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MPI-INF D3 Publications

MPI-INF D3 Publications

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#YAuthor/EditorTitle
11
Hide details for 20142014
7
Hide details for PosterPoster
Pironti, Alejandro
Lengauer, Thomas
Pfeifer, Nico
Simulation of Sanger-sequencing errors in the context of genotypic tropism determination
In: Antiviral Therapy, A81
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
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
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
Pironti, Alejandro
Pfeifer, Nico
Lengauer, Thomas
Accurate prediction of drug-exposure without using established drug-resistance mutations
In: Antiviral Therapy, A75
Pironti, Alejandro
Pfeifer, Nico
Lengauer, Thomas
Improved HIV-1 drug-exposure reconstruction with linear support vector machines
In: Reviews in Antiviral Therapy & Infectious Diseases, 67
Pironti, Alejandro
Sierra, Saleta
Kaiser, Rolf
Lengauer, Thomas
Pfeifer, Nico
Simulation of Sanger-sequencing errors in the context of genotypic tropism determination
In: Antiviral Therapy, A81
2
Hide details for Journal ArticleJournal Article
Lawyer, GlennCOMET: Adaptive context-based modeling for ultrafast HIV-1 subtype identification.
In: Nucleic Acids Research [42], e144
Maurer, Felix
Hauschild, Anne-Christin
Eisinger, Kathrin
Baumbach, Jan
Mayor, Arno
Baumbach, Jörg Ingo
MIMA - A software for analyte identification in MCC/IMS chromatograms by mapping accompanying GC/MS measurements
In: International Journal for Ion Mobility Spectrometry [?], ?
2
Hide details for Unpublished/DraftUnpublished/Draft
Eckel, Sandrah
Baumbach, Jan
Hauschild, Anne-Christin
On the importance of statistics in breath analysis - Hope or curse?
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
31
Hide details for 20132013
4
Hide details for PosterPoster
Kalaghatgi, Prabhav
Lawyer, Glenn
Inter-country mixing in HIV transmission clusters: a pan-European phylodynamics study
In: Abstract Book 11th European HIV & Hepatitis Workshop, 9
Pfeifer, Nico
Lengauer, Thomas
Association Between HIV-1 Coreceptor Usage and Resistance to Some Broadly Neutralizing Antibodies
In: Proceedings of the AIDS Vaccine Conference 2013, A-1-A-208
Pironti, Alejandro
Lengauer, Thomas
Pfeifer, Nico
Effects of sequencing errors on geno2pheno[coreceptor] predictions
In: Abstract Book 11th European Meeting on HIV & Hepatitis, 23-24
Pironti, Alejandro
Lengauer, Thomas
Pfeifer, Nico
In silico analysis of the effects of sequencing errors on geno2pheno[coreceptor]
In: Abstract Book of the International Workshop on HIV&Hepatitis Virus, A142
22
Hide details for Journal ArticleJournal Article
Beggel, Bastian
Münk, C.
Däumer, M.
Hauck, K.
Häussinger, D.
Lengauer, Thomas
Ehrhardt, A.
Full genome ultra-deep pyrosequencing associates G-to-A-hypermutation of the hepatitis B virus genome with the natural progression of hepatitis B
In: Journal of Viral Hepatitis [12], 882-889
Bhadra, T.
Battacharya, M.
Feuerbach, L.
Lengauer, Thomas
Bandyopadhyay, S.
DNA Methylation Patterns Facilitate the Identification of Transcription Start Sites: A Brain-specofoc Study
In: PLOSONE [8], xx
Bozek, K.
Lengauer, Thomas
Sierra, S.
Kaiser, Rolf
Domingues, F.S.
Analysis of physicochemical and structural properties determining HIV-1 coreceptor usage
In: PLoS Computational Biology [x], x
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
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
Halachev, Konstantin
Bast, H.
Lengauer, Thomas
Bock, Christoph
Interactive exploration of large genome and epigenome datasets in real time
In: Genome Biology [13], xx
Kacprowski, Tim
Doncheva, Nadezhda T.
