Author, Editor Individual View (MPI-INF D3 Publications)

Publications

MPI-INF D3 Publications

Expand All

Collapse All

Search (Full Text)

Year

Author(s) [non member]

Title

Type

Tan, Aik-Choon

2012

[Fernandez, Agustin F.]
Assenov, Yassen
[Martin-Subero, Jose Ignacio]
[Balint, Balazs]
[Siebert, Reiner]
[Taniguchi, Hiroaki]
[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]
[Monk, David]
[Ballestar, Esteban]
[Ropero, Santiago]
[Martinez, Ramon]
[Sanchez-Carbayo, Marta]
[Prosper, Felipe]
[Agirre, Xabier]
[Fraga, Mario F.]
[Gran˜a, Osvaldo]
[Perez-Jurado, Luis]
[Mora, Jaume]
[Puig, Susana]
[Prat, Jaime]
[Badimon, Lina]
[Puca, Annibale A.]
[Meltzer, Stephen J.]
Lengauer, Thomas
[Bridgewater, John]
Bock, Christoph
[Esteller, Manel]

A DNA methylation fingerprint of 1628 human samples
In: Genome Research [22], 407-419

Journal Article

Tan, Bing

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

Taron, Miquel

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.]
[Brambilla, Elisabeth]
[Field, John K.]
[Roz, Luca]
[Lo Iacono, Marco]
[Scagliotti, Giorgio V.]
[Rosell, Rafael]
[Beer, David G.]
[Esteller,Manel]

A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
In: Journal of Clinical Oncology [31], 4140-4147

Journal Article

Taubert, Jan

2012

Röttger, Richard
[Rueckert, Ulrich]
[Taubert, Jan]
Baumbach, Jan

How Little Do We Actually Know? - On the Size of Gene Regulatory Networks.
In: IEEE/ACM transactions on computational biology and bioinformatics [9], 1293-1300

Journal Article

Tauch, Andreas

2012

Pauling, Josch
Röttger, Richard
[Tauch, Andreas]
[Azevedo, Vasco]
Baumbach, Jan

CoryneRegNet 6.0 - Updated database content, new analysis methods and novel features focusing on community demands
In: Nucleic Acids Research [40], D610-D614

Journal Article

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

2012

[Soares, Siomar C.]
[Abreu, Vinícius A. C.]
[Ramos, Rommel T. J.]
[Cerdeira, Louise]
[Silva, Artur]
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

2011

[Ruiz, Jeronimo C.]
[D'Afonseca, Vivian]
[Silva, Artur]
[Ali, Amjad]
[Pinto, Anne C.]
[Santos, Anderson R.]
[Rocha, Aryanne A. M. C.]
[Lopes, Debora O.]
[Dorella, Fernanda A.]
[Pacheco, Luis G. C.]
[Costa, Marcilia P.]
[Turk, Meritxell Z.]
[Seyffert, Nubia]
[Moraes, Pablo M. R. O.]
[Soares, Siomar C.]
[Almeida, Sintia S.]
[Castro, Thiago L. P.]
[Abreu, Vinicius A. C.]
[Trost, Eva]
Baumbach, Jan
[Tauch, Andreas]
[Schneider, Maria P. C.]
[McCulloch, John]
[Cerdeira, Louise T.]
[Ramos, Rommel T. J.]
[Zerlotini, Adhemar]
[Dominitini, Anderson]
[Resende, Daniela M.]
[Coser, Elisangela M.]
[Oliveira, Luciana M.]
[Pedrosa, Andre L.]
[Vieira, Carlos U.]
[Guimaraes, Claudia T.]
[Bartholomeu, Daniela C.]
[Oliveira, Diana M.]
[Santos, Fabricio R.]
[Rabelo, Elida Mara]
[Lobo, Francisco P.]
[Franco, Gloria R.]
[Costa, Ana Flavia]
[Castro, Ieso M.]
[Dias, Silvia Regina]
[Ferro, Jesus A.]
[Ortega, Jose Miguel]
[Paiva, Luciano V.]
[Goulart, Luiz R.]
[Almeida, Juliana Franco]
[Ferro, Maria Ines]
[Carneiro, Newton P.]
[Falcao, Paula R. K.]
[Grynberg, Priscila]
[Teixeira, Santuza M. R.]
[Brommonschenkel, Sergio]
[Oliveira, Sergio C.]
[Meyer, Roberto]
[Moore, Robert J.]
[Miyoshi, Anderson]
[Oliveira, Guilherme C.]
[Azevedo, Vaco]

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

2011

[Cerdeira, Louise Teixeira]
[Carneir, Aadriana Ribeiro]
[Ramos, Rommel Thiago Juca]
[de Almeida, Sintia Silva]
[D'Afonseca, Vivian]
[Schneider, Maria Paula Cruz]
Baumbach, Jan
[Tauch, Andreas]
[McCulloch, John Anthony]
[Azevedo, Vasco Ariston Carvalho]
[Silva, Aartur]

Rapid hybrid de novo assembly of a microbial genome using only short reads: Corynebacterium pseudotuberculosis I19 as a case study
In: Journal of Microbiological Methods [86], 218-223

Journal Article

Taylor, James

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

Teixeira, Santuza M. R.

2011

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

Tejasvi, Trilokraj

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

Teuber, Gerlinde

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

Teuber, G.

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

Teuber, Markus

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

Teufel, Andreas

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

The International IBD Genetics Consortium,

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

The International PSC Study Group,

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

The UK-PSCSC Consortium,

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

Theißen, J.

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

Thielen, Alex

2011

Lawyer, Glenn
Altmann, André
Thielen, Alex
[Zazzi, Maurizio]
[Sönnerborg, Anders]
Lengauer, Thomas

HIV-1 mutational pathways under multidrug therapy
In: AIDS Research and Therapy [8], 1-13

Journal Article

Thielen, Alexander

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

Thielen, Alexander
Lengauer, Thomas

Geno2pheno[454]: A Web Server for the Prediction of HIV-1 Coreceptor Usage from Next-Generation Sequencing Data
In: Intervirology [55], 113-117

Journal 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

[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

2011

[Codoner, Francisco]
[Pou, Christian]
Thielen, Alexander
[García, Federico]
[Delgado, Rafael]
[Dalmau, David]
[Álvarez-Tejado, Miguel]
[Ruiz, Lidia]
[Clotet, Bonaventura]
[Paredes, Roger]

Added value of deep sequencing relative to population sequencing in heavily pre-treated HIV-1-infected subjects
In: PLoS One [6], e19461,1-e19461,5

