrazin, Christoph]
[Herrmann, E.]

Effect of ribavirin on the frequency of RNAse L cleavage sites within the hepatitis C viral genome
In: Journal of Viral Hepatitis [17], 217-221

Journal Article

2007

[Hofmann, Wolf Peter]
[Fernandez, B.]
[Herrmann, E.]
Welsch, Christoph
[Mihm, Ulrike]
[Kronenberg, B.]
[Feldmann, G.]
[Spengler, U.]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Somatic hypermutation and mRNA expression levels of the BCL-6 gene in patients with hepatitis C virus-associated lymphoproliferative diseases
In: Journal of Viral Hepatitis [14], 484-491

Journal Article

2007

Welsch, Christoph
Albrecht, Mario
Maydt, Jochen
[Herrmann, E.]
[Welker, M.W.]
[Sarrazin, C.]
[Scheidig, A.]
Lengauer, Thomas
Zeuzem, S.

Structural and functional comparison of the non-structural protein 4B of flaviviridae
In: Journal of Molecular Graphics and Modeling [26], 546-557

Journal Article

2005

Lengauer, Thomas
Albrecht, Mario
[Sarrazin, C.]
[Mihm, U.]
[Herrmann, E.]
Welsch, Christoph
[Sarrazin, U.]
[Traver, S.]
[Zeuzem, S.]

Clinical significance of in vitro replication-enhancing mutations of the hepatitis C virus (HCV) replicon in patients with chronic HCV infection.
In: Journal of Infectious Diseases [192], 1710-1719

Journal Article

2004

[Hofmann, W.P.]
[Herrmann, E.]
[Kronenberger, B.]
Merkwirth, Christian
Welsch, Christoph
Lengauer, Thomas
[Zeuzem, S.]
[Sarrazin, C.]

Association of HCV-related mixed cryoglobulinemia with specific mutational patterns of the HCV E2 protein and CD81 expression on peripheral B lymphocytes
In: Blood [104], 1228-1229

Journal Article

Herzel, Hanspeter

2009

Bozek, Kasia
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[Kielbasa, Szymon M.]
[Heine, Markus]
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[Herzel, Hanspeter]

Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12

Electronic Journal Article

Herzel, H.

2010

Bozek, Katarzyna
[Rosahl, A. L.]
[Gaub, S.]
[Lorenzen, S.]
[Herzel, H.]

Circadian transcription in liver
In: Biosystems [102], 61-69

Journal Article

Hesser, Jürgen

2006

Bock, Christoph
[Hesser, Jürgen]

Analysis and Prediction of Helix Shift Errors in Homology Modeling
In: In Silico Biology [6], 131-145

Journal Article

Hessler, G.

2005

[Hessler, G.]
[Zimmermann, M.]
[Matter, H.]
[Evers, A.]
[Naumann, T.]
Lengauer, Thomas
[Rarey, M.]

Multiple-Ligand-Based Virtual Screening: Methods and Applications of the MTree Approach
In: Journal of Medicinal Chemistry [48], 6575-6584

Journal Article

Heynck, Stefanie

2009

Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions
In: Journal of Clinical Investigation [119], 1727-1740

Journal Article

Heyn, Holger

2013

[Sandoval, Juan]
[Mendez-Gonzales, Jesus]
[Nadal, Ernest]
[Chen, Guoan]
[Carmona, F. Javier]
[Sayols, Sergi]
[Moran, Sebastian]
[Heyn, Holger]
[Vizoso, Miguel]
[Gomez, Antonio]
[Sanchez-Cespedes, Montse]
Assenov, Yassen
Müller, Fabian
Bock, Christoph
[Taron, Miquel]
[Mora, Josefina]
[Muscarella, Lucia A.]
[Liloglou, Triantafillos]
[Davies, Michael]
[Pollan, Marina]
[Pajares, Maria J.]
[Torre, Wenceslao]
[Montuenga, Luis M.]
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[Field, John K.]
[Roz, Luca]
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[Scagliotti, Giorgio V.]
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[Beer, David G.]
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A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
In: Journal of Clinical Oncology [31], 4140-4147

Journal Article

Hicks, Andrew A.

2013

[Zanon, Alessandra]
[Rakovic, Aleksandar]
[Blankenburg, Hagen]
Doncheva, Nadezhda T.
[Schwienbacher, Christine]
[Serafin, Alice]
Alexa, Adrian
[Weichenberger, Christian X.]
Albrecht, Mario
[Klein, Christine]
[Hicks, Andrew A.]
[Pramstaller, Peter P.]
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Profiling of parkin-binding partners using tandem affinity purification
In: PLoS ONE [8], 1-17

Journal Article

Hidalgo, Manuel

2012

[Fernandez, Agustin F.]
Assenov, Yassen
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[Yamamoto, Hiroyuki]
[Hidalgo, Manuel]
[Tan, Aik-Choon]
[Galm, Oliver]
[Ferrer, Isidre]
[Sanchez-Cespedes, Montse]
[Villanueva, Alberto]
[Carmona, Javier]
[Sanchez-Mut, Jose V.]
[Berdasco, Maria]
[Moreno, Victor]
[Capella, Gabriel]
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[Fraga, Mario F.]
[Gran˜a, Osvaldo]
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Lengauer, Thomas
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Bock, Christoph
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A DNA methylation fingerprint of 1628 human samples
In: Genome Research [22], 407-419

Journal Article

Hider, Dominik

2012

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

Hide, W. (ed.)

2004

Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computional Biology 2004 (ISMB/ECCB 2004)

Proceedings

Hiet, Marie-Sophie

2011

[Reiss, Simon]
[Rebhan, Ilka]
[Backes, Perdita]
[Romero-Brey, Ines]
[Erfle, Holger]
[Matula, Petr]
[Kaderali, Lars]
[Poenisch, Marion]
Blankenburg, Hagen
[Hiet, Marie-Sophie]
[Longerich, Thomas]
Diehl, Sarah
Ramírez, Fidel
[Balla, Tamas]
[Rohr, Karl]
[Kaul, Artur]
[Bühler, Sandra]
[Pepperkok, Rainer]
Lengauer, Thomas
Albrecht, Mario
[Eils, Roland]
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[Lohmann, Volker]
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Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment
In: Cell Host & Microbe [9], 32-45

Journal Article

Higgins, D. (ed.)

2004

Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computional Biology 2004 (ISMB/ECCB 2004)

Proceedings

Hildebrandt, Andreas

2012

Dietzen, Matthias
Zotenko, Elena
[Hildebrandt, Andreas]
Lengauer, Thomas

On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking
In: Journal of Chemical Information and Modeling [52], 844-856

Journal Article

Hindle, Sally A.

2002

[Hindle, Sally A.]
[Rarey, Matthias]
[Buning, Christian]
Lengauer, Thomas

Flexible docking under pharmacophore type constraints
In: Journal of Computer-Aided Molecular Design [16], 129-149

Journal Article

Hinman, Veronica F

2013

[Le, Hai-Son]
Schulz, Marcel Holger
[McCauley, Brenna MM]
[Hinman, Veronica F]
[Bar-Joseph, Ziv]

Probabilistic error correction for RNA sequencing
In: Nucleic Acids Researcb [41], e109

Journal Article

Hirano, Kenichi

2002

Journal Article

2002

Truncation mutations in ABCA1 suppress normal upregulation of full-length ABCA1 by 9-cis-retinoic acid and 22-R-hydroxycholesterol
In: Journal of Lipid Research [43], 1939-1949

Journal Article

Hiraoka, Hisatoyo

2002

Journal Article

Hirata, Raphael

2012

[Soares, Siomar C.]
[Abreu, Vinícius A. C.]
[Ramos, Rommel T. J.]
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Baumbach, Jan
[Trost, Eva]
[Tauch, Andreas]
[Hirata, Raphael]
[Mattos-Guaraldi, Ana L.]
[Miyoshi, Anderson]
[Azevedo, Vasco]

PIPS: Pathogenicity Island Prediction Software
In: PLoS One [7], e30848,1-e30848,10

Electronic Journal Article

Hirschfield, Gideon M.

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Hirst, Martin

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Hobler, Anna

2006

Hobler, Anna

Docking of monosaccharids into the wild type and mutants of pyranose 2-oxidase
Universität des Saarlandes

Thesis - Bachelor thesis

Hoffmann, Daniel

2012

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

2006

Roomp, Kirsten
Beerenwinkel, Niko
Sing, Tobias
[Schülter, Eugen]
Büch, Joachim
[Sierra-Aragon, Saleta]
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
Lengauer, Thomas
[Selbig, Joachim]

Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV
In: Lecture Notes in Computer Science [4075], 185-194

Journal Article

2006

[Verheyen, Jens]
[Litau, Elena]
Sing, Tobias
[Däumer, Martin]
[Balduin, Melanie]
[Oette, Mark]
[Fätkenheuer, Gerd]
[Rockstroh, Jürgen K.]
[Schuldenzucker, Ulrike]
[Hoffmann, Daniel]
[Pfister, Herbert]
[Kaiser, Rolf]

Compensatory mutations at the HIV cleavage sites p7/p1 and p1/p6-gag in therapy-naive and therapy-experienced patients
In: Antiviral Therapy [11], 879-887

Journal Article

2005

Sing, Tobias
[Svicher, Valentina]
Beerenwinkel, Niko
[Ceccherini-Silberstein, Francesca]
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Oette, Mark]
[Rockstroh, Jürgen K.]
Fätkenheuer, Gerd
[Perno, Carlo-Federico]
Lengauer, Thomas

Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
In: Knowledge Discovery in Databases: PKDD 2005., 285-296

Proceedings Article

2005

[Beerenwinkel, Niko]
Sing, Tobias
Lengauer, Thomas
Rahnenführer, Jörg
Roomp, Kirsten
Savenkov, Igor
[Fischer, Roman]
[Hoffmann, Daniel]
[Selbig, Joachim]
[Korn, Klaus]
[Walter, Hauke]
[Berg, Thomas]
[Braun, Patrick]
[Fätkenheuer, Gerd]
[Oette, Mark]
[Rockstroh, Jürgen]
[Kupfer, Bernd]
[Kaiser, Rolf]
[Däumer, Martin]

Computational methods for the design of effective therapies against drug resistant HIV strains
In: Bioinformatics [21], 3943-3950

Journal Article

2005

Beerenwinkel, Niko
[Däumer, Martin]
Sing, Tobias
Rahnenführer, Jörg
Lengauer, Thomas
[Selbig, Joachim]
[Hoffmann, Daniel]
[Kaiser, Rolf]

Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
In: The Journal of Infectious Diseases [191], 1953-1960

Journal Article

2005

[Balduin, Melanie]
Beerenwinkel, Niko
[Sierra, Saleta]
[Däumer, Martin]
[Rockstroh, Jürgen]
[Oette, Mark]
[Fätkenheuer, Gerd]
[Kupfer, Bernd]
[Hoffmann, Daniel]
[Selbig, Joachim]
[Pfister, Herbert]
[Kaiser, Rolf]

Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy
In: J Clin Virol [34], 277-287

Journal Article

2005

Sing, Tobias
Beerenwinkel, Niko
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Däumer, Martin]
Lengauer, Thomas

Geno2pheno[coreceptor]: a tool for predicting coreceptor usage from genotype and for monitoring coreceptor-associated sequence alterations
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -

Poster

2005

Beerenwinkel, Niko
Rahnenführer, Jörg
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Selbig, Joachim]
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: Journal of Computational Biology [12], 584-598

Journal Article

2005

Beerenwinkel, Niko
Rahnenführer, Jörg
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Mtreemix: a software package for learning and using mixture models of mutagenetic trees
In: Bioinformatics [21], 2106-2107

Journal Article

2004

Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, 36-44

Proceedings Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Selbig, Joachim]
Lengauer, Thomas

Bioinformatikmethoden für die Optimierung antiviraler Kombinationstherapien
In: MPG Jahrbuch, 481-486

Part of a Book

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Estimating effective drug combinations against drug-resistant mutants from genotypes
In: Proceedings of the 1st European HIV Drug Resistamce Workshop, 18-18

Proceedings Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Oette, Mark]
[Korn, Klaus]
[Hoffmann, Daniel]
[Kaiser, Rolf]
Lengauer, Thomas
[Selbig, Joachim]
[Walter, Hauke]

Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes
In: Nucleic Acids Research [31], 3850-3855

Journal Article

2003

Beerenwinkel, Niko
Lengauer, Thomas
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]

Methods for optimizing antiviral combination therapies
In: Bioinformatics [19], i16-i25

Journal Article

2003

Albrecht, Mario
[Hoffmann, Daniel]
[Evert, Bernd O.]
[Schmitt, Ina]
[Wüllner, Ullrich]
Lengauer, Thomas

Structural modeling of ataxin-3 reveals distant homology to adaptins
In: Proteins: Structure, Function, and Genetics [50], 355-370

Journal Article

2003

[Wolf, Katharina]
[Walter, Hauke]
Beerenwinkel, Niko
[Keulen, Wilco]
[Kaiser, Rolf]
[Hoffmann, Daniel]
Lengauer, Thomas
[Selbig, Joachim]
[Vandamme, Anne-Mieke]
[Korn, Klaus]
[Schmidt, Barbara]

Tenofovir resistance and resensitization
In: Antimicrobial Agents and Chemotherapy [47], 3478-3484

Journal Article

2003

Beerenwinkel, Niko
[Kaiser, Rolf]
Rahnenführer, Jörg
[Däumer, Martin]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Tree models for the evolution of drug resistance
In: XII International HIV Drug resistance Workshop, S107-S107

Proceedings Article

2002

[Hoffmann, Daniel]
[Schnaible, Volker]
[Wefing, Stephan,]
Albrecht, Mario
[Hanisch, Daniel]
[Zimmer, Ralf]

Proceedings Article

2002

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Diversity and complexity of HIV-1drug resistance: A bioinformatics approach to predicting phenotype from genotype
In: Proceedings of the National Academy of Sciences [99], 8271-8276

Journal Article

2002

Beerenwinkel, Niko
Lengauer, Thomas
[Däumer, Martin]
[Sierra, S.]
[Schmidt, Barbara]
[Walter, Hauke]
[Korn, Klaus]
[Oette, Mark]
Fätkenheuer, Gerd
[Rockstroh, J.]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Selbig, Joachim]

Geno2pheno is predictive of short-term virological response
In: Proceedings from the 5th International Workshop on HIV Drug Resistance & Treatment Strategies, 74-74

Proceedings Article

2002

Beerenwinkel, Niko
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Quantitative phenotype prediction by support vector machines
In: Proceedings from the 5th International Workshop on HIV Drug resistance & Treatment Strategies, 97

Proceedings Article

2001

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Geno2pheno: A system for the interpretation of genotypic HIV Drug resistance tests
In: IEEE Intelligent Systems [16], 35-41

Journal Article

2001

Beerenwinkel, Niko
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Korn, Klaus]
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Selbig, Joachim]

Neue Wege zur Optimierung von Anti-HIV Therapien
In: BIOforum [24], 912-914

Journal Article

Hoffmann, D.