Albrecht, Mario
Attachment IconNetworkPrioritizer: a versatile tool for network-based prioritization of candidate disease genes or other molecules
In: Bioinformatics [29], 1471-1473
Kalinina, Olga
Pfeifer, Nico
Lengauer, Thomas
Modelling binding between CCR5 and CXCR4 receptors and their ligands suggests the surface electrostatic potential of the co-receptor to be a key player in the HIV-1 tropism
In: Retrovirology [10], 130
Le, Hai-Son
Schulz, Marcel Holger
McCauley, Brenna MM
Hinman, Veronica F
Bar-Joseph, Ziv
Probabilistic error correction for RNA sequencing
In: Nucleic Acids Researcb [41], e109
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
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
Pironti, AlejandroHIV-1 fitness landscape models for indinavir treatment pressure using observed evolution in longitudinal sequence data are predictive for treatment failure
In: Infection, Genetics and Evolution [19], 349–360
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
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
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
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
Schulz, Marcel Holger
Pandit, Kusum V
Lino Cardenas, Christian L
Ambalavanan,Namasivayam
Kaminski, Naftali
Bar-Joseph, Ziv
Reconstructing dynamic microRNA-regulated interaction networks
In: Proceedings of the National Academy of Sciences of the United States [110], 15686–15691
Simmer, F.
Brinkmann, A.B.
Assenov, Yassen
Matarese, F.
Kaan, A.
Lengauer, Thomas
Bock, Christoph
Colantuoni, V.
Altucci, L.
Stunnenberg, H.G.
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched human tissue
In: Epigenetics [7], 1355-1367
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
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
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
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
3
Hide details for Electronic Journal ArticleElectronic Journal Article
Beggel, Bastian
Lengauer, Thomas
Inferring short-range linkage information from sequencing chromatograms
In: PLoS One,
Hauschild, Anne-Christin
Kopczynski, Dominik
D'Addario, Marianna
Baumbach, Joerg Ingo
Rahmann, Sven
Baumbach, Jan
Peak Detection Method Evaluation for Ion Mobility Spectrometry by using Machine Learning Approaches
In: Metabolites [3], 277-293
Schneider, Till
Hauschild, Anne-Christin
Baumbach, Joerg Ingo
Baumbach, Jan
An Integrative Clinical Database and Diagnostics Platform for Biomarker Identification and Analysis in Ion Mobility Spectra of Human Exhaled Air
In: Journal of Integrative Bioinformatics [10],
1
Hide details for Thesis - PhD thesisThesis - PhD thesis
Patil, Kaustubh RaosahebGenome Signature based Sequence Comparison for Taxonomic Assignment and tree inference
Universität des Saarlandes
1
Hide details for MiscellaneousMiscellaneous
Hauschild, Anne-Christin
Baumbach, Joerg Ingo
Baumbach, Jan
Attachment IconPaving the Way for Automated Clinical Breath Analysis and Biomarker Detection
69
Hide details for 20122012
3
Hide details for Part of a BookPart of a Book
Emig, Dorothea
Blankenburg, Hagen
Ramírez, Fidel
Albrecht, Mario
Functional characterization of human genes from exon expression and RNA interference results
In: Bioinformatics and Drug Discovery, 33-53
Feuerbach, Lars
Halachev, Konstantin
Assenov, Yassen
Mueller, Fabian
Bock, Christoph
Lengauer, Thomas
Analyzing epigenome data in context of genome evolution and human diseases
In: Evolutionary Genomics : Statistical and Computational Methods, Volume 2, 431-467
In: Methods of Molecular Biology [856], 431-467
Lengauer, Thomas
Albrecht, Mario
Domingues, Francisco S.
Computational Biology
In: Encyclopedia of Molecular Cell Biology and Molecular Medicine, 1-71
2
Hide details for Proceedings ArticleProceedings Article
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
Reppas, Andreas
Lawyer, Glenn
Attachment IconLow k-shells identify bridge elements critical to disease flow in small-world networks
In: Numerical Analysis and Applied Mathematics (ICNAAM 2012), 1426-1429
1
Hide details for Electronic Proceedings ArticleElectronic Proceedings Article
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
4
Hide details for PosterPoster
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
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
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
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
40
Hide details for Journal ArticleJournal Article
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
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
Baumbach, JanIntegrative computational biology
In: Integrative Biology [4], 713-714
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
Bhattacharyya, Malay
Feuerbach, Lars
Bhadra, Tapas
Bandyopadhyay, Sanghamitra
MicroRNA Transcription Start Site Prediction with Multi-objective Feature Selection
In: Statistical Applications in Genetics and Molecular Biology [11], 6.1-6.25
Bock, ChristophAnalysing and interpreting DNA methylation data
In: Nature Reviews Genetics [13], 705-719
Bock, Christoph
Lengauer, Thomas
Epigenom-Karten erstellen und nutzen
In: BIOspektrum [18], 138-141
Bock, Christoph
Lengauer, Thomas
Managing drug resistance in cancer: lessons from HIV therapy
In: Nature Reviews Cancer [12], 494-501
Bogojeska, Jasmina
Lengauer, Thomas
Hierarchical Bayes Model for Predicting Effectiveness of HIV Combination Therapies
In: Statistical Applications in Genetics and Molecular Biology [11], 11.1-11.19
Bozek, Katarzyna
Eckhardt, Manon
Sierra, Saleta
Kaiser, Rolf
Kräusslich, Hans-Georg
Müller, Barbara
Lengauer, Thomas
An expanded model of HIV cell entry phenotype based on multi-parameter single-cell data
In: Retrovirology [9], 60.1-60.15
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
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
Doncheva, Nadezhda T
Assenov, Yassen
Domingues, Francisco S.