Electronic 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

[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

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

Genotypic Analysis of HIV-1 Coreceptor Usage
Universität des Saarlandes

Thesis - PhD thesis

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

[Seclen, Eduardo]
[Soriano, Vincente]
[González, Maria M]
[Gómez, Sagrario]
Thielen, Alexander
[Poveda, Eva]

High Concordance between the Position-Specific Scoring Matrix and Geno2pheno Algorithms for Genotypic Interpretation of HIV-1 Tropism: V3 Length as the Major Cause of Disagreement
In: Journal of Clinical Microbiology [49], 3380-3382

Journal Article

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

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

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

2010

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

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

Journal Article

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

2010

[Codoñer, Francisco M]
[Pou, Christian]
Thielen, Alexander
[García, Federico]
[Delgado, Rafael]
[Dalmau, David]
[Santos, José Ramon]
[Buzón, Maria José]
[Martínez-Picado, Javier Alvarez-Tejado, Miguel]
[Clotet, Bonaventura]
[Ruiz, Lidia]
[Paredes, Roger]

Dynamic escape of pre-existing raltegravir-resistant HIV-1 from raltegravir selection pressure
In: Antiviral Research [88], 281-286

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

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

Lengauer, Thomas
Altmann, André
Thielen, Alexander

Bioinformatische Unterstützung der Auswahl von HIV Therapien
In: Informatik Spektrum [32], 320-331

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

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

[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

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

[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

[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

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

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

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

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

Journal Article

2006

Thielen, Alexander

Prediction of linear B-cell epitopes and MHC class II binding peptides
Eberhardt-Karls-Universität Tübingen

Thesis - Masters thesis

Thielen, Bernhard

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

Thiele, Bernhard

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

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

Thiele, Carolin

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

Thiel, Walter

2002

Antes, Iris
[Thiel, Walter]
[Gunsteren van, Wilfred F.]

Molecular dynamics simulations of photoactive yellow protein (PYP) in three states of its photocycle: a comparison with X-ray and NMR data and analysis of the effects of Glu46 deprotonation and mutation
In: European Biophysics Jounal [31], 504-520

Journal Article

Thilly, William G.

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

Thomas, Roman K.

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

Thompson, R

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

Thompson, Wesley K.

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

Thomsen, Ingo

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

Thoppae, G.

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

Thoresona, Wallace B.

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

Thornton, Janet M.

2008

[Watson, James D.]
[Thornton, Janet M.]
[Tress, Michael L.]
[Lopez, Gonzalo]
[Valencia, Alfonso]
[Redfern, Oliver]
[Orengo, Christine A.]
Sommer, Ingolf
Domingues, Francisco S.

Structure to function
In: Modern Genome Annotation, 239-262

Part of a Book

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

Thornton, J. (ed.)

2004

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

Proceedings

Tian, Weidong

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

Tierling, Sascha

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

2006

Bock, Christoph
[Paulsen, Martina]
[Tierling, Sascha]
[Mikeska, Thomas]
Lengauer, Thomas
[Walter, Jörn]

CpG Island Methylation in Human Lymphocytes Is Highly Correlated with DNA Sequence, Repeats, and Predicted DNA Structure
In: PLoS Genetics [2], 0243-0252

Electronic Journal Article

Tietze, Simon

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

Till, Andreas

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

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

Tolosi, Laura

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

Schelhorn, Sven-Eric
[Fischer, M.]
[Tolosi, Laura]
[Altmüller, J.]
[Nürnberg, P.]
[Pfister, H.]
Lengauer, Thomas
Berthold, F.

Sensitive detection of viral transcripts in human tumor transcriptomes
In: PLOS Computational Biology [9], xx

Journal Article

2012

Tolosi, Laura

Finding Regions of Aberrant DNA Copy Number Associated With Tumor Phenotype
Universität des Saarlandes

Thesis - PhD thesis

2011

Tolosi, Laura
Lengauer, Thomas

Classification with correlated features: unreliability of feature ranking and solutions
In: Bioinformatics [27], 1986-1994

Journal Article

2010

Altmann, André
Tolosi, Laura
Sander, Oliver
Lengauer, Thomas

Permutation importance: an unbiased feature importance measure
In: Bioinformatics [26], 1340-1347

Journal Article

2009

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

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

2006

Tolosi, Laura

Analysis of Array CGH Data for the Estimation of Genetic Tumor Progression
Universität des Saarlandes

Thesis - Masters thesis

Tomazou, Eleni

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

Tomazou, Eleni M.

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

Tong, Xiao

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

Toppo, Stefano

2013

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

Journal Article

2006

Sommer, Ingolf
[Toppo, Stefano]
Sander, Oliver
Lengauer, Thomas
[Tosatto, Silvio C. E.]

Improving the quality of protein structure models by selecting from alignment alternatives
In: BMC Bioinformatics [7], 1-11

Electronic Journal Article

Torda, Andrew E.

2006

[Torda, Andrew E.]
Lengauer, Thomas

Editorial: Selection of papers of the German Conference of Bioinformatics (GCB) 2005
In: Bioinformatics [22], 1

Journal Article

Torgo, L (ed.)

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

Töro, Imre

2012

[Garai, Ágnes]
[Zeke, András]
[Gógl, Gergo]
[Töro, Imre]
[Fördos, Ferenc]
Blankenburg, Hagen
[Bárkai, Tünde]
[Varga, János]
[Alexa, Anita]
Emig, Dorothea
Albrecht, Mario
[Reményi, Attila]

Specificity of linear motifs that bind to a common mitogen-activated protein kinase docking groove
In: Science Signaling [5], ra74,1-ra74,14

Journal Article

Torrents, David

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

Torre, Wenceslao

2013

A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
In: Journal of Clinical Oncology [31], 4140-4147

Journal Article

Tosatto, Silvio C. E.

2006

Sommer, Ingolf
[Toppo, Stefano]
Sander, Oliver
Lengauer, Thomas
[Tosatto, Silvio C. E.]

Improving the quality of protein structure models by selecting from alignment alternatives
In: BMC Bioinformatics [7], 1-11

Electronic Journal Article

Tosatto, Silvio C.E.

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

2003

Albrecht, Mario
[Tosatto, Silvio C.E.]
Lengauer, Thomas
[Valle, Giorgio]

Simple consensus procedures are effective and sufficient in secondary structure prediction
In: Protein Engineering [16], 459-462

Journal Article

Tostesen, 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

Trajkovski, Igor

2004

Trajkovski, Igor

Analysis of protein binding pocket flexibility
Universität des Saarlandes

Thesis - Masters thesis

Tramontano, Anna

2007

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

Journal Article

Trapp, Susanna

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

Traver, Stella

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

Traver, S.

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

Tress, Michael L.