2001

Lengauer, Thomas
[Beerenwinkel, Niko]
[Schmidt, B.]
[Walter, H.]
[Kaiser, R.]
[Hoffmann, D.]
[Korn, K.]
[Selbig, J.]

Geno2pheno: a new machine learning approach to predicting phenotypic drug resistance from genotype
In: Antiviral Therapy [6], 104

Journal Article

Hoffmann, D. (ed.)

2007

European Journal of Medical Research

Journal

Hoffmann, Karl-Hein (ed.)

2002

[Hoffmann, Daniel]
[Schnaible, Volker]
[Wefing, Stephan,]
Albrecht, Mario
[Hanisch, Daniel]
[Zimmer, Ralf]

Proceedings Article

Hoffmann, Michele J.

2008

[Hornstein, Max]
[Hoffmann, Michele J.]
Alexa, Adrian
[Yamanaka, Masanori]
[Müller, Mirko]
[Jung, Volker]
[Rahnenführer, Jörg]
[Schulz, Wolfgang A.]

Protein phosphatase and TRAIL receptor genes as new candidate tumor genes on chromosome 8p in prostate cancer
In: Cancer Genomics & Proteomics [5], 123-136

Journal Article

2007

Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer
In: Molecular Cancer [6], 1-16

Journal Article

Hoffman, T. (ed.)

2007

Sing, Tobias
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Mutagenetic tree Fisher kernel improves prediction of HIV drug resistance from viral genotype
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Hofmann, D.

2001

[Apostolakis, Joannis]
[Hofmann, D.]
Lengauer, Thomas

Derivation of a scoring function for crystal structure prediction
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Hofmann, Wolf-Peter

2007

[Welker, Martin W.]
[Hofmann, Wolf-Peter]
[Welsch, Christoph]
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[Herrmann, Eva]
[Lengauer, Thomas]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Correlation nonstructural (NS)4B amino acid variations with initial viral kinetics during interferon-alpha-based therapy in HCV-1b-infected patients
In: Journal of Viral Hepatitis [14], 338-349

Journal Article

2006

Amino acid variations in hepatitis C virus p7 and sensitivity to antiviral combination therapy with amantadine in chronic hepatitis C
In: Antiviral Therapy [11], 507-519

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Hofmann, Wolf Peter

2011

[Hofmann, Wolf Peter]
[Chung, Tje Lin]
[Osbahr, Carola]
[Susser, Simone]
[Karey, Ursel]
[Mihm, Ulrike]
Welsch, Christoph
[Lötsch, Jörn]
[Sarrazin, Christoph]
[Zeuzem, Stefan]
[Herrmann, Eva]

Impact of ribavirin on HCV replicon RNA decline during treatment with interferon-α and the protease inhibitors boceprevir or telaprevir
In: Antiviral Therapy [16], 695-704

Journal Article

2009

[Mihm, Ulrike]
[Ackermann, Oliver]
Welsch, Christoph
[Herrmann, Eva]
[Hofmann, Wolf Peter]
[Grigorian, Natalia]
[Welker, Martin Walter]
Lengauer, Thomas
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Clinical relevance of the 2'-5'-oligoadenylate synthetase/RNase L system for treatment response in chronic hepatitis C
In: Journal of Hepatology [50], 49-58

Journal Article

2007

[Hofmann, Wolf Peter]
Welsch, Christoph
[Takahashi, Yoshitomo]
[Miyajima, Hiroaki]
[Mihm, Ulrike]
[Krick, Christoph]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Identification and in silico characterization of a novel compound heterozygosty associated with hereditary aceruloplasminemia
In: Scandinavian Journal of Gastroenterology [42], 1088-1094

Journal Article

2007

[Hofmann, Wolf Peter]
[Fernandez, B.]
[Herrmann, E.]
Welsch, Christoph
[Mihm, Ulrike]
[Kronenberg, B.]
[Feldmann, G.]
[Spengler, U.]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Somatic hypermutation and mRNA expression levels of the BCL-6 gene in patients with hepatitis C virus-associated lymphoproliferative diseases
In: Journal of Viral Hepatitis [14], 484-491

Journal Article

Hofmann, W. P.

2011

[Welker, M.-W.]
Welsch, Christoph
[Ochs, D.]
[Hofmann, W. P.]
[Herrmann, E.]
[Piiper, A.]
[Hartmann, R. W.]
[Zeuzem, S.]
[Sarrazin, C.]
[Kronenberger, Bernd]

Journal Article

Hofmann, W.P.

2010

[Mihm, Ulrike]
[Hofmann, W.P.]
Welsch, Christoph
[Polta, A.]
Lengauer, Thomas
[Zeuzem, Stefan]
[Sarrazin, Christoph]
[Herrmann, E.]

Effect of ribavirin on the frequency of RNAse L cleavage sites within the hepatitis C viral genome
In: Journal of Viral Hepatitis [17], 217-221

Journal Article

2004

[Hofmann, W.P.]
[Herrmann, E.]
[Kronenberger, B.]
Merkwirth, Christian
Welsch, Christoph
Lengauer, Thomas
[Zeuzem, S.]
[Sarrazin, C.]

Association of HCV-related mixed cryoglobulinemia with specific mutational patterns of the HCV E2 protein and CD81 expression on peripheral B lymphocytes
In: Blood [104], 1228-1229

Journal Article

Hoinka, Jan-Malte

2011

Hoinka, Jan-Malte

Finding the Hairpin in the Haystack: Towards an High Throughput in Silico Pipeline for Aptamer Motif Identification using SELEX Data
Universität des Saarlandes

Thesis - Masters thesis

Holmes, Christopher C. (ed.)

2003

Rahnenführer, Jörg

Statistical Inference for Clustering Microarrays
In: Proceedings of the MSRI Workshop: Nonlinear Estimation and Classification, 323-332

Proceedings Article

Holm, Liisa

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Hong, Chibo

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Honnefelder, Ludger (ed.)

2001

Lengauer, Thomas

Bioinformatik an der Schwelle zur postgenomischen Ära
In: Was wissen wir, wenn wir das menschliche Genom kennen, 56-62

Part of a Book

Hopf, Thomas A

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Hornstein, Max

2008

[Hornstein, Max]
[Hoffmann, Michele J.]
Alexa, Adrian
[Yamanaka, Masanori]
[Müller, Mirko]
[Jung, Volker]
[Rahnenführer, Jörg]
[Schulz, Wolfgang A.]

Protein phosphatase and TRAIL receptor genes as new candidate tumor genes on chromosome 8p in prostate cancer
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Journal Article

Horton, Paul

2012

[Rost, Burkhard]
[Gaasterland, Terry]
Lengauer, Thomas
[Linial, Michal]
[Markel, Scott]
[McKay, B. J. Morrison]
[Schneider, Reinhard]
[Horton, Paul]
[Kelso, Janet]

Paving the future: finding suitable ISMB venues
In: Bioinformatics [28], 2556-2559

Journal Article

Hovig, Eivind

2007

[Liu, Fang]
[Tostesen, Eivind]
[Sundet, Jostein K.]
[Jenssen, Tor-Kristian]
Bock, Christoph
[Jerstad, Geir Ivar]
[Thilly, William G.]
[Hovig, Eivind]

The human genomic melting map
In: PLoS Computational Biology [3], e93

Journal Article

Hovingh, Kees

2002

Truncation mutations in ABCA1 suppress normal upregulation of full-length ABCA1 by 9-cis-retinoic acid and 22-R-hydroxycholesterol
In: Journal of Lipid Research [43], 1939-1949

Journal Article

Hov, Johannes Roksund

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Ho, Joshua W. K.

2011

[Zacharek, Sima J.]
[Fillmore, Christine M.]
[Lau, Allison N.]
[Gludish, David W.]
[Chou, alan]
[Ho, Joshua W. K.]
[Zamponi, Raffaella]
[Gazit, Roi]
Bock, Christoph
[Jäger, Natalie]
[Smith, Zachary D.]
[Kim, Tae-min]
[Saunders, Arven H.]
[Wong, Janice]
[Lee, Joo-Hyeon]
[Roach, Rebecca R.]
[Rossi, Derrick J.]
[Meissner, Alex]
[Gimelbrant, Alexander A.]
[Park, Peter J.]
[Kim, Carla F.]

Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
In: Cell Stem Cell [9], 272-280

Journal Article

Huang, Jianzhong

2011

[Kumar, Vinod]
Sun, Peng
[Vamathevan, Jessica]
[Li, Yong]
[Ingraham, Karen]
[Palmer, Leslie]
[Huang, Jianzhong]
[Brown, James R.]

Comparative Genomics of Klebsiella pneumoniae Strains with Different Antibiotic Resistance Profiles
In: Antimicrobial Agents and Chemotherapy [55], 4267-4276

Journal Article

Hua, Deame

2005

[Castellano, Sergi]
[Lobanov, Alexey V.]
[Chapple, Charles]
[Novoselov, Sergey V.]
Albrecht, Mario
[Hua, Deame]
[Lescure, Alain]
Lengauer, Thomas
[Krol, Alain]
[Gladyshev, Vadim N.]
[Guigó, Roderic]

Diversity and functional plasticity of eukaryotic selenoproteins: Identification and characterization of the SelJ family
In: Proceedings of the National Academy of Sciences [102], 16188-16193

Journal Article

Hubbard, Tim J. P.

2008

Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7

Journal Article

Hubbard, TJ

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Hübner, Anika

2007

[Mikeska, Thomas]
Bock, Christoph
[El-Maarri, Osman]
[Hübner, Anika]
[Ehrentraut, Denise]
[Schramm, Johannes]
[Felsberg, Jörg]
[Kahl, Philip]
[Büttner, Reinhard]
[Pietsch, Torsten]
[Waha, Andreas]

Optimization of Quantitative MGMT Promoter Methylation Analysis Using Pyrosequencing and Combined Bisulfite Restriction Analysis
In: Journal of Molecular Diagnostics [9], 368-381

Journal Article

Hubner, Norbert

2007

[Söderhäll, Cilla]
[Marenholz, Ingo]
[Kerscher, Tamara]
[Rüschendorf, Franz]
[Esparza-Gordillo, Jorge]
[Worm, Margitta]
[Gruber, Christoph]
Mayr, Gabriele
Albrecht, Mario
[Rohde, Klaus]
[Schulz, Herbert]
[Wahn, Ulrich]
[Hubner, Norbert]
[Lee, Young-Ae]

Variants in a novel epidermal collagen gene (COL29A1) are associated with atopic dermatitis
In: PLoS Biology [5], e242.1952-1961

Journal Article

Hudson, T.J.

2002

[Zwarts, K.Y.]
[Clee, Susanne M.]
[Zwinderman, A.H.]
[Engert, J.C.]
[Singaraja, Roshni]
[Loubser, O]
[James, E]
Roomp, Kirsten
[Hudson, T.J.]
[Jukema, J.W.]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
In: Clinical Genetics [61], 115-125

Journal Article

2001

Common genetic variation in ABCA1 is associated with altered lipoprotein levels and a modified risk for coronary artery disease
In: Circulation [103], 1198-205

Journal Article

Huertas, Dori

2012

[Simmer, Femke]
[Brinkman, Arie B.]
Assenov, Yassen
[Matarese, Filomena]
[Kaan, Anita]
[Sabatino, Lina]
[Villanueva, Alberto]
[Huertas, Dori]
[Esteller, Manel]
Lengauer, Thomas
Bock, Christoph
[Colantuoni, Vittorio]
[Altucci, Lucia]
[Stunnenberg, Henk G.]

Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
In: Epigenetics [7], 1355-1367

Journal Article

Hufsky, Franziska (ed.)

2012

Röttger, Richard
Kreutzer, Christoph
[Duong Vu, Thuy]
[Wittkop, Tobias]
Baumbach, Jan

Online Transitivity Clustering of Biological Data with Missing Values
In: German Conference on Bioinformatics 2012 (GCB 2012), 57-68

Electronic Proceedings Article

Hughes, Eric

2009

Characterization of resistance to the protease inhibitor boceprevir in hepatitis C virus-infected patients.
In: Hepatology [50], 1709-1718

Journal Article

Hurni, Severine

2010

[Brunner, Susanne]
[Hurni, Severine]
[Streckeisen, Philipp]
Mayr, Gabriele
Albrecht, Mario
[Yahiaoui, Nabila]
[Keller, Beat]

Intragenic allele pyramiding combines different specificities of wheat Pm3 resistance alleles
In: The Plant Journal [64], 433-445

Journal Article

Huse, Klaus

2007

A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211

Journal Article

2007

Systematic association mapping identifies NELL1 as a novel IBD disease gene
In: PLoS ONE [2], e691.1-13

Journal Article

2005

Sarcoidosis is associated with a truncating splice site mutation in BTNL2
In: Nature Genetics [37], 357-364

Journal Article

Huson, Daniel (ed.)