Albrecht, Mario
Topological analysis and interactive visualization of biological networks and protein structures
In: Nature Protocols [7], 670-685
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Hidalgo, Manuel
Tan, Aik-Choon
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Ferrer, Isidre
Sanchez-Cespedes, Montse
Villanueva, Alberto
Carmona, Javier
Sanchez-Mut, Jose V.
Berdasco, Maria
Moreno, Victor
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Monk, David
Ballestar, Esteban
Ropero, Santiago
Martinez, Ramon
Sanchez-Carbayo, Marta
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Agirre, Xabier
Fraga, Mario F.
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Mora, Jaume
Puig, Susana
Prat, Jaime
Badimon, Lina
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Bock, Christoph
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Zeke, András
Gógl, Gergo
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Alexa, Anita
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Albrecht, Mario
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In: Science Signaling [5], ra74,1-ra74,14
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Bast, H.
Albrecht, F.
Lengauer, Thomas
Bock, Christoph
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Heger, Eva
Thielen, Alexander
Gilles, Ramona
Obermeier, Martin
Lengauer, Thomas
Kaiser, Rolf
Trapp, Susanna
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Schülter, Eugen
Kaiser, Rolf
Reuter, Stefan
Oette, Mark
Lengauer, Thomas
Attachment IconEndogenous or exogenous spreading of HIV-1 in Nordrhein-Westfalen, Germany, investigated by phylodynamic analysis of the RESINA Study cohort
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Lengauer, ThomasBioinformatical Assistance of Selecting Anti-HIV Therapies: Where Do We Stand?
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Bock, Christoph
de Boer, A. Sophie
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Dobrovic, Alexander
DNA methylation biomarkers in cancer: Progress towards clinical implementation
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Pironti, Alejandro
Berg, Thomas
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Kaiser, Rolf
Kleinkauf, Niels
Korn, Klaus
Kücherer, Claudia
Müller, Harm
Noah, Christian
Stürmer, Martin
Thielen, Alexander
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Schulter, Eugen
Rosen-Zvi, Michal
Peres, Yardena
Zazzi, Maurizio
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Struck, Daniel
Altmann, Andre
Kaiser, Rolf
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Röttger, Richard
Neuner, Andreas
Salgado, Heladia
Collado-Vides, Julio
Kalaghatgi, Prabhav
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Tauch, Andreas
Pühler, Alfred
Baumbach, Jan
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Lengauer, Thomas
Attachment IconImproving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data
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Ramírez, Fidel
Lawyer, Glenn
Albrecht, Mario
Novel search method for the discovery of functional relationships
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Fätkenheuer, Gerd
Rockstroh, Jürgen
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Häussinger, Dieter
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Rueckert, Ulrich
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Baumbach, Jan
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Gaasterland, Terry
Lengauer, Thomas
Linial, Michal
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Horton, Paul
Kelso, Janet
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Brinkman, Arie B.
Assenov, Yassen
Matarese, Filomena
Kaan, Anita
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Villanueva, Alberto
Huertas, Dori
Esteller, Manel
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Colantuoni, Vittorio
Altucci, Lucia
Stunnenberg, Henk G.
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
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Thielen, Alexander
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Schweizer, Sabine
Shimakami, Testsuro
Domingues, Francisco S.
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Antes, Iris
Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants
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Shimakami, Tetsuro
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Zeuzem, Stefan
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Peptidomimetic Escape Mechanisms Arise via Genetic Diversity in the Ligand-Binding Site of the Hepatitis C Virus NS3/4A Serine Protease
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RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing
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Incardona, Francesca
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Lavee, Tamar
Schülter, Eugen
Kaiser, Rolf
Predicting Response to Antiretroviral Treatment by Machine Learning:
The EuResist Project
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Faria, Daniel
Schlicker, Andreas
Pesquita, Catia
Bastos, Hugo
Ferreira, António E N
Albrecht, Mario
Falcão, André O
Mining GO annotations for improving annotation consistency
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Halachev, Konstantin
Bast, Hannah
Albrecht, Felipe
Lengauer, Thomas
Bock, Christoph
Attachment IconEpiExplorer: live exploration and global analysis of large epigenomic datasets
In: Genome Biology [13], R96,1-R96,14
Hauschild, Anne-Christin
Baumbach, Jörg Ingo
Baumbach, Jan
Attachment IconIntegrated statistical learning of metabolic ion mobility spectrometry profiles for pulmonary disease identification
In: Genetics and Molecular Research [11], 2733-2744
Hauschild, Anne-Christin
Schneider, Till
Pauling, Josch
Rupp, Kathrin
Jang, Mi
Baumbach, Jörg Ingo
Baumbach, Jan
Attachment IconComputational Methods for Metabolomic Data Analysis of Ion Mobility Spectrometry Data - Reviewing the State of the Art
In: Metabolites [2], 733-755
Kalinina, Olga V.