2008

[Watson, James D.]
[Thornton, Janet M.]
[Tress, Michael L.]
[Lopez, Gonzalo]
[Valencia, Alfonso]
[Redfern, Oliver]
[Orengo, Christine A.]
Sommer, Ingolf
Domingues, Francisco S.

Structure to function
In: Modern Genome Annotation, 239-262

Part of a Book

2007

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

Journal Article

Trignetti, Maria

2009

[Trignetti, Maria]
Sing, Tobias
[Svicher, Valentina]
[Santoro, Maria Mercedes]
[Forbici, Federica]
[D'Arrigo, Roberta]
[Bellocchi, Maria Concetta]
[Santoro, Mario]
[Marconi, Patrizia]
[Zaccarelli, Mauro]
[Trotta, Maria Paola]
[Bellagamba, Rita]
[Narciso, Pasquale]
[Antinori, Andrea]
Lengauer, Thomas
[Perno, Carlo Federico]
[Ceccherini-Silberstein, Francesca]

Dynamics of NRTI resistance mutations during therapy interruption
In: AIDS Research and Human Retroviruses [25], 57-64

Journal Article

Trimoulete, Pascale

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

Trimoulet, Pascale

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

Trost, Eva

2012

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

Electronic Journal Article

2011

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

Trotta, Maria Paola

2009

Dynamics of NRTI resistance mutations during therapy interruption
In: AIDS Research and Human Retroviruses [25], 57-64

Journal Article

Truss, Anke

2011

[Wittkop, Tobias]
Emig, Dorothea
[Truss, Anke]
Albrecht, Mario
[Böcker, Sebastian]
Baumbach, Jan

Comprehensive cluster analysis with Transitivity Clustering
In: Nature Protocols [6], 285-295

Journal Article

Tsai, Linus T.-Y.

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

Tschochner, Monika

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

Tsitouras, Charalampos (ed.)

2012

Reppas, Andreas
Lawyer, Glenn

Low k-shells identify bridge elements critical to disease flow in small-world networks
In: Numerical Analysis and Applied Mathematics (ICNAAM 2012), 1426-1429

Proceedings Article

Tsuda, Koji

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

2008

Saigo, Hiroto
[Tsuda, Koji]

Iterative Subgraph Mining for Principal Component Analysis.
In: Proceedings of the IEEE International Conference on Data Mining (ICDM2008), DM934

Proceedings Article

Tsujii, Ken-ichi

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

Tsukamoto, Kosuke

2002

Journal Article

Turk, Meritxell Z.

2011

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

Turner, Anthony P. F. (ed.)

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

Turner, A.P.F. (ed.)

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

Tyers, Mike

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

Tzvetkov, Nikolay

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

Ulivi, G

2007

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

Poster

Ulivi, Giovanni

2009

[Prosperi, Mattia C. F.]
Altmann, André
[Rosen-Zvi, Michal]
[Aharoni, Ehud]
[Gabor, Borgulya]
[Fulop, Bazso]
[Sonnerborg, Anders]
[Schulter, Eugen]
[Struck, Daniel]
[Ulivi, Giovanni]
[Vandamme, Anne-Mieke]
[Vercauteren, Jurgen]
[Zazzi, Maurizio]

Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
In: Antiviral Therapy [14], 433-442

Journal Article

Ullrich, Roland

2009

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

Journal Article

Ulmschneider, Sarah

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

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

Urbschat, Steffi

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

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

Urdinguio, Rocío G.

2012

[Calvanese, Vincenzo]
[Fernandez, Agustín F.]
[Urdinguio, Rocío G.]
[Suarez-Álvarez, Beatriz]
[Mangas, Cristina]
[Pérez-García, Vicente]
[Bueno, Clara]
[Montes, Rosa]
[Ramos-Mejía, Verónica]
[Martínez-Camblor, Pablo]
[Ferrero, Cecilia]
Assenov, Yassen
Bock, Christoph
[Menendez, Pablo]
[Carrera, Ana Clara]
[Lopez-Larrea, Carlos]
[Fraga, Mario F.]

A promoter DNA demethylation landscape of human hematopoietic differentiation
In: Nucleic Acids Research [40], 116-131

Journal Article

Valdez, Hernan

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

Valencia, Alfonso

2012

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

Journal Article

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

2008

[Watson, James D.]
[Thornton, Janet M.]
[Tress, Michael L.]
[Lopez, Gonzalo]
[Valencia, Alfonso]
[Redfern, Oliver]
[Orengo, Christine A.]
Sommer, Ingolf
Domingues, Francisco S.

Structure to function
In: Modern Genome Annotation, 239-262

Part of a Book

2007

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

Journal Article

Valencia, Alfonso (ed.)

2009

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

Part of a Book

2009

Adams, Ben
McHardy, Alice
[Lundegaard, C.]
Lengauer, Thomas

Viral Bioinformatics
In: Modern Genome Annotation - The BioSapiens Network, 429-452

Part of a Book

2008

[Watson, James D.]
[Thornton, Janet M.]
[Tress, Michael L.]
[Lopez, Gonzalo]
[Valencia, Alfonso]
[Redfern, Oliver]
[Orengo, Christine A.]
Sommer, Ingolf
Domingues, Francisco S.

Structure to function
In: Modern Genome Annotation, 239-262

Part of a Book

Valencia, A. (ed.)

2004

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

Proceedings

Valentonyte, Ruta

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

Valle, Giorgio

2003

Albrecht, Mario
[Tosatto, Silvio C.E.]
Lengauer, Thomas
[Valle, Giorgio]

Simple consensus procedures are effective and sufficient in secondary structure prediction
In: Protein Engineering [16], 459-462

Journal Article

Valsesia, A

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

Vamathevan, Jessica

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

Van Craenenbroeck, Elke

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

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

van Dam, M

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

van Dam, M.

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

van de Vijver, David A.

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

Van der Borght, Koen

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

2007

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

Poster

van der Linden, M.

2004

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

Journal Article

van Dijk, Aalt D J

2013

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

Journal Article

Van Duist, Marjan M.

2005

[Van Duist, Marjan M.]
Albrecht, Mario
[Podswiadek, Marta]
[Giachino, Daniela]
Lengauer, Thomas
[Punzi, Leonardo]
[De Marchi, Mario]

A new CARD15 mutation in Blau syndrome
In: European Journal of Human Genetics [13], 742-747

Journal Article

van Heel, David

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

van Laethem, Kristel

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

Van Laethem, K.

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

Van Ooijen, Gerben

2008

[Van Ooijen, Gerben]
Mayr, Gabriele
[Kasiem, Mobien M. A.]
Albrecht, Mario
[Cornelissen, Ben J. C.]
[Takken, Frank L. W.]