2006

Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario

Functional evaluation of domain-domain interactions and human protein interaction networks
In: German Conference on Bioinformatics (GCB 2006), 115-126

Proceedings Article

Huthmacher, Carola

2007

Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario

Functional evaluation of domain-domain interactions and human protein interaction networks
In: Bioinformatics [23], 859-865

Journal Article

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

2006

Huthmacher, Carola

Decomposing Protein Networks Into
Domain-Domain Interactions
Eberhard Karls University Tübingen

Thesis - other

2006

Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario

Functional evaluation of domain-domain interactions and human protein interaction networks
In: German Conference on Bioinformatics (GCB 2006), 115-126

Proceedings Article

2005

Albrecht, Mario
Huthmacher, Carola
[Tosatto, Silvio C.E.]
Lengauer, Thomas

Decomposing protein networks into domain-domain interactions
In: Bioinformatics [21], ii220-ii221

Journal Article

Hveem, Kristian

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

IBSEN study group, the

2008

[Franke, Andre]
[Balschun, Tobias]
[Karlsen, Tom H.]
[Sventoraityte, Jurgita]
[Nikolaus, Susanna]
Mayr, Gabriele
Domingues, Francisco S.
Albrecht, Mario
[Nothnagel, Michael]
[Ellinghaus, David]
[Sina, Christian]
[Onnie, Clive M.]
[Weersma, Rinse K.]
[Stokkers, Pieter C. F.]
[Wijmenga, Cisca]
[Gazouli, Maria]
[Strachan, David]
[McArdle, Wendy L.]
[Vermeire, Séverine]
[Rutgeers, Paul]
[Rosenstiel, Philip]
[Krawczak, Michael]
[Vatn, Morten H.]
[IBSEN study group, the]
[Mathew, Christopher G.]
[Schreiber, Stefan]

Sequence variants in IL10, ARPC2, and multiple other loci contribute to ulcerative colitis
In: Nature Genetics [40], 1319-1323

Journal Article

Ifrim, Georgiana

2005

Ifrim, Georgiana

A Bayesian Learning Approach to Concept-Based Document Classification
Universität des Saarlandes

Thesis - Masters thesis

Ikegami, Chiaki

2002

Journal Article

Illig, Thomas

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

Immesberger, Stefan

2005

Immesberger, Stefan

A Prefiltering Method to Speed up Protein
Structure Prediction
Universität des Saarlandes

Thesis - Bachelor thesis

Inamdar, Harshal

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Incardona, Francesca

2012

Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156

Poster

2012

Bogojeska, Jasmina
[Stöckel, Daniel]
[Zazzi, Maurizio]
[Kaiser, Rolf]
[Incardona, Francesca]
[Rosen-Zvi, Michal]
Lengauer, Thomas

History-alignment models for bias-aware prediction of virological response to HIV combination therapy
In: Proceedings of the Fifteenth International Conference on Artificial Intelligence and Statistics (AISTATS 2012), 118-126

Proceedings Article

2012

[Zazzi, Maurizio]
[Incardona, Francesca]
[Rosen-Zvi, Michal]
[Prosperi, Mattia]
Lengauer, Thomas
Altmann, Andre
[Sonnerborg, Anders]
[Lavee, Tamar]
[Schülter, Eugen]
[Kaiser, Rolf]

Predicting Response to Antiretroviral Treatment by Machine Learning:
The EuResist Project
In: Intervirology [55], 123-127

Journal Article

2010

Weisser, Hendrik
Altmann, André
[Sierra, Saleta]
[Incardona, Francesca]
[Struck, Daniel]
[Sönnerborg, Anders]
[Kaiser, Rolf]
[Zazzi, Maurizio]
[Tschochner, Monika]
[Walter, Hauke]
Lengauer, Thomas

Only Slight Impact of Predicted Replicative Capacity for Therapy Response Prediction
In: PLoSOne [5], e9044,1-e9044,10

Electronic Journal Article

2010

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE Study)
In: HIV Medicine [Early View], 1-8

Electronic Journal Article

2009

Altmann, André
Sing, Tobias
[Vermeiren, Hans]
[Winters, Bart]
[Van Craenenbroeck, Elke]
[Van der Borght, Koen]
[Rhee, Soo-Yon]
Shafer, Robert W.
[Schülter, Eugen]
[Kaiser, Rolf]
[Peres, Yardena]
[Sönnerborg, Anders]
Fessel, W. Jeffrey
[Incardona, Francesca]
[Zazzi, Maurizio]
[Bacheler, Lee]
[Van Vlijmen, Hermann]
Lengauer, Thomas

Advantages of Predicted Phenotypes and Statistical Learning Models in Inferring Virological Response to Antiretroviral Therapy from HIV Genotype
In: Antiviral Therapy [14], 273-283

Journal Article

2008

Altmann, Andre
[Rosen-Zvi, Michal]
[Prosperi, Mattia]
[Aharoni, Ehud]
[Neuvirth, Hani]
[Sönnerborg, Anders]
[Schülter, Eugen]
Büch, Joachim
[Struck, Daniel]
[Peres, Yardena]
[Incardona, Francesca]
[Kaiser, Rolf]
[Zazzi, Maurizio]
Lengauer, Thomas

Comparison of Classifier Fusion Methods for Predicting Response to Anti HIV-1 Therapy
In: PLoS ONE [3], e3470

Journal Article

2008

[Rosen-Zvi, Michal]
Altmann, Andre
[Prosperi, Mattia]
[Aharoni, Ehud]
[Neuvirth, Hani]
[Sönnerborg, Anders]
[Schülter, Eugen]
[Struck, Daniel]
[Peres, Yardena]
[Incardona, Francesca]
[Kaiser, Rolf]
[Zazzi, Maurizio]
Lengauer, Thomas

Selecting anti-HIV therapies based on a variety of genomic and clinical factors
In: Proceedings of the 16th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2008), i399-406

Proceedings Article

2007

[Zazzi, Maurizio]
[Aharoni, Ehud]
[Altmann, Andre]
[Baszó, Fulop]
[Bidgood, Penny]
[Borgulya, Gabór]
[Denholm-Prince, J]
[Fielder, M]
[Kaiser, Rolf]
[Kent, Carmel]
[Lengauer, Thomas]
[Nepusz, T]
[Neuvirth, Hanni]
[Peres, Yardena]
[Petroczi, Andrea]
[Prosperi, Mattia]
[Romano, L]
[Rosen-Zvi, Michal]
[Schülter, Eugen]
Sing, Tobias
[Sonnerborg, Andras]
[Thompson, R]
[Ulivi, G]
[Zalány, L]
[Incardona, Francesca]

EuResist: exploration of multiple modeling techniques for prediction of response to treatment
In: Proceedings of the 5th European HIV Drug Resistance Workshop, -

Poster

2007

Altmann, Andre
Sing, Tobias
[Vermeiren, Hans]
[Winters, Bart]
[Van Craenenbroeck, Elke]
[Van der Borght, Koen]
[Rhee, Soo-Yon]
[Shafer, Robert W]
[Schülter, Eugen]
[Kaiser, Rolf]
[Peres, Yardena]
[Sonnerborg, Anders]
[Fessel, W Jeffrey]
[Incardona, Francesca]
[Zazzi, Maurizio]
[Bacheler, Lee]
[Van Vlijmen, Hermann]
Lengauer, Thomas

Inferring virological response from genotype: with or without predicted phenotypes?
In: Proceedings of the 16th International HIV Drug Resistance Workshop, S169

Poster

Incardona, F.

2011

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE study)
In: HIV Medicine [12], 211-218

Journal Article

Incardona, Incardona

2008

Altmann, Andre
[Rosen-Zvi, Michal]
[Prosperi, Mattia]
[Aharoni, Ehud]
[Neuvirth, Hani]
[Schülter, Eugen]
Büch, Joachim
[Peres, Yardena]
[Incardona, Incardona]
[Sönnerborg, Anders]
[Kaiser, Rolf]
[Zazzi, Maurizio]
Lengauer, Thomas

The EuResist approach for predicting response to anti HIV-1 therapy
In: Reviews in Antiviral Therapy, 107

Poster

Ingraham, Karen

2011

[Kumar, Vinod]
Sun, Peng
[Vamathevan, Jessica]
[Li, Yong]
[Ingraham, Karen]
[Palmer, Leslie]
[Huang, Jianzhong]
[Brown, James R.]

Comparative Genomics of Klebsiella pneumoniae Strains with Different Antibiotic Resistance Profiles
In: Antimicrobial Agents and Chemotherapy [55], 4267-4276

Journal Article

Invernizzi, Pietro

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Iseli, C

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Ishigami, Masato

2002

Journal Article

Ishihara, Mitsuaki

2002

Journal Article

Isserlin, Ruth

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

Istrail, P. (ed.)

2001

Proceedings of the 5th Annual Conference on Research in Computational Molecular Biology (RECOMB2001)

Book

Istrail, Sorin (ed.)

2004

Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, 36-44

Proceedings Article

2002

[Zien, Alexander]
[Fluck, Juliane]
[Zimmer, Ralf]
Lengauer, Thomas

Microarrays: How Many Do You Need?
In: Proceedings of the Sixth Annual Conference on Research in Computational Molecular Biology (RECOMB2002), 321-330

Proceedings Article

Ivanova, Violeta

2011

Ivanova, Violeta

Comparison of methods for discovering genomic aberrations relevant for cancer
Universität des Saarlandes

Thesis - Masters thesis

Jäger, Hans (ed.)

2008

[Sierra, Saleta]
[Kaiser, Rolf]
Thielen, Alexander
[Sander, Oliver]
Lengauer, Thomas

Genotypic Analysis of HIV Co-Receptor Usage
In: Entry Inhibitoren - Neue Formen der HIV-Therapie, 31-39

Part of a Book

Jäger, Natalie

2011

Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
In: Cell Stem Cell [9], 272-280

Journal Article

2010

[Gu, Hongcang]
Bock, Christoph
[Mikkelsen, Tarjei S.]
[Jäger, Natalie]
[Smith, Zachary D.]
[Tomazou, Eleni]
[Gnirke, Andreas]
[Lander, Eric S.]
[Meissner, Alexander]

Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution
In: Nature Methods [7], 133-136

Journal Article

2010

Bock, Christoph
[Tomazou, Eleni M.]
[Brinkman, Arie B.]
Müller, Fabian
[Simmer, Femke]
[Gu, Hongcang]
[Jäger, Natalie]
[Gnirke, Andreas]
[Stunnenberg, Hendrik G.]
[Meissner, Alexander]

Quantitative comparison of genome-wide DNA methylation mapping technologies
In: Nature Biotechnology [28], 1106-1114

Journal Article

Jäger, Willi (ed.)

2003

Lengauer, Thomas
[Schäfer, M.]

Combinatorial Optimization Techniques for Three-Dimensional Arrangement Problems
In: Mathematics - Key Technology for the Future, 63-73

Part of a Book

James, E

2002

[Zwarts, K.Y.]
[Clee, Susanne M.]
[Zwinderman, A.H.]
[Engert, J.C.]
[Singaraja, Roshni]
[Loubser, O]
[James, E]
Roomp, Kirsten
[Hudson, T.J.]
[Jukema, J.W.]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
In: Clinical Genetics [61], 115-125

Journal Article

James, Ian

2011

Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
In: The Journal of Infectious Diseases [203], 237-245

Journal Article

2011

Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742

Journal Article

2011

Thielen, Alexander
Lengauer, Thomas
[Swenson, Luke C]
[Dong, Winnie W.Y.]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially
In: Antiviral Therapy [16], 319-328

Journal Article

2010

Thielen, Alexander
Lengauer, Thomas
[Harrigan, P Richard]
[Swenson, Luke]
[Dong, Winnie WY]
[McGovern, Rachel A]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]

Mutations within GP41 are correlated with coreceptor tropism but do not substantially improve coreceptor usage prediction
In: Reviews in Antiviral Therapy & Infectious Diseases, 47-47

Poster

2010

[McGovern, Rachel A]
Thielen, Alexander
[Mo, Theresa]
[Dong, Winnie]
[Woods, Conan K]
[Chapman, Douglass]
[Lewis, Marilyn]
[James, Ian]
[Heera, Jayvant]
[Valdez, Hernan]
[Harrigan, P Richard]

Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies
In: AIDS [24], 2517-2525

Journal Article

2009

[Harrigan, P Richard]
[McGovern, Rachel]
[Dong, Winnie]
Thielen, Alexander
[Jensen, Mark]
[Mo, Theresa]
[Chapman, Douglas]
[Lewis, Marilyn]
[James, Ian]
[Valdez, Hernan]

Poster

James, Jackson

2005

[Das, Ani V.]
[James, Jackson]
Rahnenführer, Jörg
[Thoresona, Wallace B.]
[Bhattacharyaa, Sumitra]
[Zhao, Xing]
[Ahmad, Iqbal]

Retinal properties and potential of the adult mammalian ciliary epithelium stem cells
In: Vision Research [45], 1653-1666

Journal Article

2004

[James, Jackson]
[Das, Ani V.]
Rahnenführer, Jörg
[Ahmad, Iqbal]

Cellular and Molecular Characterization of Early and Late Retinal Stem Cells/Progenitors: Differential Regulation of Proliferation and Context Dependent Role of Notch Signaling
In: Journal of Neurobiology [61], 359-376

Journal Article

2004

[James, Jackson]
[Das, Ani V.]
[Zhao, Xing]
Rahnenführer, Jörg
[Ahmad, Iqbal]

Identification of c-Kit receptor as a regulator of adult neural stem cells in the mammalian eye: interactions with Notch signaling
In: Developmental Biology [273], 87-105

Journal Article

2003

[James, Jackson]
Das, Ani V.
Rahnenführer, Jörg
[Leon, FAS]
[Ahmad, Iqbal]

Identification of rat brahma (rBRM), a subunit of SWI/SNF chromatin remodeling complex: Involvement in the differentiation of retinal stem cells/progenitors

Miscellaneous

Jang, Mi

2012

Hauschild, Anne-Christin
[Schneider, Till]
Pauling, Josch
[Rupp, Kathrin]
[Jang, Mi]
[Baumbach, Jörg Ingo]
Baumbach, Jan

Computational Methods for Metabolomic Data Analysis of Ion Mobility Spectrometry Data - Reviewing the State of the Art
In: Metabolites [2], 733-755

Electronic Journal Article

Jansen, M.