Oberwinkler, Heike
Glass, Bärbel
Kräusslich, Hans-Georg
Russell, Robert B.
Briggs, John A. G.
Computational Identification of Novel Amino-Acid Interactions in HIV Gag via Correlated Evolution
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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
3
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Galata, ValentinaApplying Lasso regression to related cell types for gene network astimation
Universität des Saarlandes
Klingen, ThorstenAutomatic Recombination Analysis Using Recoo and Mebitoo
Universität des Saarlandes
Zeidler, MichaelCloudbasierte Analyse von viralen Sequenzdaten der neuesten Generation
Universität des Saarlandes
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Bader, MathiasClustering epigenetic data using a Dirichlet process prior
Universität des Saarlandes
Bastys, TomasAttachment IconMAP Kinase Docking Motifs in HIV Proteins
Universität des Saarlandes
Eldarov, NasimiModeling influenza evolution in response to immune system pressure
Universität des Saarlandes
Kalaghatgi, PrabhavA Phylodynamic Study of HIV Transmission Networks in Europe
Universität des Saarlandes
König, EvaAutomatic detection of loss of heterozygosity in cancer
Universität des Saarlandes
Koser, SandraReconstructing anecestral methylation states in phylogenetic trees
Universität des Saarlandes
Müller, JoachimExtracting pathways from biological networks incorporating omics data, introducing a webinterface for KeyPathwayMiner
Universität des Saarlandes
Speicher, NoraTowards the identification of cancer subtypes by integrative clustering of molecular data
Universität des Saarlandes
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Ramirez, FidelNovel Approaches to the Integration and Analysis of Systems Biology
Universität des Saarlandes
Tolosi, LauraFinding Regions of Aberrant DNA Copy Number Associated With Tumor Phenotype
Universität des Saarlandes
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Lengauer (ed.)Computermodelle in der Wissenschaft - zwischen Analyse, Vorhersage und Suggestion
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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
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Bogojeska, JasminaHistory distribution matching method for predicting effectiveness of HIV combination therapies
In: Neural Information Processing Systems (NIPS 2011), 424-432
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Pironti, Alejandro
Altmann, André
Büch, Joachim
Lengauer, Thomas
A Computational Method for Predicting First-Line Antiretroviral Therapy Success
In: Abstract Book. 9th Workshop on HIV & Hepatitis Treatment Strategies & Antiviral Drug Resistance, 94
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Alcaro, Stefano
Alteri, Claudia
Artese, Anna
Ceccherini-Silberstein, Francesca
Costa, Giosuè
Ortuso, Francesco
Forbici, Federica
Santoro, Maria Mercedes
Parrotta, Lucia
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Perno, Carlo Federico
Sing, Tobias
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Blankenburg, Hagen
Kerrien, Samuel
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Ceol, Arnaud
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Galeota, Eugenia
Gaulton, Anna
Goll, Johannes
Hancock, Robert E. W.
Isserlin, Ruth
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Kerssemakers, Jules
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Lynn, David J.
Michaut, Magali
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Orchard, Sandra
Prieto, Carlos
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Salwinski, Lukasz
Simonovic, Milan
Velankar, Sameer
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Wu, Guanming
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Donaldson, Ian M.
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Kleywegt, Gerard J.
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Ricard-Blum, Sylvie
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PSICQUIC and PSISCORE: accessing and scoring molecular interactions
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Hannemann, Frank
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von Kries, Jens Peter
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Dietzen, Matthias
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Verstappen, Griet
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Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines
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Ramos, Rommel Thiago Juca
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Doncheva, Nadezhda T.
Klein, Karsten
Domingues, Francisco S.