Structure-function analysis of the NB-ARC domain of plant disease resistance proteins
In: Journal of Experimental Botany [59], 1383-1397

Journal Article

2008

[Van Ooijen, Gerben]
Mayr, Gabriele
Albrecht, Mario
[Cornelissen, Ben J. C.]
[Takken, Frank L. W.]

Transcomplementation, but not physical association of the CC-NB-ARC and LRR domains of tomato R protein Mi-1.2 is altered by mutations in the ARC2 subdomain
In: Molecular Plant [1], 401-410

Journal Article

van Schooten, Frederik

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

Van Vlijmen, Hermann

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

2007

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

Poster

van Wijland, M

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

Vandamme, Anne-Mieke

2010

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

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

Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
In: Antiviral Therapy [14], 433-442

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

Vandamme, A.-M.

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

Varga, János

2012

[Garai, Ágnes]
[Zeke, András]
[Gógl, Gergo]
[Töro, Imre]
[Fördos, Ferenc]
Blankenburg, Hagen
[Bárkai, Tünde]
[Varga, János]
[Alexa, Anita]
Emig, Dorothea
Albrecht, Mario
[Reményi, Attila]

Specificity of linear motifs that bind to a common mitogen-activated protein kinase docking groove
In: Science Signaling [5], ra74,1-ra74,14

Journal Article

Varnäs, Katarina

2009

[Lawyer, Glenn]
[Nesvåg, Ragnar]
[Varnäs, Katarina]
[Okugawa, Gaku]
[Agartz, Ingrid]

Grey and white matter proportional relationships in the cerebellar vermis altered in schizophrenia
In: Cerebellum [8], 52-60

Journal Article

2009

[Lawyer, Glenn]
[Ferkingstad, Egil]
[Nesvåg, Rangan]
[Varnäs, Katarina]
[Agartz, Ingrid]

Local and covariate-modulated false discovery rates applied in neuroimaging
In: NeuroImage [47], 213-219

Journal Article

Vatn, Morten 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

[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

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

Velagapudi, Vidya R.

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

Velagapudi, VR

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

Velagapudi, V. R.

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

Velankar, Sameer

2011

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

Journal Article

Vellenga, Edo

2012

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

Journal Article

Venner, Eric

2013

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

Journal Article

Vercauteren, Jurgen

2009

Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
In: Antiviral Therapy [14], 433-442

Journal Article

Verhaak, Roel

2009

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

Journal Article

Verheyenb, Jens

2011

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

Journal Article

Verheyen, Jens

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

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

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

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

2011

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

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

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

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

Vermeiren, Hans

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

2007

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

Poster

Vermeire, Séverine

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

2008

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

Journal Article

Verspoor, Karin

2013

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

Journal Article

Verstappen, Griet

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

Vicedo, Esmeralda

2013

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

Journal Article

Vichi, Maurizio (ed.)

2003

Rahnenführer, Jörg

Efficient Clustering Methods for Tumor Classification with Microarrays
In: Proceedings of the 26th Annual Conference of the Gesellschaft für Klassifikation, 670-679

Proceedings Article

Vieira, Carlos U.

2011

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

Villanueva, Alberto

2012

A DNA methylation fingerprint of 1628 human samples
In: Genome Research [22], 407-419

Journal Article

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

Vingron, Martin

2012

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

Journal Article

Vingron, M.

2004

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

Journal Article

Vingron, M. (ed.)

2004

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

Proceedings

Viscah, Michela

2011

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

Journal Article

Visca, Michela

2011

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

Journal Article

Vizoso, Miguel

2013

A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
In: Journal of Clinical Oncology [31], 4140-4147

Journal Article

Voets, Marieke

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

[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

Vogel, M.

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

Vogel, Ulla

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

Volkamer, Andrea

2007

Volkamer, Andrea

Automated generation of pharmacophore type constraints to improve FlexX docking
Universität des Saarlandes

Thesis - Masters thesis

2005

Volkamer, Andrea

Implementation of a method to filter
out compounds with toxic, reactive
and unsuitable functional groups
Universität des Saarlandes

Thesis - Bachelor thesis

Vollmar, Roland (ed.)

2007

Lengauer, Thomas

Strategiekonzept "Molekulare Bioinformatik"
In: Informatikforschung in Deutschland, 9

Part of a Book

von Deimling, Andreas

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

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

Journal Article

von Kries, Jens Peter

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

Von Kuster, Greg

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

von Mering, C.

2004

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

Journal Article

von Öhsen, Niklas

2003

[von Öhsen, Niklas]
Sommer, Ingolf
[Zimmer, Ralf]

Profile-Profile Alignment: A Powerful Tool For Protein Structure Prediction
In: Pacific Symposium on Biocomputing, PSB 2003, 252-263

Proceedings Article

von Wagner, Michael

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

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

Voorhees, John J.

2010

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

Journal Article

Vossen, Jack H.

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

Vucetic, Slobodan

2013

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

Journal Article

Waetzig, Georg H.

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

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

Wagner, Florian

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

Waha, Andreas

2009

Schüffler, Peter
[Mikeska, Thomas]
[Waha, Andreas]
Lengauer, Thomas
Bock, Christoph

MethMarker: User-friendly design and optimization of gene-specific DNA methylation assays
In: Genome Biology [10], R105:1-R105:10

Journal Article

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

Wahn, Ulrich

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

Wahrheit, Kerstin

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

Wainberg, Marc (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

Wainberg, Mark (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

[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

2012

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

Poster

Walker, Robert

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

Walter, Hauke

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

2012

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

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

2009

Poster

2008

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

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

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

[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

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

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

Walter, H.

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

Walter, Jörn

2012

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

Journal Article

2011

[Lutsik, Pavlo]
Feuerbach, Lars
[Arand, Julia]
Lengauer, Thomas
[Walter, Jörn]
Bock, Christoph

BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing
In: Nucleic Acids Research [39], W551-W556

Journal Article

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

2008

Bock, Christoph
[Walter, Jörn]
[Paulsen, Martina]
Lengauer, Thomas

Inter-individual variation of DNA methylation and its implications for large-scale epigenome mapping
In: Nucleic Acids Research [36], e55

Journal Article

2007

Bock, Christoph
[Walter, Jörn]
[Paulsen, Martina]
Lengauer, Thomas

CpG Island Mapping by Epigenome Prediction
In: PLoS Computational Biology [3], 1055-1070

Journal Article

2006

Bock, Christoph
[Paulsen, Martina]
[Tierling, Sascha]
[Mikeska, Thomas]
Lengauer, Thomas
[Walter, Jörn]

CpG Island Methylation in Human Lymphocytes Is Highly Correlated with DNA Sequence, Repeats, and Predicted DNA Structure
In: PLoS Genetics [2], 0243-0252

Electronic Journal Article

2005

Bock, Christoph
Lengauer, Thomas
[Reither, Sabine]
[Mikeska, Thomas]
[Paulsen, Martina]
[Walter, Jörn]

BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing
In: Bioinformatics [21], 4067-4068

Journal Article

Wang, Hongyun

2003

Antes, Iris
[Wang, Hongyun]
[Chandler, David]
[Oster, George]

The unbinding of ATP from F1-ATPase
In: Biophysical Journal [85], 695-706

Journal Article

Wang, Jun

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

Wang, Ting

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

Wang, Yalan

2009

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

Journal Article

Wang, Zheng

2013

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

Journal Article

Wanker, Erich E.