2004

[Hannemann, A.]
[Schön, J.C.]
[Jansen, M.]
[Putz, H.]
Lengauer, Thomas

Modelling amorphous Si3B3N7: Structure and elastic properties
In: Physical Review [B 70], 144201-144201

Journal Article

Janssen, A.

2003

[Janssen, A.]
Rahnenführer, Jörg

A hazard based approach to dependence tests for bivariate censored models
In: Mathematical Methods in Statistics [11], 297-322

Journal Article

Jarvius, Jonas

2012

BLUEPRINT to decode the epigenetic signature written in blood
In: Nature Biotechnology [30], 224-226

Journal Article

Jean, G

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Jeltsch, Albert

2009

[Zhang, Yingying]
[Rohde, Christian]
[Tierling, Sascha]
[Jurkowski, Tomasz P.]
Bock, Christoph
[Santacruz, Diana]
[Ragozin, Sergey]
[Reinhardt, Richard]
[Groth, Marco]
[Walter, Jörn]
[Jeltsch, Albert]

DNA methylation analysis of chromosome 21 gene promoters at single base pair and single allele resolution
In: PLoS Genetics [5], e1000438:1-e1000438:15

Electronic Journal Article

Jenkinson, Andrew M.

2009

Blankenburg, Hagen
[Finn, Robert D.]
[Prlić, Andreas]
[Jenkinson, Andrew M.]
Ramírez, Fidel
Emig, Dorothea
Schelhorn, Sven-Eric
Büch, Joachim
Lengauer, Thomas
Albrecht, Mario

DASMI: exchanging, annotating and assessing molecular interaction data
In: Bioinformatics [25], 1321-1328

Journal Article

2008

Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7

Journal Article

Jensen, Björn

2012

Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156

Poster

2012

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

Jensen, Lars J.

2009

Protein-protein interactions: analysis and prediction
In: Modern Genome Annotation - The Biosapiens Network, 353-410

Part of a Book

Jensen, Mark

2009

[Harrigan, P Richard]
[McGovern, Rachel]
[Dong, Winnie]
Thielen, Alexander
[Jensen, Mark]
[Mo, Theresa]
[Chapman, Douglas]
[Lewis, Marilyn]
[James, Ian]
[Valdez, Hernan]

Poster

2008

[Moores, Andrew]
Thielen, Alexander
[Dong, Winnie]
Low, Andrew J.
[Woods, Conan]
[Jensen, Mark]
[Wynhoven, Brian]
[Chan, Dennison]
[Glascock, Christopher]
[Harrigan, P Richard]

Improved detection of X4 virus by V3 genotyping: application to plasma RNA and proviral DNA
In: Antiviral Therapy, A99

Poster

2007

[Low, Andrew J.]
[Dong, Winnie]
[Chan, Dennison]
Sing, Tobias
[Swanstrom, Ronald]
[Jensen, Mark]
[Pillai, Satish]
[Good, Benjamin]
[Harrigan, P. Richard]

Current V3 genotyping algorithms are inadequate for predicting X4 co-receptor usage in clinical isolates
In: AIDS [21], F19-F26

Journal Article

Jensen, Mark A

2011

Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742

Journal Article

Jensen, Mark A.

2011

Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
In: The Journal of Infectious Diseases [203], 237-245

Journal Article

2010

Journal Article

Jenssen, Tor-Kristian

2007

[Liu, Fang]
[Tostesen, Eivind]
[Sundet, Jostein K.]
[Jenssen, Tor-Kristian]
Bock, Christoph
[Jerstad, Geir Ivar]
[Thilly, William G.]
[Hovig, Eivind]

The human genomic melting map
In: PLoS Computational Biology [3], e93

Journal Article

Jerstad, Geir Ivar

2007

[Liu, Fang]
[Tostesen, Eivind]
[Sundet, Jostein K.]
[Jenssen, Tor-Kristian]
Bock, Christoph
[Jerstad, Geir Ivar]
[Thilly, William G.]
[Hovig, Eivind]

The human genomic melting map
In: PLoS Computational Biology [3], e93

Journal Article

Jiang, Fuman

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

Jiang, Tao

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

Jimenez, Rafael C.

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

2008

Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7

Journal Article

Jing, Cui

2011

Jing, Cui

A comprehensive analysis of the illumina Infinium assay
Universität des Saarlandes

Thesis - Masters thesis

Johannsen, Daniel

2010

Johannsen, Daniel

Random Combinatorial Structures and Randomized Search Heuristics
Universität des Saarlandes

Thesis - PhD thesis

Johnson, Brett E.

2010

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105

Journal Article

Jones, David T

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Jones, David T.

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Jones, Phil

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Jones, Philip

2008

Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7

Journal Article

Jorge, A (ed.)

2005

Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
In: Knowledge Discovery in Databases: PKDD 2005., 285-296

Proceedings Article

Jose, Joachim

2003

[Jose, Joachim]
[Betschieder, Dirk]
Ray, Somak
Lengauer, Thomas
[Zangen, D]

New inhibitors of human cathepsin G identified by surface display library screening and peptide-protein docking
In: 7th International Symposium on Pharmaceutical Sciences (ISOPS-7), 46-49

Proceedings Article

Joshi, Rajendra

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Juan, David A.

2009

Protein-protein interactions: analysis and prediction
In: Modern Genome Annotation - The Biosapiens Network, 353-410

Part of a Book

Jukema, J.W.

2002

[Zwarts, K.Y.]
[Clee, Susanne M.]
[Zwinderman, A.H.]
[Engert, J.C.]
[Singaraja, Roshni]
[Loubser, O]
[James, E]
Roomp, Kirsten
[Hudson, T.J.]
[Jukema, J.W.]
[Kastelein, J.J.P.]
[Hayden, Michael R.]

ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
In: Clinical Genetics [61], 115-125

Journal Article

2001

Common genetic variation in ABCA1 is associated with altered lipoprotein levels and a modified risk for coronary artery disease
In: Circulation [103], 1198-205

Journal Article

Junge, Alexander

2011

Junge, Alexander

Unsupervised dissection of cancer types based on genomic, epigenomic and transciptomic features
Universität des Saarlandes

Thesis - Bachelor thesis

Jung, Holger

2006

Jung, Holger

Yamada Analyzer - A tool for fast calculation of genomic attributes
Universität des Saarlandes

Thesis - Bachelor thesis

Jung, Volker

2008

[Hornstein, Max]
[Hoffmann, Michele J.]
Alexa, Adrian
[Yamanaka, Masanori]
[Müller, Mirko]
[Jung, Volker]
[Rahnenführer, Jörg]
[Schulz, Wolfgang A.]

Protein phosphatase and TRAIL receptor genes as new candidate tumor genes on chromosome 8p in prostate cancer
In: Cancer Genomics & Proteomics [5], 123-136

Journal Article

2007

[Kamradt, Jörn]
[Jung, Volker]
[Wahrheit, Kerstin]
Tolosi, Laura
Rahnenführer, Jörg
[Schilling, Martin]
[Walker, Robert]
[Davis, Sean]
[Stöckle, Michael]
[Meltzer, Paul]
[Wullich, Bernd]

Detection of Novel Amplicons in Prostate Cancer by Comprehensive Genomic Profiling of Prostate Cancer Cell Lines Using Oligonucleotide-Based ArrayCGH
In: PLoS ONE [2], e769

Electronic Journal Article

2007

Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer
In: Molecular Cancer [6], 1-16

Journal Article

Juran, Brian D.

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Jurkowski, Tomasz P.

2009

DNA methylation analysis of chromosome 21 gene promoters at single base pair and single allele resolution
In: PLoS Genetics [5], e1000438:1-e1000438:15

Electronic Journal Article

ss ner, Rebecca

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kaan, Anita

2012

Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
In: Epigenetics [7], 1355-1367

Journal Article

Kaan, A.

2013

[Simmer, F.]
[Brinkmann, A.B.]
Assenov, Yassen
[Matarese, F.]
[Kaan, A.]
Lengauer, Thomas
Bock, Christoph
[Colantuoni, V.]
[Altucci, L.]
[Stunnenberg, H.G.]

Comparative genome-wide DNA methylation analysis of colorectal tumor and matched human tissue
In: Epigenetics [7], 1355-1367

Journal Article

Kabelitz, Dieter

2010

[Ellinghaus, Eva]
[Ellinghaus, David]
[Stuart, Philip E.]
[Nair, Rajan P.]
[Debrus, Sophie]
[Raelson, John V.]
[Belouchi, Majid]
[Fournier, Hélène]
[Reinhard, Claudia]
[Ding, Jun]
[Li, Yun]
[Tejasvi, Trilokraj]
[Gudjonsson, Johann]
[Stoll, Stefan W.]
[Voorhees, John J.]
[Lambert, Sylviane]
[Weidinger, Stephan]
[Eberlein, Bernadette]
[Kunz, Manfred]
[Rahman, Proton]
[Gladman, Dafna D.]
[Gieger, Christian]
[Wichmann, H. Erich]
[Karlsen, Tom H.]
Mayr, Gabriele
Albrecht, Mario
[Kabelitz, Dieter]
[Mrowietz, Ulrich]
[Abecasis, Gonçalo R.]
[Elder, James T.]
[Schreiber, Stefan]
[Weichenthal, Michael]
[Franke, Andre]

Genome-wide association study identifies a psoriasis susceptibility locus at TRAF3IP2
In: Nature Genetics [42], 991-995

Journal Article

Kacprowski, Tim

2013

Kacprowski, Tim
Doncheva, Nadezhda T.
Albrecht, Mario

NetworkPrioritizer: a versatile tool for network-based prioritization of candidate disease genes or other molecules
In: Bioinformatics [29], 1471-1473

Journal Article

2012

Doncheva, Nadezhda T
Kacprowski, Tim
Albrecht, Mario

Recent approaches to the prioritization of candidate disease genes
In: Wiley Interdisciplinary Reviews: Systems Biology and Medicine [4], 429-442

Journal Article

2011

Kacprowski, Tim

Disease gene prioritization by combining network information and functional knowledge
Universität des Saarlandes

Thesis - Masters thesis

2011

Emig, Dorothea
Kacprowski, Tim
Albrecht, Mario

Measuring and analyzing tissue specificity of human genes and protein complexes
In: EURASIP Journal on Bioinformatics and Systems Biology [2011], 5,1-5,6

Journal Article

2010

Kacprowski, Tim

Analysis of protein complexes and tissue-spedific expression
Universität des Saarlandes

Thesis - Bachelor thesis

2010

Emig, Dorothea
Kacprowski, Tim
Albrecht, Mario

Measuring and analyzing tissue specificity of human genes and protein complexes
In: Seventh International Workshop on Computational Systems
Biology, WCSB 2010, 27-30

Proceedings Article

Kadeja, Bartlomiej (ed.)

2003

Merkwirth, Christian
[Ogorzalek, Maciej]
[Wichard, Jörg Daniel]

Stochastic Gradient Descent Training of Ensembles of DT-CNN Classifiers for Digit Recognition
In: Proceedings of the 16th European Conference on Circuit Theory and Design ECCTD'03, 337-341

Proceedings Article

Kaderali, Lars

2011

Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment
In: Cell Host & Microbe [9], 32-45

Journal Article

Kaestner, Lars

2007

[Scheller, Nicoletta]
[Resa-Infante, Patricia]
[de la Luna, Susana]
[Galao, Rui Pedro]
Albrecht, Mario
[Kaestner, Lars]
[Lipp, Peter]
Lengauer, Thomas
[Meyerhans, Andreas]
[Díez, Juana]

Identification of PatL1, a human homolog to yeast P body component Pat1
In: Biochimica et Biophysica Acta - Molecular Cell Research [1773], 1786-1792

Journal Article

Kagan, Ron

2010

[Rhee, Soo-Yon]
[Margeridon-Thermet, Severin]
[Nguyen, Mindie]
[Liu, Tommy]
[Kagan, Ron]
Beggel, Bastian
[Verheyen, Jens]
[Kaiser, Rolf]
[Shafer, Robert]

Hepatitis B virus reverse transcriptase sequence variant database for sequence analysis and mutation discovery
In: Antiviral Research [88], 269-275

Journal Article

Kähäri, Andreas

2008

Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7

Journal Article

Kahles, A

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Kahl, Philip

2007

[Mikeska, Thomas]
Bock, Christoph
[El-Maarri, Osman]
[Hübner, Anika]
[Ehrentraut, Denise]
[Schramm, Johannes]
[Felsberg, Jörg]
[Kahl, Philip]
[Büttner, Reinhard]
[Pietsch, Torsten]
[Waha, Andreas]

Optimization of Quantitative MGMT Promoter Methylation Analysis Using Pyrosequencing and Combined Bisulfite Restriction Analysis
In: Journal of Molecular Diagnostics [9], 368-381

Journal Article

Kaiser, Rolf

2014

Pironti, Alejandro
Pfeifer, Nico
Kaiser, Rolf
Walter, Hauke
Lengauer, Thomas

Accurate prediction of drug-exposure without using established drug-resistance mutations
In: Antiviral Therapy, A75

Poster

2014

Pironti, Alejandro
Pfeifer, Nico
Kaiser, Rolf
Walter, Hauke
Lengauer, Thomas

Improved HIV-1 drug-exposure reconstruction with linear support vector machines
In: Reviews in Antiviral Therapy & Infectious Diseases, 67

Poster

2014

Pironti, Alejandro
Pfeifer, Nico
[Kaiser, Rolf]
[Walter, Hauke]
Lengauer, Thomas

Improved therapy-success prediction with GSS estimated from clinical HIV-1 sequences
In: Abstract Supplement of the HIV Drug Therapy Glasgow Congress 2014, 155

Poster

2014

Pironti, Alejandro
Sierra, Saleta
Kaiser, Rolf
Lengauer, Thomas
Pfeifer, Nico

Simulation of Sanger-sequencing errors in the context of genotypic tropism determination
In: Antiviral Therapy, A81

Poster

2013

[Bozek, K.]
Lengauer, Thomas
[Sierra, S.]
[Kaiser, Rolf]
[Domingues, F.S.]