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Analyzing and visualizing residue networks of protein structures
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Emig, Dorothea
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Tissue-specific proteins and functional implications
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Kacprowski, Tim
Albrecht, Mario
Measuring and analyzing tissue specificity of human genes and protein complexes
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Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling
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Heger, Eva
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Lengauer, Thomas
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APOBEC3G/F as one possible driving force for co-receptor switch of the human immunodeficiency virus-1
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Chung, Tje Lin
Osbahr, Carola
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Impact of ribavirin on HCV replicon RNA decline during treatment with interferon-α and the protease inhibitors boceprevir or telaprevir
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In-depth analysis of G-to-A hypermutation rate in HIV-1 env DNA induced by endogenous APOBEC3 proteins using massively parallel sequencing
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Comparative Genomics of Klebsiella pneumoniae Strains with Different Antibiotic Resistance Profiles
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HIV-1 mutational pathways under multidrug therapy
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Attachment IconErratum to: Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients.
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Wilhelm, Frank Clemens
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Lengauer, Thomas
Faetkenheuer, Gerd
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Haeussinger, Dieter
Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients
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Roomp, Kirsten
Domingues, Francisco S.
Predicting interactions between T cell receptors and MHC-peptide complexes
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A singular value decomposition approach for improved taxonomy classification of biological sequences
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HIV prevalence and route of transmission in Turkish immigrants
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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
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Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
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Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
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Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially
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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
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
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
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
9
Hide details for Electronic Journal ArticleElectronic Journal Article
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
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
Ebrahimi, Mansou
Lakizadeh, Amir
Agha-Golzadeh, Esmaeil
Ebrahimi, Mahdi
Prediction of Thermostability from Amino Acid Attributes by Combination of Clustering with Attribute Weighting: A New Vista in Engineering Enzymes
In: PLoS One [6], e23146,1-e23146,11
Emig, Dorothea
Sander, Oliver
Mayr, Gabriele
Albrecht, Mario
Structure collisions between interacting proteins
In: PLoS ONE [6], e19581,1-e19581,7
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
Saigo, Hiroto
Altmann, André
Bogojeska, Jasmina
Müller, Fabian
Nowozin, Sebastian
Lengauer, Thomas
Attachment IconLearning from past treatments and their outcome improves prediction of In Vivo response to anti-HIV therapy
In: Statistical Applications in Genetics and Molecular Biology [10], 1-32
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
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
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
3
Hide details for Thesis - Bachelor thesisThesis - Bachelor thesis
Döring, MatthiasWeb Implementation of the HBV Dual Infection Model
Universität des Saarlandes
Junge, AlexanderUnsupervised dissection of cancer types based on genomic, epigenomic and transciptomic features
Universität des Saarlandes
Reuter, KerstinEstimating and Using the Uncertainty in the Phenotypic Resistance Assay of the Hepatitis B Virus to Improve IC-50 Prediction from Genotype
Universität des Saarlandes
6
Hide details for Thesis - Masters thesisThesis - Masters thesis
Hauschild, Anne-ChristinModeling HIV Neutralization
Universität des Saarlandes
Hoinka, Jan-MalteFinding the Hairpin in the Haystack: Towards an High Throughput in Silico Pipeline for Aptamer Motif Identification using SELEX Data
Universität des Saarlandes
Ivanova, VioletaComparison of methods for discovering genomic aberrations relevant for cancer
Universität des Saarlandes
Jing, CuiA comprehensive analysis of the illumina Infinium assay
Universität des Saarlandes
Kacprowski, TimDisease gene prioritization by combining network information and functional knowledge
Universität des Saarlandes
Weimann, AaronFunctional Profiling in Metagenomics
Universität des Saarlandes
5
Hide details for Thesis - PhD thesisThesis - PhD thesis
Bogojeska, JasminaAttachment IconStatistical Learning Methods for Bias-aware HIV Therapy Screening
Universität des Saarlandes
Bozek, KatarzynaAttachment IconAnalysis of HIV-host interaction on different scales.