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

2005

[Ralser, Markus]
[Nonhoff, Ute]
Albrecht, Mario
Lengauer, Thomas
[Wanker, Erich E.]
[Lehrach, Hans]
[Krobitsch, Sylvia]

Ataxin-2 and huntingtin interact with endophilin-A complexes to function in plastin-associated pathways
In: Human Molecular Genetics [14], 2893-2909

Journal Article

Warfsmann, J.

2004

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

Journal Article

Warrick, John M.

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

Wass, Mark N

2013

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

Journal Article

Waterland, Robert a.

2010

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

Journal Article

Waterman, Michael (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

Waterman, M.S. (ed.)

2001

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

Book

Watson, James D.

2008

[Watson, James D.]
[Thornton, Janet M.]
[Tress, Michael L.]
[Lopez, Gonzalo]
[Valencia, Alfonso]
[Redfern, Oliver]
[Orengo, Christine A.]
Sommer, Ingolf
Domingues, Francisco S.

Structure to function
In: Modern Genome Annotation, 239-262

Part of a Book

2007

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

Journal Article

Weber, B. H.

1995

[Stohr, H.]
Roomp, Kirsten
[Felbor, U.]
[Weber, B. H.]

Genomic organization of the human tissue inhibitor of metalloproteinases-3 (TIMP3)
In: Genome Research [5], 483-7

Journal Article

Wedemeyer, H.

2013

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

Journal Article

Weersma, Rinse K.

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

2008

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

Journal Article

Weese, D

2013

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

Journal Article

Wefing, Stephan,

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

Weichenberger, Christian X.

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.]
[Domingues, Francisco S.]
[Pichler, Irene]

Profiling of parkin-binding partners using tandem affinity purification
In: PLoS ONE [8], 1-17

Journal Article

Weichenthal, Michael

2010

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

Journal Article

Weich, Viola

2010

[Lange, Christian Markus]
Roomp, Kirsten
[Dragan, Anette]
[Nattermann, Jacob]
[Michalk, Monika]
[Spengler, Ulrich]
[Weich, Viola]
Lengauer, Thomas
[Zeuzem, Stefan]
[Berg, Thoma]
[Sarrazin, Christoph]

HLA class I allele associations with HCV genetic variants in patients with chronic HCV genotypes 1a or 1b infection
In: Journal of Hepatology [53], 1022-1028

Journal Article

Weickert, Joachim

2007

Sommer, Ingolf
Müller, Oliver
Domingues, Francisco S.
Sander, Oliver
[Weickert, Joachim]
Lengauer, Thomas

Moment invariants as shape recognition technique for comparing protein binding sites
In: Bioinformatics [23], 3139-3146

Journal Article

Weidinger, Stephan

2010

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

Journal Article

Weikum, Gerhard

2011

Nebot, Victoria
Ye, Min
Albrecht, Mario
Eom, Jae-Hong
Weikum, Gerhard

DIDO: a disease-determinants ontology from web sources
In: Proceedings of the 20th International Conference on World Wide Web (WWW 2011), 237-240

Proceedings Article

Weile, Jochen

2012

Alcaraz, Nicolas
Kucuk, Hande
[Weile, Jochen]
[Wipat, Anil]
Baumbach, Jan

KeyPathwayMiner - Detecting case-specific biological pathways by using expression data
In: Internet Mathematics [7], 299-313

Journal Article

Weimann, Aaron

2011

Weimann, Aaron

Functional Profiling in Metagenomics
Universität des Saarlandes

Thesis - Masters thesis

2009

Weimann, Aaron

Using multidimensional Scaling for visualizing similarities of proteins
Universität des Saarlandes

Thesis - Bachelor thesis

Weinberger, Kilian Q. (ed.)

2011

Bogojeska, Jasmina

History distribution matching method for predicting effectiveness of HIV combination therapies
In: Neural Information Processing Systems (NIPS 2011), 424-432

Electronic Proceedings Article

Weinhold, Nils

2008

Weinhold, Nils
Sander, Oliver
Domingues, Francisco S.
Lengauer, Thomas
Sommer, Ingolf

Local function conservation in sequence and structure space
In: PLoS Computational Biology [4], e1000105

Journal Article

2006

Weinhold, Nils

Inference of Protein Function based on Functionally Conserved Regions in Sequence and Structure Space
Universität des Saarlandes

Thesis - Masters thesis

Weir, Barbara A.

2009

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

Journal Article

Weismuller, Tobias J.

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

Weisser, Hendrik

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

2007

Weisser, Hendrik

Estimating the local variance of protein structure models
Universität des Saarlandes

Thesis - Masters thesis

Weiss, Jonathan

2009

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

Journal Article

Weiss, Julia

2005

Weiss, Julia

Generating Frequency Profiles from Multiple
Structure Alignments
Universität des Saarlandes

Thesis - Bachelor thesis

Welker, Martin-Walter

2010

[Welker, Martin-Walter]
[Welsch, Christoph]
[Meyer, Aline]
Antes, Iris
Albrecht, Mario
[Forestier, Nicole]
[Kronenberger, Bernd]
Lengauer, Thomas
[Piiper, Albrecht]
[Zeuzem, Stefan]
[Sarrazin, Christoph]

Dimerization of the hepatitis C virus nonstructural protein 4B depends on the integrity of an aminoterminal basic leucine zipper
In: Protein Science [19], 1327-1336

Journal Article

Welker, Martin Walter

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

Welker, Martin W.

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

Welker, M.-W.

2013

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]

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

Welker, M.W.

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

Wellington, Cheryl L.

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

Welsch, Christoph

2012

Welsch, Christoph
[Schweizer, Sabine]
[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

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

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

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

2011

[Shimakami, Tetsuro]
Welsch, Christoph
[Yamane, Daisuke]
[McGivern, David R.]
[Yi, MinKyung]
[Zeuzem, Stefan]
[Lemon, Stanley M.]

Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
In: Gastroenterology [140], 667-675

Journal Article

2010

Dimerization of the hepatitis C virus nonstructural protein 4B depends on the integrity of an aminoterminal basic leucine zipper
In: Protein Science [19], 1327-1336

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

2009

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

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

[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

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

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

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

Journal Article

2006

[Plotz, Guido]
[Welsch, Christoph]
[Giron-Monzon, Luis]
[Friedhoff, Peter]
Albrecht, Mario
[Piiper, Albrecht]
Biondi, Ricardo M.
Lengauer, Thomas
[Zeuzem, Stefan]
[Raedle, Jochen]

Mutations in the MutSalpha interaction interface of MLH1 can abolish DNA mismatch repair
In: Nucleic Acids Research [34], 6574-6586

Journal Article

2005

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

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

2005

[Bojunga, Jörg]
[Welsch, Christoph]
Antes, Iris
Albrecht, Mario
Lengauer, Thomas
[Zeuzem, Stefan]

Structural and functional analysis of a novel mutation of CYP21B in a heterozygote carrier of 21-hydroxylase deficiency
In: Human Genetics [117], 558-564

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

Wemmert, Silke

2005

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

Journal Article

Wensing, Annemarie

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

Wensing, A.

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

Wenz, Gerhard

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

Werner, Albrecht

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

Werner, T.

2004

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

Journal Article

Wesselink, Jan J.

2007

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

Journal Article

Wetzler, D.

2004

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

Journal Article

White, S

2013

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

Journal Article

Wichard, Jörg Daniel

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

Wichard, J.D.

2004

Merkwirth, Christian
[Bröcker, J.]
[Ogorzalek, Maciej]
Wichard, J.D.

Finite iteration DT-CNN - new design and operation principles
In: Proceedings (ISCAS-04) : 2004 IEEE International Symposium on Circuits and Systems. - Vol. 5, Blind signal processing, computer-aided network design, invited sessions, neural sytems and applications, power systems and power electronic circuits, 504-507

Proceedings Article

2004

[Wichard, J.D.]
[Ogorzalek, Maciej]
Merkwirth, Christian
[Bröcker, J.]

Finite iteration DT-CNN with stationary templates
In: Proceedings of the 8th IEEE International Workshop on Cellular Neural Networks and their Applications (CNNA 2004), 459-464

Proceedings Article

Wichmann, H. Erich

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

Wijmenga, Cisca

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

2008

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

Journal Article

Wilhelm, Frank Clemens

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

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

Willcocks, Spike

2012

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

Journal Article

Winckler, Wendy

2009

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

Journal Article

Wingender, E.

2004

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

Journal Article

Winkelmann, Juliane

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

Winnebald, Jörn

2011

[Krol, Elizaveta]
[Blom, Jochen]
[Winnebald, Jörn]
[Berhörster, Alexander]
[Barnett, Melanie J.]
[Goesmann, Alexander]
Baumbach, Jan
[Becker, Anke]

RhizoRegNet - A database of rhizobial transcription factors and regulatory networks.
In: Journal of Biotechnology [155], 127-134

Journal Article

Winskowsky, Gudrun

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

Winters, Bart

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

2007

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

Poster

Winter, Andrew

2011

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

Journal Article

Wipat, Anil

2012

Alcaraz, Nicolas
Kucuk, Hande
[Weile, Jochen]
[Wipat, Anil]
Baumbach, Jan

KeyPathwayMiner - Detecting case-specific biological pathways by using expression data
In: Internet Mathematics [7], 299-313

Journal Article

Wittig, Michael

2010

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

Journal Article

2007

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

Journal Article

Wittkope, Linda

2011

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

Journal Article

Wittkop, Linda

2011

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

Journal Article

Wittkop, Tobias

2013

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

Journal Article

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

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

2011

[Morris, John H.]
[Apeltsin, Leonard]
[Newman, Aaron M.]
Baumbach, Jan
[Wittkop, Tobias]
[Su, Gang]
[Bader, Gary D.]
[Ferrin, Thomas E.]

clusterMaker: A Multi-algorithm Clustering Plugin for Cytoscape
In: BMC Bioinformatics [12], 436,1-436,14

Journal Article

2011

[Wittkop, Tobias]
Emig, Dorothea
[Truss, Anke]
Albrecht, Mario
[Böcker, Sebastian]
Baumbach, Jan

Comprehensive cluster analysis with Transitivity Clustering
In: Nature Protocols [6], 285-295

Journal Article

2011

[Wittkop, Tobias]
[Rahmann, Sven]
Roettger, Richard
[Boecker, Sebastian]
Baumbach, Jan

Extension and robustness of Transitivity Clustering for protein-protein interaction network analysis
In: Internet Mathematics [7], 255-273

Journal Article

2010

[Wittkop, Tobias]
[Rahmann, Sven]
Baumbach, Jan

Efficient Online Transcription Factor Binding Site Adjustment by Integrating Transitive Graph Projection with MoRAine 2.0
In: Special Issue: 6th International Symposium on Integrative Bioinformatics, 117,1-117,11

Electronic Proceedings Article

2010

[Wittkop, Tobias]
Emig, Dorothea
[Lange, Sita]
[Rahmann, Sven]
Albrecht, Mario
[Morris, John H.]
[Böcker, Sebastian]
[Stoye, Jens]
Baumbach, Jan

Partitioning biological data with transitivity clustering
In: Nature Methods [7], 419-420

Journal Article

Wittmann, Christoph

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]

Poster

2004

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

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

Wlazlinski, Agnes

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

Wohlers, Inken

2010

[Wohlers, Inken]
Domingues, Francisco S.
[Klau, Gunnar W.]

Towards optimal alignment of protein structure distance matrices
In: Bioinformatics [26], 2273-2280

Journal Article

Wold, BJ

2013

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

Journal Article

Wolf, Eva

2012

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

Journal Article

2009

Poster

2008

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

Wolf, Jürgen

2009

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

Journal Article

Wolf, Katharina

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

Wolf, Timo

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

Wong, Andrew

2013

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

Journal Article

Wong, Janice

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

Wong, Kwok-Kin

2009

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

Journal Article

Woods, Conan

2010

Journal Article

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

Woods, Conan K

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

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

Woods, Conan K.

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

Worm, Margitta

2007

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

Journal Article

Wullich, Bernd

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

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

Wüllner, Ullrich

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

2004

Albrecht, Mario
[Golatta, Michael]
[Wüllner, Ullrich]
Lengauer, Thomas

Structural and functional analysis of ataxin-2 and ataxin-3
In: European Journal of Biochemistry [271], 3155-3170

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

Wu, Guanming

2011

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

Journal Article

Wu, J

2013

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

Journal Article

Wu, TD

2013

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

Journal Article

Wybrow, Michael

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

Wyen, Christoph

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

Wyen, C.