Analysis of physicochemical and structural properties determining HIV-1 coreceptor usage
In: PLoS Computational Biology [x], x

Journal Article

2013

[Neumann-Fraune, Maria]
Beggel, Bastian
[Pfister, Herbert]
[Kaiser, Rolf]
[Verheyen, Jens]

High frequency of complex mutational patterns in lamivudine resistant hepatitis B virus isolates
In: Journal of Medical Virology [200], 39-49

Journal Article

2012

Bozek, Katarzyna
[Eckhardt, Manon]
[Sierra, Saleta]
[Kaiser, Rolf]
[Kräusslich, Hans-Georg]
[Müller, Barbara]
Lengauer, Thomas

An expanded model of HIV cell entry phenotype based on multi-parameter single-cell data
In: Retrovirology [9], 60.1-60.15

Journal Article

2012

[Heger, Eva]
[Thielen, Alexander]
[Gilles, Ramona]
[Obermeier, Martin]
Lengauer, Thomas
[Kaiser, Rolf]
[Trapp, Susanna]

APOBEC3G/F a one possible driving source for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16

Journal Article

2012

Pironti, Alejandro
Lengauer, Thomas
[Kaiser, Rolf]
[Schülter, Eugen]
[Verheyen, Jens]

Characterization of HIV-1 Gag Subtype C
In: Abstract Book. 9th Workshop on HIV \& Hepatitis Treatment Strategies \& Antiviral Drug Resistance, 40-41

Poster

2012

[Oette, Mark]
[Schulter, Eugen]
[Rosen-Zvi, Michal]
[Peres, Yardena]
[Zazzi, Maurizio]
[Sonnerborg, Anders]
[Struck, Daniel]
Altmann, Andre
[Kaiser, Rolf]

Efficacy of antiretroviral therapy switch in HIV-infected patients: A 10-year analysis of the EuResist cohort
In: Intervirology [55], 160-166

Journal Article

2012

Lawyer, Glenn
[Schülter, Eugen]
[Kaiser, Rolf]
[Reuter, Stefan]
[Oette, Mark]
Lengauer, Thomas

Endogenous or exogenous spreading of HIV-1 in Nordrhein-Westfalen, Germany, investigated by phylodynamic analysis of the RESINA Study cohort
In: Medical Microbiology and Immunology [201], 259-269

Journal Article

2012

Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156

Poster

2012

Beggel, Bastian
[Neumann-Fraune, Maria]
[Doering, Matthias]
Lawyer, Glenn
[Kaiser, Rolf]
[Verheyen, Jens]
Lengauer, Thomas

Genotyping hepatitis B virus dual infections using population-based sequence data
In: Journal of General Virology [9], 1899-1907

Journal Article

2012

Bogojeska, Jasmina
[Stöckel, Daniel]
[Zazzi, Maurizio]
[Kaiser, Rolf]
[Incardona, Francesca]
[Rosen-Zvi, Michal]
Lengauer, Thomas

Proceedings Article

2012

[Obermeier, Martin]
Pironti, Alejandro
[Berg, Thomas]
[Braun, Patrick]
[Däumer, Martin]
[Eberle, Josef]
[Ehret, Robert]
[Kaiser, Rolf]
[Kleinkauf, Niels]
[Korn, Klaus]
[Kücherer, Claudia]
[Müller, Harm]
[Noah, Christian]
[Stürmer, Martin]
Thielen, Alexander
[Wolf, Eva]
[Walter, Hauke]

HIV-GRADE: A Publicly Available, Rules-Based Drug Resistance Interpretation Algorithm Integrating Bioinformatic Knowledge
In: Intervirology [55], 102-107

Journal Article

2012

HIV2EU: supporting standardized HIV-2 drug resistance interpretation in Europe
In: Journal of the International AIDS Society, 135

Poster

2012

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

2012

[Zazzi, Maurizio]
[Incardona, Francesca]
[Rosen-Zvi, Michal]
[Prosperi, Mattia]
Lengauer, Thomas
Altmann, Andre
[Sonnerborg, Anders]
[Lavee, Tamar]
[Schülter, Eugen]
[Kaiser, Rolf]

Predicting Response to Antiretroviral Treatment by Machine Learning:
The EuResist Project
In: Intervirology [55], 123-127

Journal Article

2012

[Reuter, Stefan]
[Oette, Mark]
[Kaiser, Rolf]
Lengauer, Thomas
[Fätkenheuer, Gerd]
[Rockstroh, Jürgen]
[Knechten, Heribert]
[Häussinger, Dieter]

Risk factors associated with older age in treatment-naive HIV-positive patients
In: Intervirology [55], 147-153

Journal Article

2011

[Heger, Eva]
Thielen, Alexander
[Gilles, Ramona]
[Obermeier, Martin]
Lengauer, Thomas
[Kaiser, Rolf]
[Trapp, Susanna]

APOBEC3G/F as one possible driving force for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16

Journal Article

2011

Erratum to: Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients.
In: Medical Microbiology and Immunology [200], 51-51

Journal Article

2011

[Däumer, Martin]
[Kaiser, Rolf]
[Klein, Rolf]
Lengauer, Thomas
[Thiele, Bernhard]
Thielen, Alexander

Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis
In: BMC Medical Informatics and Decision Making [11], 30,1-30,8

Electronic Journal Article

2011

[Schülter, Eugen]
[Oette, Mark]
[Balduin, Melanie]
[Reuter, Stefan]
[Rockstroh, Jürgen]
[Fätkenheuer, Gerd]
[Esser, Stefan]
Lengauer, Thomas
[Agacfidan, Ali]
[Pfister, Herbert]
[Kaiser, Rolf]
[Akgul, Baki]

HIV prevalence and route of transmission in Turkish immigrants
living in North-Rhine Westphalia, Germany
In: Medical Microbiology and Immunology [200], 219-223

Journal Article

2011

Prediction of HIV-1 coreceptor usage (tropism) by sequence analysis using a genotypic approach
In: Journal of Visualized Experiments [58], e3264,1-e3264,9

Electronic Journal Article

2011

Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients
In: Medical Microbiology and Immunology [200], 39-49

Journal Article

2010

[Prosperi, Mattia C. F.]
[Rosen-Zvi, Michal]
Altmann, Andre
[Zazzi, Maurizio]
[Di Giambenedetto, Simona]
[Kaiser, Rolf]
[Schülter, Eugen]
[Struck, Daniel]
[Sloot, Peter]
[van de Vijver, David A.]
[Vandamme, Anne-Mieke]
[Sönnerborg, Anders]

Antiretroviral Therapy Optimisation without Genotype Resistance Testing: A Perspective on Treatment History Based Models
In: PLoS ONE [5], e13753,1-e13753,8

Electronic Journal Article

2010

Lengauer, Thomas
Altmann, André
Thielen, Alexander
[Kaiser, Rolf]

Chasing the AIDS Virus
In: Communications of the ACM [53], 66-74

Journal Article

2010

[Rhee, Soo-Yon]
[Margeridon-Thermet, Severin]
[Nguyen, Mindie]
[Liu, Tommy]
[Kagan, Ron]
Beggel, Bastian
[Verheyen, Jens]
[Kaiser, Rolf]
[Shafer, Robert]

Hepatitis B virus reverse transcriptase sequence variant database for sequence analysis and mutation discovery
In: Antiviral Research [88], 269-275

Journal Article

2010

Thielen, Alexander
[Sichtig, Nadine]
[Kaiser, Rolf]
[Lam, Jeffrey]
[Harrigan, P. Richard]
Lengauer, Thomas

Improved prediction of HIV-1 coreceptor usage with sequence information from the second hypervariable loop of gp120
In: Journal of Infectious Diseases [202], 1435-1443

Journal Article

2010

Weisser, Hendrik
Altmann, André
[Sierra, Saleta]
[Incardona, Francesca]
[Struck, Daniel]
[Sönnerborg, Anders]
[Kaiser, Rolf]
[Zazzi, Maurizio]
[Tschochner, Monika]
[Walter, Hauke]
Lengauer, Thomas

Only Slight Impact of Predicted Replicative Capacity for Therapy Response Prediction
In: PLoSOne [5], e9044,1-e9044,10

Electronic Journal Article

2010

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE Study)
In: HIV Medicine [Early View], 1-8

Electronic Journal Article

2010

[Däumer, Martin]
[Awerkiew, Sabine]
[Sierra Aragon, Saleto]
[Kartashev, Vladimir]
[Poplavskaja, Tatjana]
[Klein, Rolf]
[Sichtig, Nadine]
[Thielen, Bernhard]
Lengauer, Thomas
Roomp, Kirsten
[Pfister, Herbert]
[Kaiser, Rolf]

Short Communication: Selection of Thymidine Analogue Resitance Mutational Patterns in Children from a Common HIV Type 1 Subtype G Source
In: AIDS Research and Human Retroviruses [26], 275-278

Journal Article

2009

Advantages of Predicted Phenotypes and Statistical Learning Models in Inferring Virological Response to Antiretroviral Therapy from HIV Genotype
In: Antiviral Therapy [14], 273-283

Journal Article

2009

Lengauer, Thomas
[Kaiser, Rolf]

Computerjagd auf das AIDSVIRUS
In: Spektrum der Wissenschaft [08], 62-67

Journal Article

2009

Thielen, Alexander
Altmann, André
Bogojeska, Jasmina
[Kaiser, Rolf]
Lengauer, Thomas

Estimating evolutionary pathways to 7CXCR4 usage from cross-sectional data
In: Abstracts presented at the XVIII International HIV Drug Resistance Workshop : Basic Principles & Clinical Implications, A16-A16

Poster

2009

[Sichtig, Nadine]
[Sierra, Saleta]
[Kaiser, Rolf]
[Däumer, Martin]
[Reuter, Stefan]
[Schülter, Eugen]
Altmann, André
[Fätkenheuer, Gerd]
[Dittmer, Ulf]
[Pfister, Herbert]
[Esser, Stefan]

Evolution of raltegravir resistance during therapy
In: Journal of antimicrobial chemotherapy [64], 25-32

Journal Article

2009

Thielen, Alexander
[Sichtig, Nadine]
[Braun, Patrick]
[Däumer, Martin]
[Walter, Hauke]
[Noah, Christian]
[Wolf, Eva]
[Müller, Harm]
[Stürmer, Martin]
Lengauer, Thomas
[Kaiser, Rolf]
[Obermeier, Martin]

Performance of genotypic coreceptor measurement using geno2pheno[coreceptor] in B- and non-B HIV subtypes in a large cohort of therapy-experienced patients in Germany
In: Reviews in Antiviral Therapy, 99-99

Poster

2009

Altmann, André
[Däumer, Martin]
[Beerenwinkel, Niko]
[Peres, Yardena]
[Schülter, Eugen]
Büch, Joachim
[Rhee, Soo-Yon]
[Sönnerborg, Anders]
[Fessel, W. Jeffrey]
[Shafer, Robert W.]
[Zazzi, Maurizio]
[Kaiser, Rolf]
Lengauer, Thomas

Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of
geno2pheno-THEO on a Large Clinical Database
In: The Journal of Infectious Diseases [199], 999-1006

Journal Article

2009

Lengauer, Thomas
[Sierra, S.]
[Kaiser, Rolf]

Resistenzbestimmung
In: MMW Fortschritte in der Medizin [151], 74-75

Journal Article

2009

Bozek, Kasia
Thielen, Alexander
Sierra, Saleta
[Kaiser, Rolf]
Lengauer, Thomas

V3 loop sequence space analysis suggests different evolutionary patterns of CCR5- and CXCR4-tropic HIV.
In: PLoS One [4], e7387:1-e.7387:14

Electronic Journal Article

2008

Comparison of Classifier Fusion Methods for Predicting Response to Anti HIV-1 Therapy
In: PLoS ONE [3], e3470

Journal Article

2008

[Obermeier, Martin]
[Berg, Thomas]
[Sichtig, Nadine]
[Braun, Patrick]
[Däumer, Martin]
[Walter, Hauke]
[Noah, Christian]
[Wolf, Eva]
[Müller, Harm]
[Stürmer, Martin]
Thielen, Alexander
[Kaiser, Rolf]

Determination of HIV-1 co-receptor usage in German patients – comparison of genotypic methods with the TROFILE® phenotypic assay
In: Abstracts of the Ninth International Congress on Drug Therapy in HIV Infection, 123

Poster

2008

[Obermeier, Martin]
[Sichtig, Nadine]
[Braun, Patrick]
[Däumer, Martin]
[Walter, Hauke]
[Noah, Christian]
[Wolf, Eva]
[Müller, Harm]
[Stürmer, Martin]
[Kaiser, Rolf]
Thielen, Alexander

Determination of HIV-1 coreceptor usage in German patients - comparison of genotypic methods with the TROFILE phenotypic assay
In: Antiviral Therapy, A112

Poster

2008

[Sierra, Saleta]
[Kaiser, Rolf]
Thielen, Alexander
[Sander, Oliver]
Lengauer, Thomas