Universität des Saarlandes
Emig, DorotheaNovel analysis approaches to context-dependent molecular networks
Universität des Saarlandes
Kunert, LarsMaximal Common Subgraph DAGs: Theory and Application to Virtual Screening in Drug Development
Universität des Saarlandes
Thielen, AlexanderGenotypic Analysis of HIV-1 Coreceptor Usage
Universität des Saarlandes
59
Hide details for 20102010
2
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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
Ramirez, FidelTutorial Cytoscape
In: Bioinformática: Aplicaciones a la genómica y proteómica, 73-98
2
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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
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
1
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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
4
Hide details for PosterPoster
Altmann, Andre
Pironti, Alejandro
Perner, Juliane
Büch, Joachim
Lengauer, Thomas
Determination of clinically relevant cutoffs for HIV-1 phenotypic resistance estimates through a combined analysis of clinical trial and cohort data
In: Abstract Book. 8th European Drug Resistance Workshop, 46
Feuerbach, Lars
Lengauer, Thomas
Ancestral germline methylation reconstruction of young repeats
In: Transcription, chromatin structure and DNA repair in development and differentiation, 81
Feuerbach, Lars
Lyngsoe, Rune
Lengauer, Thomas
Hein, Jotun
Comparative Epigenomiocs - Towards Ancestral Germline Methylome Reconstruction
In: Abstracts of papers presented at the 2010 meeting on The Biology of genomes, 87
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
28
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Albrecht, MarioColor blindness
In: Nature Methods [7], 775
Altmann, André
Tolosi, Laura
Sander, Oliver
Lengauer, Thomas
Permutation importance: an unbiased feature importance measure
In: Bioinformatics [26], 1340-1347
Baumbach, JanOn the power and limits of evolutionary conservation - unraveling bacterial gene regulatory networks
In: Nucleic Acids Research [38], 7877-7884
Bock, Christoph
Tomazou, Eleni M.
Brinkman, Arie B.
Müller, Fabian
Simmer, Femke
Gu, Hongcang
Jäger, Natalie
Gnirke, Andreas
Stunnenberg, Hendrik G.
Meissner, Alexander
Attachment IconQuantitative comparison of genome-wide DNA methylation mapping technologies
In: Nature Biotechnology [28], 1106-1114
Bogojeska, Jasmina
Bickel, Steffen
Altmann, André
Lengauer, Thomas
Attachment IconDealing with sparse data in predicting outcomes of HIV combination therapies
In: Bioinformatics [26], 2085-2092
Bozek, Katarzyna
Rosahl, A. L.
Gaub, S.
Lorenzen, S.
Herzel, H.
Circadian transcription in liver
In: Biosystems [102], 61-69
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
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
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
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
Emig, Dorothea
Salomonis, Nathan
Baumbach, Jan
Lengauer, Thomas
Conklin, Bruce R.
Albrecht, Mario
AltAnalyze and DomainGraph: analyzing and visualizing exon expression data
In: Nucleic Acids Research [38], W755-W762
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
Gu, Hongcang
Bock, Christoph
Mikkelsen, Tarjei S.
Jäger, Natalie
Smith, Zachary D.
Tomazou, Eleni
Gnirke, Andreas
Lander, Eric S.
Meissner, Alexander
Attachment IconGenome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution
In: Nature Methods [7], 133-136
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
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
Lengauer, Thomas
Altmann, André
Thielen, Alexander
Kaiser, Rolf
Chasing the AIDS Virus
In: Communications of the ACM [53], 66-74
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
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
Ramírez, Fidel
Albrecht, Mario
Finding scaffold proteins in interactomes
In: Trends in Cell Biology [20], 2-4
Rhee, Soo-Yon
Margeridon-Thermet, Severin
Nguyen, Mindie
Liu, Tommy
Kagan, Ron
Beggel, Bastian
Verheyen, Jens
Kaiser, Rolf
Shafer, Robert
Attachment IconHepatitis B virus reverse transcriptase sequence variant database for sequence analysis and mutation discovery
In: Antiviral Research [88], 269-275
Schlicker, Andreas
Albrecht, Mario
FunSimMat update: new features for exploring functional similarity
In: Nucleic Acids Research [38], D244-D248
Schlicker, Andreas
Lengauer, Thomas
Albrecht, Mario
Improving disease gene prioritization using the semantic similarity of Gene Ontology terms
In: Bioinformatics [26], i561-i567
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
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
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
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
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
Wohlers, Inken
Domingues, Francisco S.
Klau, Gunnar W.
Towards optimal alignment of protein structure distance matrices
In: Bioinformatics [26], 2273-2280
8
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Bozek, Katarzyna
Lengauer, Thomas
Positive selection of HIV host factors and the evolution of lentivirus genes
In: BMC Evolutionary Biology [10], 186,1-186,15
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
Kuroishi, Ayumu
Bozek, Katarzyna
Shioda, Tatsuo
Nakayama, Emi E.
A single amino acid substitution of the human immunodeficiency virus type 1 capsid protein affects viral sensitivity to TRIM5 alpha.