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

Wynhoven, Brian

2010

Journal Article

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

Xi, Yuanxin

2012

[Xi, Yuanxin]
Bock, Christoph
Müller, Fabian
[Sun, Deqiang]
[Meissner, Alexander]
[Li, Wei]

RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing
In: Bioinformatics [28], 430-432

Journal Article

2011

[Xi, Yuanxin]
Bock, Christoph
Müller, Fabian
[Sun, Deqiang]
[Meissner, Alexander]
[Li, Wei]

RRBSMAP: A Fast, Accurate and User-friendly Alignment Tool for Reduced Representation Bisulfite Sequencing
In: Bioinformatics [28], 430-432

Journal Article

2010

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

Journal Article

Xu, Kexiang

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

Xu, Y. (ed.)

2004

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

Proceedings

Yahiaoui, Nabila

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

Yalak, Garif

2005

Yalak, Garif

Analysis of Mutations in the Death Domains, Death Effector Domains, Caspase
Recruitment Domains, and Pyrin Domains
Universität des Saarlandes

Thesis - Bachelor thesis

Yamamoto, Hiroyuki

2012

A DNA methylation fingerprint of 1628 human samples
In: Genome Research [22], 407-419

Journal Article

Yamanaka, Masanori

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

Yamane, Daisuke

2011

[Shimakami, Tetsuro]
Welsch, Christoph
[Yamane, Daisuke]
[McGivern, David R.]
[Yi, MinKyung]
[Zeuzem, Stefan]
[Lemon, Stanley M.]

Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
In: Gastroenterology [140], 667-675

Journal Article

Yamanishi, Yoshihiro

2011

[Yamanishi, Yoshihiro]
[Pauwels, Edouard]
Saigo, Hiroto
[Stovent, Veronique]

Extracting Sets of Chemical Substructures and Protein Domains Governing Drug-Target Interactions
In: Journal of Chemical Information and Modeling [51], 1183-1194

Journal Article

Yamashita, Shizuya

2002

Journal Article

Yang, Haixuan

2013

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

Journal Article

Yang, Yan

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

Yang, Yu-Zhou

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

Yeats, Corin

2007

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

Journal Article

Ye, Min

2011

Nebot, Victoria
Ye, Min
Albrecht, Mario
Eom, Jae-Hong
Weikum, Gerhard

DIDO: a disease-determinants ontology from web sources
In: Proceedings of the 20th International Conference on World Wide Web (WWW 2011), 237-240

Proceedings Article

Yin, Junming

2006

[Yin, Junming]
[Beerenwinkel, Niko]
Rahnenführer, Jörg
Lengauer, Thomas

Model Selection for Mixtures of Mutagenetic Trees
In: Statistical Applications in Genetics and Molecular Biology [5], Article 17

Journal Article

2005

Yin, Junming

Model Selection for Mixtures of Mutagenetic Trees
Universität des Saarlandes

Thesis - Masters thesis

Yi, MinKyung

2011

[Shimakami, Tetsuro]
Welsch, Christoph
[Yamane, Daisuke]
[McGivern, David R.]
[Yi, MinKyung]
[Zeuzem, Stefan]
[Lemon, Stanley M.]

Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
In: Gastroenterology [140], 667-675

Journal Article

Yli-Harja, Olli (ed.)

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

Yoshida, Yoshihide

2002

Journal Article

Yunes, Jeffrey M

2013

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

Journal Article

Yu, Bin (ed.)

2003

Rahnenführer, Jörg

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

Proceedings Article

Yu, L

1999

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

Journal Article

Yu, L.

1999

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

Journal Article

Zaccarelli, Mauro

2009

Dynamics of NRTI resistance mutations during therapy interruption
In: AIDS Research and Human Retroviruses [25], 57-64

Journal Article

Zacharek, Sima J.

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

Zalány, L

2007

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

Poster

Zamponi, Raffaella

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

Zander, Thomas

2009

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

Journal Article

Zangen, D

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

Zang, Klaus D.

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

2005

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

Journal Article

Zanon, Alessandra

2013

Profiling of parkin-binding partners using tandem affinity purification
In: PLoS ONE [8], 1-17

Journal Article

Zapp, Josef

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

Zazzi, Maurizio

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

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

2011

Lawyer, Glenn
Altmann, André
Thielen, Alex
[Zazzi, Maurizio]
[Sönnerborg, Anders]
Lengauer, Thomas

HIV-1 mutational pathways under multidrug therapy
In: AIDS Research and Therapy [8], 1-13

Journal Article

2010

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

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

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

Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
In: Antiviral Therapy [14], 433-442

Journal Article

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

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

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

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

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

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

Poster

Zazzi, M.

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

Zeidler, Michael

2012

Zeidler, Michael

Cloudbasierte Analyse von viralen Sequenzdaten der neuesten Generation
Universität des Saarlandes

Thesis - Bachelor thesis

Zeissig, Sebastian

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

Zeke, András

2012

[Garai, Ágnes]
[Zeke, András]
[Gógl, Gergo]
[Töro, Imre]
[Fördos, Ferenc]
Blankenburg, Hagen
[Bárkai, Tünde]
[Varga, János]
[Alexa, Anita]
Emig, Dorothea
Albrecht, Mario
[Reményi, Attila]

Specificity of linear motifs that bind to a common mitogen-activated protein kinase docking groove
In: Science Signaling [5], ra74,1-ra74,14

Journal Article

Zeller, G

2013

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

Journal Article

Zell, Andreas (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

Zemel, Richard S. (ed.)

2011

Bogojeska, Jasmina

History distribution matching method for predicting effectiveness of HIV combination therapies
In: Neural Information Processing Systems (NIPS 2011), 424-432

Electronic Proceedings Article

Zerbino, D

2013

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

Journal Article

Zerlotini, Adhemar

2011

Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551

Electronic Journal Article

Zettler, Markus

2009

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

Journal Article

Zeuzem, Stefan

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

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

2011

[Shimakami, Tetsuro]
Welsch, Christoph
[Yamane, Daisuke]
[McGivern, David R.]
[Yi, MinKyung]
[Zeuzem, Stefan]
[Lemon, Stanley M.]

Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
In: Gastroenterology [140], 667-675

Journal Article

2010

Dimerization of the hepatitis C virus nonstructural protein 4B depends on the integrity of an aminoterminal basic leucine zipper
In: Protein Science [19], 1327-1336

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

2010

[Lange, Christian Markus]
Roomp, Kirsten
[Dragan, Anette]
[Nattermann, Jacob]
[Michalk, Monika]
[Spengler, Ulrich]
[Weich, Viola]
Lengauer, Thomas
[Zeuzem, Stefan]
[Berg, Thoma]
[Sarrazin, Christoph]

HLA class I allele associations with HCV genetic variants in patients with chronic HCV genotypes 1a or 1b infection
In: Journal of Hepatology [53], 1022-1028

Journal Article

2009

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

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

[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

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

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

Journal Article

2006

[Plotz, Guido]
[Welsch, Christoph]
[Giron-Monzon, Luis]
[Friedhoff, Peter]
Albrecht, Mario
[Piiper, Albrecht]
Biondi, Ricardo M.
Lengauer, Thomas
[Zeuzem, Stefan]
[Raedle, Jochen]

Mutations in the MutSalpha interaction interface of MLH1 can abolish DNA mismatch repair
In: Nucleic Acids Research [34], 6574-6586

Journal Article

2005

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

Journal Article

2005

[Bojunga, Jörg]
[Welsch, Christoph]
Antes, Iris
Albrecht, Mario
Lengauer, Thomas
[Zeuzem, Stefan]

Structural and functional analysis of a novel mutation of CYP21B in a heterozygote carrier of 21-hydroxylase deficiency
In: Human Genetics [117], 558-564

Journal Article

Zeuzem, S.

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

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

Zhangc, Xin Xin

2011

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

Journal Article

Zhang, Hu

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

Zhang, Lin-Hua

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

1999

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

Journal Article

1999

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

Journal Article

Zhang, Michael Q.

2010

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

Journal Article

Zhang, MQ

2013

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

Journal Article

Zhang, Xin Xin

2011

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

Journal Article

Zhang, Yingying

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

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

Zhang, Zhongyan

2002

Journal Article

Zhao, Xing

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.]
[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

Zhao, Yongjun

2010

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

Journal Article

Zhong, Xiaoyin

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

Zhou, Stephen

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

Zhou, Xin

2010

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

Journal Article

Zhou, Yuanpeng

2013

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

Journal Article

Zhu, Hongbo

2010

Zhu, Hongbo

Characterization, classification and alignment of protein-protein interfaces
Universität des Saarlandes

Thesis - PhD thesis

2008

Zhu, Hongbo
Sommer, Ingolf
Lengauer, Thomas
Domingues, Francisco S.

Alignment of Non-Covalent Interactions at Protein-Protein Interfaces
In: PLoS ONE [3], e1926

Journal Article

2008

Sander, Oliver
Domingues, Francisco S.
Zhu, Hongbo
Lengauer, Thomas
Sommer, Ingolf

Structural descriptors of protein-protein binding sites
In: Proceedings of 6th Asia-Pacific Bioinformatics Conference, 79-88

Proceedings Article

2006

Lengauer, Thomas
Domingues, F.S.
Sommer, Ingolf
Zhu, Hongbo

Analysis and prediction of protein-protein-interaction types
In: BMC Bioinformatics [7], -

Journal Article

2006

Zhu, Hongbo
Domingues, Francisco S.
Sommer, Ingolf
Lengauer, Thomas

NOXclass: prediction of protein-protein interaction types
In: BMC Bioinformatics [7], 1-15

Electronic Journal Article

2005

Zhu, Hongbo
Domingues, Francisco S.
Sommer, Ingolf
Lengauer, Thomas

Analysis and prediction of protein-protein interaction types
In: 4th European Conference on Computational Biology (ECCB05), 1

Poster

Zien, Alexander

2003

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

Microarrays: How many do you need?
In: Journal of Computational Biology [10], 653-667

Journal 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

Sommer, Ingolf
[Zien, Alexander]
[Öhsen von, Niklas]
[Zimmer, Ralf]
Lengauer, Thomas

Confidence measures for protein fold recognition
In: Bioinformatics [18], 802-812

Journal 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

2001

[Zien, Alexander]
[Aigner, T.]
[Zimmer, Ralf]
Lengauer, Thomas

Centralization: A biologically sensible method for the normalization of gene expression data
In: Bioinformatics [17], 323S-331S

Journal Article

Ziller, Michael

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

Ziller, Michael J.

2013

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

Journal Article

2011

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

Zimmermann, M.

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

2004

Lengauer, Thomas
[Lemmen, Christian]
[Rarey, Matthias]
[Zimmermann, M.]

Novel technologies for virtual screening
In: Drug Discovery Today [9], 27-34

Journal Article

Zimmer, Ralf

2004

[Öhsen von, Niklas]
Sommer, Ingolf
[Zimmer, Ralf]
Lengauer, Thomas

Arby: Automatic protein structure prediction using profile-profile alignment and confidence measures
In: Bioinformatics [20], 2228-2235

Journal Article

2004

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

Journal Article

2003

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

Microarrays: How many do you need?
In: Journal of Computational Biology [10], 653-667

Journal Article

2003

[von Öhsen, Niklas]
Sommer, Ingolf
[Zimmer, Ralf]

Profile-Profile Alignment: A Powerful Tool For Protein Structure Prediction
In: Pacific Symposium on Biocomputing, PSB 2003, 252-263

Proceedings Article

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]

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

Sommer, Ingolf
[Zien, Alexander]
[Öhsen von, Niklas]
[Zimmer, Ralf]
Lengauer, Thomas

Confidence measures for protein fold recognition
In: Bioinformatics [18], 802-812

Journal 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

[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

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

2001

[Zien, Alexander]
[Aigner, T.]
[Zimmer, Ralf]
Lengauer, Thomas

Centralization: A biologically sensible method for the normalization of gene expression data
In: Bioinformatics [17], 323S-331S

Journal Article

Zimmer, Tobias

2006

Zimmer, Tobias

Functional Site Scaffolds
Universität des Saarlandes

Thesis - Bachelor thesis

Zotenko, Elena

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

2011

Schelhorn, Sven-Eric
Mestre, Julián
Zotenko, Elena
Albrecht, Mario

Inferring physical protein contacts from large-scale purification data of protein complexes
In: Molecular & Cellular Proteomics [10], M110.004929,1-M110.004929,15

Electronic Journal Article

2008

Zotenko, Elena
Mestre, Julian
[O'Leary, Dianne]
[Przytycka, Teresa]

Why Do Hubs in the Yeast Protein Interaction Network Tend To Be Essential: Reexamining the Connection between the Network Topology and Essentiality
In: PLoS Computational Biology [4], e1000140

Journal Article

Zwarts, K.Y.

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

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

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

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

Zwinderman, A.H.

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