Genotypic Analysis of HIV Co-Receptor Usage
In: Entry Inhibitoren - Neue Formen der HIV-Therapie, 31-39

Part of a Book

2008

Thielen, Alexander
[Harrigan, P Richard]
Low, Andrew J.
[Moores, A]
Altmann, Andre
Bozek, Kasia
[Heger, Eva]
[Sichtig, Nadine]
[Kaiser, Rolf]
Lengauer, Thomas

Improved genotypic prediction of HIV-1 coreceptor usage by incorporating V2 loop sequence variation
In: Antiviral Therapy, A100

Poster

2008

Thielen, Alexander
[Kaiser, Rolf]
Lengauer, Thomas

Improving HIV-1 coreceptor usage prediction from genotype with regions outside of V3
In: Reviews in Antiviral Therapy, 81-82

Poster

2008

Däumer, Martin
[Kaiser, Rolf]
[Klein, Rolf]
Lengauer, Thomas
[Thiele, Bernhard]
Thielen, Alexander

Inferring viral tropism from genotype with massively parallel sequencing; qualitative and quantitative analysis
In: Antiviral Therapy, A101

Poster

2008

[Verheyen, Jens]
Altmann, Andre
[Knops, Elena]
[Schülter, Eugen]
[Sichtig, Nadine]
[Reuter, Stefan]
[Fätkenheuer, Gerd]
[Pfister, Herbert]
[Kaiser, Rolf]

Relevance of HIV gag cleavage site mutations in failures of protease inhibitor therapies
In: Antiviral Therapy, A53

Poster

2008

Proceedings Article

2008

[Rosen-Zvi, Michal]
[Schülter, Eugen]
Altmann, Andre
[Sierra-Aragon, Saleta]
[Zazzi, Maurizio]
[Sönnerborg, Anders]
[Oette, Mark]
Lengauer, Thomas
[Kaiser, Rolf]

Sustaining lamivudine/emtricitabine, abacavir, zidovudine or atazanavir from a previous treatment shows a clinical benefit
In: Antiviral Therapy, A86

Poster

2008

The EuResist approach for predicting response to anti HIV-1 therapy
In: Reviews in Antiviral Therapy, 107

Poster

2007

Lengauer, Thomas
Sander, Oliver
[Sierra, Saleta]
Thielen, Alexander
[Kaiser, Rolf]

Bioinformatics prediction of HIV coreceptor usage
In: Nature Biotechnology [25], 1407-1410

Journal Article

2007

EuResist: exploration of multiple modeling techniques for prediction of response to treatment
In: Proceedings of the 5th European HIV Drug Resistance Workshop, -

Poster

2007

Fifteen years of env C2V3C3 evolution in six individuals clonally infected with human immunodeficiency virus type 1
In: Journal of Medical Virology [79], 1629-1639

Journal Article

2007

[Sierra, Saleta]
[Kaiser, Rolf]
Thielen, Alexander
Lengauer, Thomas

Genotypic coreceptor analysis.
In: European Journal of Medical Research [12], 453-462

Journal Article

2007

Altmann, Andre
[Beerenwinkel, Niko]
Sing, Tobias
Savenkov, Igor
[Däumer, Martin]
[Kaiser, Rolf]
[Rhee, Soo-Yon]
[Fessel, W Jeffrey]
[Shafer, Robert W]
Lengauer, Thomas

Improved prediction of response to antiretroviral combination therapy using the genetic barrier to drug resistance
In: Antiviral Therapy [12], 169-178

Journal Article

2007

Inferring virological response from genotype: with or without predicted phenotypes?
In: Proceedings of the 16th International HIV Drug Resistance Workshop, S169

Poster

2007

Sing, Tobias
Low, Andrew J.
Beerenwinkel, Niko
Sander, Oliver
[Cheung, Peter K.]
Domingues, Francisco S.
Büch, Joachim
[Däumer, Martin]
[Kaiser, Rolf]
Lengauer, Thomas
[Harrigan, P. Richard]

Predicting HIV coreceptor usage on the basis of genetic and clinical covariates
In: Antiviral Therapy [12], 1097-1106

Journal Article

2007

Altmann, Andre
[Däumer, Martin]
Sing, Tobias
[Beerenwinkel, Niko]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas

Validation of geno2pheno and THEO on a large independent clinical dataset
In: Proceedings of the 5th European HIV Drug Resistance Workshop, -

Poster

2006

Roomp, Kirsten
Beerenwinkel, Niko
Sing, Tobias
[Schülter, Eugen]
Büch, Joachim
[Sierra-Aragon, Saleta]
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
Lengauer, Thomas
[Selbig, Joachim]

Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV
In: Lecture Notes in Computer Science [4075], 185-194

Journal Article

2006

Compensatory mutations at the HIV cleavage sites p7/p1 and p1/p6-gag in therapy-naive and therapy-experienced patients
In: Antiviral Therapy [11], 879-887

Journal Article

2006

[Lehmann, Clara]
[Däumer, Martin]
[Bousaad, Ibrahim]
Sing, Tobias
[Beerenwinkel, Niko]
Lengauer, Thomas
[Schmeisser, Norbert]
[Wyen, Christoph]
[Fätkenheuer, Gerd]
[Kaiser, Rolf]

Stable coreceptor usage of HIV in patients with ongoing treatment failure on HAART
In: Journal of Clinical Virology [37], 300-304

Journal Article

2005

Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
In: Knowledge Discovery in Databases: PKDD 2005., 285-296

Proceedings Article

2005

Computational methods for the design of effective therapies against drug resistant HIV strains
In: Bioinformatics [21], 3943-3950

Journal Article

2005

Beerenwinkel, Niko
[Däumer, Martin]
Sing, Tobias
Rahnenführer, Jörg
Lengauer, Thomas
[Selbig, Joachim]
[Hoffmann, Daniel]
[Kaiser, Rolf]

Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
In: The Journal of Infectious Diseases [191], 1953-1960

Journal Article

2005

Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy
In: J Clin Virol [34], 277-287

Journal Article

2005

Sing, Tobias
Beerenwinkel, Niko
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Däumer, Martin]
Lengauer, Thomas

Poster

2005

Beerenwinkel, Niko
Rahnenführer, Jörg
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Selbig, Joachim]
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: Journal of Computational Biology [12], 584-598

Journal Article

2005

Beerenwinkel, Niko
Rahnenführer, Jörg
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Mtreemix: a software package for learning and using mixture models of mutagenetic trees
In: Bioinformatics [21], 2106-2107

Journal Article

2005

[Kaiser, Rolf]
[Boussaad, Ibo]
[Lehmann, C.]
[Däumer, Martin]
Sing, Tobias
[Schmeisser, N.]
[Wyen, C.]
Fätkenheuer, Gerd

Stable coreceptor usage of HIV-1 in patients with ongoing treatment failure on HAART
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -

Proceedings Article

2004

Beerenwinkel, Niko
Sing, Tobias
[Däumer, Martin]
[Kaiser, Rolf]
Lengauer, Thomas

Computing the genetic barrier
In: XII International HIV Drug resistance Workshop, S125-S125

Proceedings Article

2004

Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas

Learning multiple evolutionary pathways from cross-sectional data
In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, 36-44

Proceedings Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Selbig, Joachim]
Lengauer, Thomas

Bioinformatikmethoden für die Optimierung antiviraler Kombinationstherapien
In: MPG Jahrbuch, 481-486

Part of a Book

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Estimating effective drug combinations against drug-resistant mutants from genotypes
In: Proceedings of the 1st European HIV Drug Resistamce Workshop, 18-18

Proceedings Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Oette, Mark]
[Korn, Klaus]
[Hoffmann, Daniel]
[Kaiser, Rolf]
Lengauer, Thomas
[Selbig, Joachim]
[Walter, Hauke]

Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes
In: Nucleic Acids Research [31], 3850-3855

Journal Article

2003

Beerenwinkel, Niko
Lengauer, Thomas
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]

Methods for optimizing antiviral combination therapies
In: Bioinformatics [19], i16-i25

Journal Article

2003

[Wolf, Katharina]
[Walter, Hauke]
Beerenwinkel, Niko
[Keulen, Wilco]
[Kaiser, Rolf]
[Hoffmann, Daniel]
Lengauer, Thomas
[Selbig, Joachim]
[Vandamme, Anne-Mieke]
[Korn, Klaus]
[Schmidt, Barbara]

Tenofovir resistance and resensitization
In: Antimicrobial Agents and Chemotherapy [47], 3478-3484

Journal Article

2003

Beerenwinkel, Niko
[Kaiser, Rolf]
Rahnenführer, Jörg
[Däumer, Martin]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Tree models for the evolution of drug resistance
In: XII International HIV Drug resistance Workshop, S107-S107

Proceedings Article

2002

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Diversity and complexity of HIV-1drug resistance: A bioinformatics approach to predicting phenotype from genotype
In: Proceedings of the National Academy of Sciences [99], 8271-8276

Journal Article

2002

Geno2pheno is predictive of short-term virological response
In: Proceedings from the 5th International Workshop on HIV Drug Resistance & Treatment Strategies, 74-74

Proceedings Article

2002

Beerenwinkel, Niko
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Quantitative phenotype prediction by support vector machines
In: Proceedings from the 5th International Workshop on HIV Drug resistance & Treatment Strategies, 97

Proceedings Article

2001

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Geno2pheno: A system for the interpretation of genotypic HIV Drug resistance tests
In: IEEE Intelligent Systems [16], 35-41

Journal Article

2001

Beerenwinkel, Niko
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Korn, Klaus]
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Selbig, Joachim]

Neue Wege zur Optimierung von Anti-HIV Therapien
In: BIOforum [24], 912-914

Journal Article

Kaiser, Rolf (ed.)

2004

Beerenwinkel, Niko

Das Arevir-Projekt : neue Wege zur Optimierung von Anti-HIV-Therapien
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 94-98

Part of a Book

2004

Beerenwinkel, Niko

Methoden zur Interpretation genotypischer Resistenztests
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 66-68

Part of a Book

Kaiser, R.

2011

Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE study)
In: HIV Medicine [12], 211-218

Journal Article

2007

[Ahlenstiel, G.]
Roomp, Kirsten
Däumer, Martin
[Nattermann, T.]
[Vogel, M.]
[Rockstroh, J.K.]
Beerenwinkel, Niko
Kaiser, R.
[Nischalke, H.-D.]
[Sauerbruch, T.]
Lengauer, Thomas
[Spengler, U.]

Selective pressures of HLA genotypes and antiviral therapy on human immunodeficiency virus type 1 sequence mutation at a population level
In: Clinical and Vaccine Immunology [14], 1266-1273

Journal Article

2001

Lengauer, Thomas
[Beerenwinkel, Niko]
[Schmidt, B.]
[Walter, H.]
[Kaiser, R.]
[Hoffmann, D.]
[Korn, K.]
[Selbig, J.]

Geno2pheno: a new machine learning approach to predicting phenotypic drug resistance from genotype
In: Antiviral Therapy [6], 104

Journal Article

Kaiser, R. (ed.)

2007

European Journal of Medical Research

Journal

Kai, Wang

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Kalaghatgi, Prabhav

2013

[Röttger, Richard]
Kalaghatgi, Prabhav
[Sun, Peng]
[de Castro Soares, Siomar]
[Azevedo, Vasco]
[Wittkop, Tobias]
[Baumbach, Jan]

Density Parameter Estimation for Finding Clusters of Homologous Proteins - Tracing Actinobacterial Pathogenicity Life Styles
In: Bioinformatics [29], 215-222

Journal Article

2013

Kalaghatgi, Prabhav
Lawyer, Glenn

Inter-country mixing in HIV transmission clusters: a pan-European phylodynamics study
In: Abstract Book 11th European HIV & Hepatitis Workshop, 9

Poster

2012

Kalaghatgi, Prabhav

A Phylodynamic Study of HIV Transmission Networks in Europe
Universität des Saarlandes

Thesis - Masters thesis

2012

Pauling, Josch
Röttger, Richard
[Neuner, Andreas]
[Salgado, Heladia]
[Collado-Vides, Julio]
Kalaghatgi, Prabhav
[Azevedo, Vasco]
[Tauch, Andreas]
[Pühler, Alfred]
Baumbach, Jan

On the trail of EHEC/EAEC - unraveling the gene regulatory networks of human pathogenic Escherichia coli bacteria
In: Integrative Biology [4], 728-733

Journal Article

Kalinina, Olga

2013

Kalinina, Olga
Pfeifer, Nico
Lengauer, Thomas

Modelling binding between CCR5 and CXCR4 receptors and their ligands suggests the surface electrostatic potential of the co-receptor to be a key player in the HIV-1 tropism
In: Retrovirology [10], 130

Journal Article

Kalinina, Olga V.

2012

Kalinina, Olga V.
[Oberwinkler, Heike]
[Glass, Bärbel]
[Kräusslich, Hans-Georg]
[Russell, Robert B.]
[Briggs, John A. G.]