In: Retrovirology [7], 58,1-58,10
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
Roomp, Kirsten
Antes, Iris
Lengauer, Thomas
Predicting MHC class I epitopes in large datasets
In: BMC Bioinformatics [11], 90,1-90,11
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
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
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
5
Hide details for Thesis - Bachelor thesisThesis - Bachelor thesis
Dörr, BarbaraUsing copy number variation fpr predicting susceptibility to glioblastoma
Universität des Saarlandes
Gatzmann, FannyGOdot Sequence - function prediction from protein sequence
Universität des Saarlandes
Kacprowski, TimAnalysis of protein complexes and tissue-spedific expression
Universität des Saarlandes
König, EvaEnv-wide analysis of coreceptor determining sites and subtype-specific differences in HIV-1
Universität des Saarlandes
Speicher, Nora K.Network analysis of viral host factors
Universität des Saarlandes
5
Hide details for Thesis - Masters thesisThesis - Masters thesis
Kuhn Cuellar, Luis EugenioA probabilistic algorithm for matching protein structures - and its application to detecting functionally relevant patterns
Universität des Saarlandes
Loi, Luu PhucIdentifying discriminative motifs for molecular function of proteins
Universität des Saarlandes
Lutsik, PavloProcessing of high-throughput DNA methylation data
Universität des Saarlandes
Perner, JulianeFinding local similarities in gene expression patterns between partially reprogrammed cells and know cell types using a module network approach
Universität des Saarlandes
Stöckel, DanielHistory Based HIV Therapy Outcome Prediction
Universität des Saarlandes
4
Hide details for Thesis - PhD thesisThesis - PhD thesis
Altmann, AndréBioinformatical approaches to ranking of anti-HIV combination therapies and planning of treatment schedules
Universität des Saarlandes
Johannsen, DanielRandom Combinatorial Structures and Randomized Search Heuristics
Universität des Saarlandes
Schlicker, AndreasAttachment IconOntology-based Similarity Measures and their Application in Bioinformatics
Universität des Saarlandes
Zhu, HongboCharacterization, classification and alignment of protein-protein interfaces
Universität des Saarlandes
43
Hide details for 20092009
2
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Adams, Ben
McHardy, Alice
Lundegaard, C.
Lengauer, Thomas
Viral Bioinformatics
In: Modern Genome Annotation - The BioSapiens Network, 429-452
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
4
Hide details for PosterPoster
Feuerbach, Lars
Halachev, Konstantin
Lengauer, Thomas
Bock, Christoph
An exhaustive methode for CpG island annotation
In: Special Issue: Abstracts of the 3rd MC-GARD Meeting, 146-146
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
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
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
22
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Alcaro, Stefano
Artese, Anna
Ceccherini-Silberstein, Francesca
Ortuso, Francesca
Perno, Carlo Federico
Sing, Tobias
Svicher, Valentina
Molecular Dynamics and Free Energy Studies on the Wild-Type and Mutated HIV-1
Protease Complexed with Four Approved Drugs: Mechanism of Binding and
In: Journal of Chemical Information and Modeling [49], 1751-1761
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
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
Blankenburg, Hagen
Finn, Robert D.
Prlić, Andreas
Jenkinson, Andrew M.
Ramírez, Fidel
Emig, Dorothea
Schelhorn, Sven-Eric
Büch, Joachim
Lengauer, Thomas
Albrecht, Mario
DASMI: exchanging, annotating and assessing molecular interaction data
In: Bioinformatics [25], 1321-1328
Bock, ChristophAttachment IconEpigenetic biomarker development
In: Epigenomics [1], 99-110
Bock, Christoph
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas
Attachment IconEpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data
In: Genome Biology [10], R14.1-R14.14
Hartmann, Christoph
Antes, Iris
Lengauer, Thomas
Docking and scoring with alternative side-chain conformations
In: Proteins: Structure, Function, and Bioinformatics [74], 712-726
Kono, Ken
Bozek, Kasia
Domingues, Francisco S.
Shioda, Tatsuo
Nakayama, Emi E.
Impact of a single amino acid in the variable region 2 of the Old World monkey TRIM5alpha SPRY (B30.2) domain on anti-human immunodeficiency virus type 2 activity
In: Virology [388], 160-168
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
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
Lengauer, Thomas
Altmann, André
Thielen, Alexander
Bioinformatische Unterstützung der Auswahl von HIV Therapien
In: Informatik Spektrum [32], 320-331
Lengauer, Thomas
Kaiser, Rolf
Computerjagd auf das AIDSVIRUS
In: Spektrum der Wissenschaft [08], 62-67
Lengauer, Thomas
Sierra, S.