Computational Identification of Novel Amino-Acid Interactions in HIV Gag via Correlated Evolution
In: PLoS ONE [7], e42468,1-e42468,5

Electronic Journal Article

Kaminski, Naftali

2013

Schulz, Marcel Holger
[Pandit, Kusum V]
[Lino Cardenas, Christian L]
[Ambalavanan,Namasivayam]
[Kaminski, Naftali]
[Bar-Joseph, Ziv]

Reconstructing dynamic microRNA-regulated interaction networks
In: Proceedings of the National Academy of Sciences of the United States [110], 15686–15691

Journal Article

Kämper, Andreas

2007

Steffen, Andreas
[Karasz, Maximilian]
[Thiele, Carolin]
Lengauer, Thomas
Kämper, Andreas
[Wenz, Gerhard]
[Apostolakis, Joannis]

Journal Article

2007

Steffen, Andreas
[Thiele, Carolin]
[Tietze, Simon]
[Strassnig, Christian]
Kämper, Andreas
Lengauer, Thomas
[Wenz, Gerhard]
[Apostolakis, Joannis]

Improved cyclodextrin-based receptors for camptothecin by inverse virtual screening
In: Chemistry [13], 6801-6809

Journal Article

2007

Kämper, Andreas
[Rognan, Didier]
Lengauer, Thomas

Lead Identification by Virtual Screening
In: Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular Interactions, 651-704

Part of a Book

2006

Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas

Flexible Docking of Ligands into Synthetic Receptors Using a Two-Sided Incremental Construction Algorithm
In: Journal of Chemical Information and Modeling [46], 1695-1703

Journal Article

2006

Kämper, Andreas
[Apostolakis, Joannis]
[Rarey, Matthias]
[Marian, Christel Maria]
Lengauer, Thomas

Fully Automated Flexible Docking of Ligands into Flexible Synthetic Receptors Using Forward and Inverse Docking Strategies
In: Journal of Chemical Information and Modeling [46], 903-911

Journal Article

2006

Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas

Virtual screening for guest molecules of a biosensor
In: Biosensors 2006: The ninth world congress on biosensors, O66

Proceedings Article

2005

Kämper, Andreas
Kaspar, Melanie
Lengauer, Thomas

Efficient conformational analysis of synthetic receptors with macrocyclic and fused ring systems
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O4

Proceedings Article

2005

Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas

FlexR - A new tool for predicting the structure of synthetic host-guest complexes
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O7

Proceedings Article

2004

Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas

Development of a new tool for predicting the structure of host-guest complexes
In: Proceedings of the 2nd Summer School Medicinal Chemistry Regensburg 2004, 83

Poster

2004

Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas

FlexR - Predicting the structure of host-guest complexes
In: Proceedings of the Annual Meeting of the German Pharmaceutical Society - Joint Meeting 2004 (DPhG 2004), 130

Poster

2003

Kämper, Andreas
Lengauer, Thomas

ECLIPPSE: Environment for Chemical Library Inspection, Pre- and Postprocessing, and Screening Evaluation. User Guide

Manual

2003

Kämper, Andreas
Lengauer, Thomas

Virtual Screening for novel Urease Inhibitors
In: Proceedings of the International Workshop on New Approaches in Drug Design & Discovery, 39

Poster

2002

Kämper, Andreas
[Apostolakis, Joannis]
Lengauer, Thomas

Docking of Bacterial Cell-Wall Fragments into Glycopeptide Antibiotics
In: From Genes to Drugs via Crystallography: 33rd crytallographic course at the E. Majorana Center, 49

Poster

2002

Kämper, Andreas
Lengauer, Thomas

Docking of Ligands into Molecular Tweezers and Molecular Clips
In: Workshop of the SFB 624 'Templates', ?-?

Poster

2001

Kämper, Andreas
[Apostolakis, Joannis]
[Rarey, Matthias]
[Marian, Christel Maria]
Lengauer, Thomas

Docking of Ligands into Artificial Receptors

Miscellaneous

2001

[Kämper, Andreas]
[Apostolakis, Joannis]
[Rarey, Matthias]
[Marian, Christel Maria]
[Lengauer, Thomas]

Docking of Ligands into Artificial Receptors
In: Electronically Excited Molecules: Structure and Dynamics, 37th Symposium for Theoretical Chemistry, P76

Proceedings Article

Kamp, Christel

2010

[Kamp, Christel]
[Wolf, Timo]
[Bravo, Ignacio G]
[Kraus, Benjamin]
[Krause, Birgit]
[Neumann, Britta]
[Winskowsky, Gudrun]
Thielen, Alexander
[Werner, Albrecht]
[Schnierle, Barbara S]

Decreased HIV diversity after allogeneic stem cell transplantation of an HIV-1 infected patient: a case report.
In: Virology Journal [7], 55,1-55,9

Electronic Journal Article

Kamradt, Jörn

2007

[Kamradt, Jörn]
[Jung, Volker]
[Wahrheit, Kerstin]
Tolosi, Laura
Rahnenführer, Jörg
[Schilling, Martin]
[Walker, Robert]
[Davis, Sean]
[Stöckle, Michael]
[Meltzer, Paul]
[Wullich, Bernd]

Detection of Novel Amplicons in Prostate Cancer by Comprehensive Genomic Profiling of Prostate Cancer Cell Lines Using Oligonucleotide-Based ArrayCGH
In: PLoS ONE [2], e769

Electronic Journal Article

Kanehisa, M. (ed.)

2004

Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computional Biology 2004 (ISMB/ECCB 2004)

Proceedings

Karasz, Maximilian

2007

Steffen, Andreas
[Karasz, Maximilian]
[Thiele, Carolin]
Lengauer, Thomas
Kämper, Andreas
[Wenz, Gerhard]
[Apostolakis, Joannis]

Journal Article

Karey, Ursel

2011

[Hofmann, Wolf Peter]
[Chung, Tje Lin]
[Osbahr, Carola]
[Susser, Simone]
[Karey, Ursel]
[Mihm, Ulrike]
Welsch, Christoph
[Lötsch, Jörn]
[Sarrazin, Christoph]
[Zeuzem, Stefan]
[Herrmann, Eva]

Impact of ribavirin on HCV replicon RNA decline during treatment with interferon-α and the protease inhibitors boceprevir or telaprevir
In: Antiviral Therapy [16], 695-704

Journal Article

Karey, Ursula

2009

Characterization of resistance to the protease inhibitor boceprevir in hepatitis C virus-infected patients.
In: Hepatology [50], 1709-1718

Journal Article

Karlsen, Tom H.

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347

Journal Article

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

2010

Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL)
In: Nature Genetics [42], 292-294

Journal Article

2010

Genome-wide association study identifies a psoriasis susceptibility locus at TRAF3IP2
In: Nature Genetics [42], 991-995

Journal Article

2008

Sequence variants in IL10, ARPC2, and multiple other loci contribute to ulcerative colitis
In: Nature Genetics [40], 1319-1323

Journal Article

Kartashev, Vladimir

2010

Short Communication: Selection of Thymidine Analogue Resitance Mutational Patterns in Children from a Common HIV Type 1 Subtype G Source
In: AIDS Research and Human Retroviruses [26], 275-278

Journal Article

Kashima, Hisashi

2010

Saigo, Hiroto
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[Kashima, Hisashi]
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Reaction graph kernels predict EC numbers of unknown enzymatic reactions in plant secondary metabolism
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Electronic Journal Article

Kasiem, Mobien M. A.

2008

[Van Ooijen, Gerben]
Mayr, Gabriele
[Kasiem, Mobien M. A.]
Albrecht, Mario
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Structure-function analysis of the NB-ARC domain of plant disease resistance proteins
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Journal Article

Kaspar, Melanie

2006

Kaspar, Melanie

Automated conformational analysis of macrocyclic ring systems
Universität des Saarlandes

Thesis - Masters thesis

2005

Kaspar, Melanie

Conformational Analysis of Macrocyclic Ring Systems
Universität des Saarlandes

Thesis - Bachelor thesis

2005

Kämper, Andreas
Kaspar, Melanie
Lengauer, Thomas

Efficient conformational analysis of synthetic receptors with macrocyclic and fused ring systems
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O4

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Kastelein, J. J. P.

1999

Mutations in the ABC1 gene in familial HDL deficiency with defective cholesterol efflux
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Roomp, Kirsten
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ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
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2002

Truncation mutations in ABCA1 suppress normal upregulation of full-length ABCA1 by 9-cis-retinoic acid and 22-R-hydroxycholesterol
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Journal Article

2001

Common genetic variation in ABCA1 is associated with altered lipoprotein levels and a modified risk for coronary artery disease
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Journal Article

2000

Age and residual cholesterol efflux affect HDL cholesterol levels and coronary artery disease in ABCA1 heterozygotes
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1999

Mutations in ABC1 in Tangier disease and familial high-density lipoprotein
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Journal Article

Kaufmann, Stefanie

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kaul, Artur

2011

Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment
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Journal Article

Kayser, Manfred

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
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Journal Article

Keith, Tim

2007

Systematic association mapping identifies NELL1 as a novel IBD disease gene
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Journal Article

Keller, Andreas

2013

Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
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Keller, Beat

2010

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Mayr, Gabriele
Albrecht, Mario
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Intragenic allele pyramiding combines different specificities of wheat Pm3 resistance alleles
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Kelso, Janet

2012

[Rost, Burkhard]
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Lengauer, Thomas
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Paving the future: finding suitable ISMB venues
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Journal Article

Kent, Carmel

2007

EuResist: exploration of multiple modeling techniques for prediction of response to treatment
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Poster

Kerren, Andreas

2010

Albrecht, Mario
[Kerren, Andreas]
[Klein, Karsten]
[Kohlbacher, Oliver]
[Mutzel, Petra]
[Paul, Wolfgang]
[Schreiber, Falk]
[Wybrow, Michael]

On open problems in biological network visualization
In: Graph Drawing : 17th International Symposium, GD 2009, 256-267

Proceedings Article

Kerrien, Samuel

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

2007

The implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500

Journal Article

Kerscher, Tamara

2007

Variants in a novel epidermal collagen gene (COL29A1) are associated with atopic dermatitis
In: PLoS Biology [5], e242.1952-1961

Journal Article

Kerssemakers, Jules

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

Ketter, Ralf

2007

[Ketter, Ralf]
[Urbschat, Steffi]
[Henn, Wolfram]
[Feiden, Wolfgang]
Beerenwinkel, Niko
Lengauer, Thomas
[Steudel, Wolf-Ingo]
[Zang, Klaus D.]
Rahnenführer, Jörg

Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas
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2007

[Ketter, Ralf]
[Kim, Yoo-Jin]
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Rahnenführer, Jörg
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[Zang, Klaus D.]
[Henn, Wolfram]

Hyperdiploidy defines a distinct cytogenetic entity of meningiomas
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Journal Article

2005

Patients with high grade gliomas harboring delections of chromosomes 9p and 10q benefit from temozolomide treatment
In: Neoplasia [7], 883-893

Journal Article

Keulen, Wilco

2003

[Wolf, Katharina]
[Walter, Hauke]
Beerenwinkel, Niko
[Keulen, Wilco]
[Kaiser, Rolf]
[Hoffmann, Daniel]
Lengauer, Thomas
[Selbig, Joachim]
[Vandamme, Anne-Mieke]
[Korn, Klaus]
[Schmidt, Barbara]

Tenofovir resistance and resensitization
In: Antimicrobial Agents and Chemotherapy [47], 3478-3484

Journal Article

Khadake, Jyoti

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

Kielbasa, Szymon M.

2009

Bozek, Kasia
[Relógio, Angela]
[Kielbasa, Szymon M.]
[Heine, Markus]
[Dame, Christof]
[Kramer, Achim]
[Herzel, Hanspeter]

Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12

Electronic Journal Article

Kiening, Michael

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kießlich, O.

2004

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
In: Bioinformatics [20], 268-270

Journal Article

Kihara, Daisuke

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kim, Carla F.

2011

Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
In: Cell Stem Cell [9], 272-280

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Kim, Seungtaek

2012

Welsch, Christoph
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[Shimakami, Testsuro]
[Domingues, Francisco S.]
[Kim, Seungtaek]
[Lemon, Stanley, M.]
[Antes, Iris]

Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants
of the NS3 Serine Protease
In: Antimicrobial Agents and Chemotherapy [56], 1907-1915

Journal Article

Kim, Tae-min

2011

Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
In: Cell Stem Cell [9], 272-280

Journal Article

Kim, Yoo-Jin

2007

[Ketter, Ralf]
[Kim, Yoo-Jin]
[Storck, Simone]
Rahnenführer, Jörg
[Romeike, Bernd F.M.]
[Steudel, Wolf-Ingo]
[Zang, Klaus D.]
[Henn, Wolfram]

Hyperdiploidy defines a distinct cytogenetic entity of meningiomas
In: Journal of Neuro-Oncology [83], 213-221

Journal Article

Kippax, Susan (ed.)

2014

Pironti, Alejandro
Pfeifer, Nico
[Kaiser, Rolf]
[Walter, Hauke]
Lengauer, Thomas

Improved therapy-success prediction with GSS estimated from clinical HIV-1 sequences
In: Abstract Supplement of the HIV Drug Therapy Glasgow Congress 2014, 155

Poster

2012

Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156

Poster

2012

HIV2EU: supporting standardized HIV-2 drug resistance interpretation in Europe
In: Journal of the International AIDS Society, 135

Poster

2012

Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102

Poster

Kircher, Martin

2008

Kircher, Martin
Bock, Christoph
Paulsen, Martina

Structural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region
In: BMC Genomics [9], 346

Journal Article

2007

Kircher, Martin

In silico analysis of microRNA genes on human chromosome 14 and mouse chromosome 12
Universität des Saarlandes

Thesis - Masters thesis

Kiskinis, Evangelos

2012

[Mekhubad, Shila]
Bock, Christoph
[de Boer, A. Sophie]
[Kiskinis, Evangelos]
[Meissner, Alexander]
[Eggan, Kevin]

Erosion of dosage compensation impacts human iPSC disease modeling
In: Cell Stem Cell [10], 595-609

Journal Article

2011

Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines
In: Cell [144], 439-452

Journal Article

Klau, Gunnar W.

2010

[Wohlers, Inken]
Domingues, Francisco S.
[Klau, Gunnar W.]

Towards optimal alignment of protein structure distance matrices
In: Bioinformatics [26], 2273-2280

Journal Article

Kleinkauf, Niels

2012

HIV-GRADE: A Publicly Available, Rules-Based Drug Resistance Interpretation Algorithm Integrating Bioinformatic Knowledge
In: Intervirology [55], 102-107

Journal Article

Klein, Christian D.

2005

[Ulmschneider, Sarah]
[Mueller-Vieira, Ursula]
[Mitrenga, Markus]
[Hartmann, Rolf W.]
[Oberwinkler-Marchais, S]
[Klein, Christian D.]
[Bureik, M.]
[Bernhardt, R.]
Antes, Iris
Lengauer, Thomas

Synthesis and Evaluation of Imidazolylmethylenetetrahydronaphthalenes and Imidazolylmethyleneindanes: Potent Inhibitors of Aldosterone Synthase
In: Journal of Medicinal Chemistry [48], 1796-1805

Journal Article

2005

[Ulmschneider, Sarah]
[Mueller-Vieira, Ursula]
[Klein, Christian D.]
Antes, Iris
Lengauer, Thomas
[Hartmann, Rolf W.]

Synthesis and Evaluation of Pyridylmethylene-tetrahydronaphthalenes and -indanes: Potent and Selective Inhibitors of Aldosterone Synthase (CYP11B2)
In: Journal of Medicinal Chemistry [48], 4489-4490

Journal Article

Klein, Christine

2013

Profiling of parkin-binding partners using tandem affinity purification
In: PLoS ONE [8], 1-17

Journal Article

Klein, Karsten

2011

Doncheva, Nadezhda T.
[Klein, Karsten]
Domingues, Francisco S.
Albrecht, Mario

Analyzing and visualizing residue networks of protein structures
In: Trends in Biochemical Sciences [36], 179-182

Journal Article

2010

Albrecht, Mario
[Kerren, Andreas]
[Klein, Karsten]
[Kohlbacher, Oliver]
[Mutzel, Petra]
[Paul, Wolfgang]
[Schreiber, Falk]
[Wybrow, Michael]

On open problems in biological network visualization
In: Graph Drawing : 17th International Symposium, GD 2009, 256-267

Proceedings Article

2008

Emig, Dorothea
[Cline, Melissa S.]
[Klein, Karsten]
[Kunert, Anne]
[Mutzel, Petra]
Lengauer, Thomas
Albrecht, Mario

Integrative visual analysis of the effects of alternative splicing on protein domain interaction networks
In: Journal of Integrative Bioinformatics [5], 101-115

Journal Article

2008

Emig, Dorothea
[Klein, Karsten]
[Kunert, Anne]
[Mutzel, Petra]
Albrecht, Mario

Visualizing domain interaction networks and the impact of alternative splicing events
In: Proceedings of the 5th International Conference on BioMedical Visualization (MediVis): Information Visualization in Medical and Biomedical Informatics, 36-43

Proceedings Article

Klein, Michael L.

2001

Antes, Iris
[Klein, Michael L.]

The formation of a β-Peptide/DPC-micelle complex studied by MD simulations

Miscellaneous

Klein, Rolf

2011

[Däumer, Martin]
[Kaiser, Rolf]
[Klein, Rolf]
Lengauer, Thomas
[Thiele, Bernhard]
Thielen, Alexander

Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis
In: BMC Medical Informatics and Decision Making [11], 30,1-30,8

Electronic Journal Article

2010

Short Communication: Selection of Thymidine Analogue Resitance Mutational Patterns in Children from a Common HIV Type 1 Subtype G Source
In: AIDS Research and Human Retroviruses [26], 275-278

Journal Article

2008

Däumer, Martin
[Kaiser, Rolf]
[Klein, Rolf]
Lengauer, Thomas
[Thiele, Bernhard]
Thielen, Alexander

Inferring viral tropism from genotype with massively parallel sequencing; qualitative and quantitative analysis
In: Antiviral Therapy, A101

Poster

Kleywegt, Gerard J.

2011

PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529

Journal Article

Klingen, Thorsten

2012

[Klingen, Thorsten]

Automatic Recombination Analysis Using Recoo and Mebitoo
Universität des Saarlandes

Thesis - Bachelor thesis

Klöppel, Günther

2005

Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787

Journal Article

Klumpp, Dieter (ed.)

2006

Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas

Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99

Part of a Book

Knapp, David JHF

2011

Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742

Journal Article

Knechten, Heribert

2012

[Reuter, Stefan]
[Oette, Mark]
[Kaiser, Rolf]
Lengauer, Thomas
[Fätkenheuer, Gerd]
[Rockstroh, Jürgen]
[Knechten, Heribert]
[Häussinger, Dieter]

Risk factors associated with older age in treatment-naive HIV-positive patients
In: Intervirology [55], 147-153

Journal Article

Knoepfel, Stefanie

2011

[Knoepfel, Stefanie]
[Di Giallonardoc, Francesca]
[Däumer, Martin]
Thielen, Alexander
[Metzner, Karin J]

In-depth analysis of G-to-A hypermutation rate in HIV-1 env DNA induced by endogenous APOBEC3 proteins using massively parallel sequencing
In: Journal of Virological Methods [71], 329-338

Journal Article

Knops, Elena

2008

[Verheyen, Jens]
Altmann, Andre
[Knops, Elena]
[Schülter, Eugen]
[Sichtig, Nadine]
[Reuter, Stefan]
[Fätkenheuer, Gerd]
[Pfister, Herbert]
[Kaiser, Rolf]

Relevance of HIV gag cleavage site mutations in failures of protease inhibitor therapies
In: Antiviral Therapy, A53

Poster

Koch, Andreas

2005

Sarcoidosis is associated with a truncating splice site mutation in BTNL2
In: Nature Genetics [37], 357-364

Journal Article

Koch, W. Andreas

2004

Genetic variation in DLG5 is associated with inflammatory bowel disease
In: Nature Genetics [36], 376-380

Journal Article

Kofler, Michael

2005

[Gu, Wei]
[Kofler, Michael]
Antes, Iris
[Freund, Christian]
[Helms, Volkhard]

Alternative Binding Modes of Polyproline Peptides Binding to the GYF Domain
In: Biochemistry [44], 6404-6415

Journal Article

Kohlbacher, Oliver

2013

Charting a dynamic DNA methylation landscape of the human genome
In: Nature [500], 477–481

Journal Article

2010

Albrecht, Mario
[Kerren, Andreas]
[Klein, Karsten]
[Kohlbacher, Oliver]
[Mutzel, Petra]
[Paul, Wolfgang]
[Schreiber, Falk]
[Wybrow, Michael]

On open problems in biological network visualization
In: Graph Drawing : 17th International Symposium, GD 2009, 256-267

Proceedings Article

2006

[Neumann, Dirk]
[Kohlbacher, Oliver]
[Merkwirth, Christian]
Lengauer, Thomas

A Fully Computational Model for Predicting Percutaneous Drug Absorption
In: Journal of Chemical Information and Modeling [1], 424-429

Journal Article

2006

[Neumann, Dirk]
[Kohlbacher, Oliver]
[Merkwirth, Christian]
Lengauer, Thomas

Prediction of percutaneous drug absorption
In: Journal of Chemical Information and Modeling [1], 424-429

Journal Article

Kohlbacher, Oliver (ed.)

2006

Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario

Functional evaluation of domain-domain interactions and human protein interaction networks
In: German Conference on Bioinformatics (GCB 2006), 115-126

Proceedings Article

Koker, Mirjam

2009

Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions
In: Journal of Clinical Investigation [119], 1727-1740

Journal Article

Kokocinski, F

2013

Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84

Journal Article

Kolibal, S.

2004

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
In: Bioinformatics [20], 268-270

Journal Article

König, Eva

2012

König, Eva

Automatic detection of loss of heterozygosity in cancer
Universität des Saarlandes

Thesis - Masters thesis

2010

König, Eva

Env-wide analysis of coreceptor determining sites and subtype-specific differences in HIV-1
Universität des Saarlandes

Thesis - Bachelor thesis

Konig, Inke R.

2013

Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677

Journal Article

Kono, Ken

2009

[Kono, Ken]
Bozek, Kasia
Domingues, Francisco S.
[Shioda, Tatsuo]
[Nakayama, Emi E.]

Impact of a single amino acid in the variable region 2 of the Old World monkey TRIM5alpha SPRY (B30.2) domain on anti-human immunodeficiency virus type 2 activity
In: Virology [388], 160-168

Journal Article

Koop, B

1999

Mutations in ABC1 in Tangier disease and familial high-density lipoprotein
In: Nature Genetics [22], 336-45

Journal Article

Kopczynski, Dominik

2013

Hauschild, Anne-Christin
[Kopczynski, Dominik]
[D'Addario, Marianna]
[Baumbach, Joerg Ingo]
[Rahmann, Sven]
Baumbach, Jan

Peak Detection Method Evaluation for Ion Mobility Spectrometry by using Machine Learning Approaches
In: Metabolites [3], 277-293

Electronic Journal Article

Korbel, J.O.

2004

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
In: Bioinformatics [20], 268-270

Journal Article

Korbel, Ulli S.

2007

Korbel, Ulli S.

Identification of Symmetries in Molecules and Complexes
Universität des Saarlandes

Thesis - Masters thesis

Korn, Klaus

2012

HIV-GRADE: A Publicly Available, Rules-Based Drug Resistance Interpretation Algorithm Integrating Bioinformatic Knowledge
In: Intervirology [55], 102-107

Journal Article

2005

Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
In: Knowledge Discovery in Databases: PKDD 2005., 285-296

Proceedings Article

2005

Computational methods for the design of effective therapies against drug resistant HIV strains
In: Bioinformatics [21], 3943-3950

Journal Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]
Lengauer, Thomas

Estimating effective drug combinations against drug-resistant mutants from genotypes
In: Proceedings of the 1st European HIV Drug Resistamce Workshop, 18-18

Proceedings Article

2003

Beerenwinkel, Niko
[Däumer, Martin]
[Oette, Mark]
[Korn, Klaus]
[Hoffmann, Daniel]
[Kaiser, Rolf]
Lengauer, Thomas
[Selbig, Joachim]
[Walter, Hauke]

Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes
In: Nucleic Acids Research [31], 3850-3855

Journal Article

2003

Beerenwinkel, Niko
Lengauer, Thomas
[Däumer, Martin]
[Kaiser, Rolf]
[Walter, Hauke]
[Korn, Klaus]
[Hoffmann, Daniel]
[Selbig, Joachim]

Methods for optimizing antiviral combination therapies
In: Bioinformatics [19], i16-i25

Journal Article

2003

[Wolf, Katharina]
[Walter, Hauke]
Beerenwinkel, Niko
[Keulen, Wilco]
[Kaiser, Rolf]
[Hoffmann, Daniel]
Lengauer, Thomas
[Selbig, Joachim]
[Vandamme, Anne-Mieke]
[Korn, Klaus]
[Schmidt, Barbara]

Tenofovir resistance and resensitization
In: Antimicrobial Agents and Chemotherapy [47], 3478-3484

Journal Article

2002

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Diversity and complexity of HIV-1drug resistance: A bioinformatics approach to predicting phenotype from genotype
In: Proceedings of the National Academy of Sciences [99], 8271-8276

Journal Article

2002

Geno2pheno is predictive of short-term virological response
In: Proceedings from the 5th International Workshop on HIV Drug Resistance & Treatment Strategies, 74-74

Proceedings Article

2002

Beerenwinkel, Niko
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Quantitative phenotype prediction by support vector machines
In: Proceedings from the 5th International Workshop on HIV Drug resistance & Treatment Strategies, 97

Proceedings Article

2001

Beerenwinkel, Niko
[Schmidt, Barbara]
[Walter, Hauke]
[Kaiser, Rolf]
Lengauer, Thomas
[Hoffmann, Daniel]
[Korn, Klaus]
[Selbig, Joachim]

Geno2pheno: A system for the interpretation of genotypic HIV Drug resistance tests
In: IEEE Intelligent Systems [16], 35-41

Journal Article

2001

Beerenwinkel, Niko
[Däumer, Martin]
[Hoffmann, Daniel]
[Kaiser, Rolf]
[Korn, Klaus]
Lengauer, Thomas
[Schmidt, Barbara]
[Walter, Hauke]
[Selbig, Joachim]

Neue Wege zur Optimierung von Anti-HIV Therapien
In: BIOforum [24], 912-914

Journal Article

Korn, K.

2001

Lengauer, Thomas
[Beerenwinkel, Niko]
[Schmidt, B.]
[Walter, H.]
[Kaiser, R.]
[Hoffmann, D.]
[Korn, K.]
[Selbig, J.]

Geno2pheno: a new machine learning approach to predicting phenotypic drug resistance from genotype
In: Antiviral Therapy [6], 104

Journal Article

Koser, Sandra

2012

Koser, Sandra

Reconstructing anecestral methylation states in phylogenetic trees
Universität des Saarlandes

Thesis - Masters thesis

Koskinen, Patrik

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kourmpetis, Yiannis A I

2013

A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227

Journal Article

Kramer, Achim

2009

Bozek, Kasia
[Relógio, Angela]
[Kielbasa, Szymon M.]
[Heine, Markus]
[Dame, Christof]
[Kramer, Achim]
[Herzel, Hanspeter]

Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12

Electronic Journal Article

Krause, Birgit

2010

[Kamp, Christel]
[Wolf, Timo]
[Bravo, Ignacio G]
[Kraus, Benjamin]
[Krause, Birgit]
[Neumann, Britta]
[Winskowsky, Gudrun]
Thielen, Alexander
[Werner, Albrecht]
[Schnierle, Barbara S]

Decreased HIV diversity after allogeneic stem cell transplantation of an HIV-1 infected patient: a case report.
In: Virology Journal [7], 55,1-55,9

Electronic Journal Article

Kräusslich, Hans-Georg

2012

Bozek, Katarzyna
[Eckhardt, Manon]
[Sierra, Saleta]
[Kaiser, Rolf]
[Kräusslich, Hans-Georg]
[Müller, Barbara]
Lengauer, Thomas

An expanded model of HIV cell entry phenotype based on multi-parameter single-cell data
In: Retrovirology [9], 60.1-60.15

Journal Article

2012

Kalinina, Olga V.
[Oberwinkler, Heike]
[Glass, Bärbel]
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