Kaiser, Rolf
Resistenzbestimmung
In: MMW Fortschritte in der Medizin [151], 74-75
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
Moser, Dirk
Ekawardhani, Savira
Kumsta, Robert
Palmason, Haukur
Bock, Christoph
Athanassiadou, Zoi
Lesch, Klaus-Peter
Meyer, Jobst
Attachment IconFunctional Analysis of a Potassium-Chloride Co-Transporter 3 (SLC12A6) Promoter Polymorphism Leading to an Additional DNA Methylation Site
In: Neuropsychopharmacology [34], 458-467
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
Roomp, Kirsten
Rand, Jacquie
Intensive blood glucose control is safe and effective in diabetic cats using home monitoring and treatment with glargine
In: Journal of feline medicine and surgery [11], 668-682
Schüffler, Peter
Mikeska, Thomas
Waha, Andreas
Lengauer, Thomas
Bock, Christoph
Attachment IconMethMarker: User-friendly design and optimization of gene-specific DNA methylation assays
In: Genome Biology [10], R105:1-R105:10
Sichtig, Nadine
Sierra, Saleta
Kaiser, Rolf
Däumer, Martin
Reuter, Stefan
Schülter, Eugen
Altmann, André
Fätkenheuer, Gerd
Dittmer, Ulf
Pfister, Herbert
Esser, Stefan
Evolution of raltegravir resistance during therapy
In: Journal of antimicrobial chemotherapy [64], 25-32
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
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
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
5
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Blankenburg, Hagen
Ramírez, Fidel
Büch, Joachim
Albrecht, Mario
DASMIweb: online integration, analysis and assessment of distributed protein interaction data
In: Nucleic Acids Research [37], W122-W128
Bozek, Kasia
Relógio, Angela
Kielbasa, Szymon M.
Heine, Markus
Dame, Christof
Kramer, Achim
Herzel, Hanspeter
Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12
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
McHardy, Alice C.
Adams, Ben
The role of genomics in tracking the evolution of influenza A virus
In: PLoS Pathog [5], e1000566
Zhang, Yingying
Rohde, Christian
Tierling, Sascha
Jurkowski, Tomasz P.
Bock, Christoph
Santacruz, Diana
Ragozin, Sergey
Reinhardt, Richard
Groth, Marco
Walter, Jörn
Jeltsch, Albert
Attachment IconDNA methylation analysis of chromosome 21 gene promoters at single base pair and single allele resolution
In: PLoS Genetics [5], e1000438:1-e1000438:15
3
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Ebert, PeterComputational Analysis of genomic HPV data
Universität des Saarlandes
Mangels, MiriamIn Silico Models for the Prediction of Metabolism by Cytochrome P450 Enzymes
Universität des Saarlandes
Weimann, AaronUsing multidimensional Scaling for visualizing similarities of proteins
Universität des Saarlandes
5
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Diehl, SarahAnalysis and reconstruction of protein complex topology
Universität des Saarlandes
Doncheva, Nadezhda, T.Analysis and visualization of residue interaction networks
Universität des Saarlandes
Gwinner, FrederikAssessing the Conservation of Protein Function on Evolutionary Defined Patches
Universität des Saarlandes
Müller, FabianAssessing Antibody Neutralization of HIV-1 as an Initial Step in the Search for gp160-based Immunogens
Universität des Saarlandes
Pironti, AlejandroProbabilistic disease gene prioritization
Universität des Saarlandes
2
Hide details for Thesis - Habilitation thesisThesis - Habilitation thesis
Antes, IrisComputational Methods for the Investigation of Protein-Ligand Interactions
Universität des Saarlandes
Sommer, IngolfAttachment IconFrom Protein Structure to Function
Universität des Saarlandes
54
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2
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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
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
5
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Bickel, Steffen
Bogojeska, Jasmina
Lengauer, Thomas
Sheffer, Tobias
Attachment IconMulti-Task Learning for HIV Therapy Screening
In: Proceedings, Twenty-Fifth International Conference on Machine Learning, 56-63
Emig, Dorothea
Klein, Karsten
Kunert, Anne
Mutzel, Petra
Albrecht, Mario
Visualizing domain interaction networks and the impact of alternative splicing events
In: Proceedings of the 5th International Conference on BioMedical Visualization (MediVis): Information Visualization in Medical and Biomedical Informatics, 36-43
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
Saigo, Hiroto
Tsuda, Koji
Iterative Subgraph Mining for Principal Component Analysis.
In: Proceedings of the IEEE International Conference on Data Mining (ICDM2008), DM934
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
1
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Feuerbach, Lars
Christopher, Bock
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas
Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis
In: Abstracts of the 2nd MC-GARD Meeting, 230
10
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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
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
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
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
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
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
Sander, Oliver
Altmann, Andre
Lengauer, Thomas
Computational analysis of covariation and interactions between HIV-1 reverse transcriptase and Integrase
In: Reviews in Antiviral Therapy, 113-114
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
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
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
23
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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
Assenov, Yassen
Ramírez, Fidel
Schelhorn, Sven-Eric
Lengauer, Thomas
Albrecht, Mario
Computing topological parameters of biological networks
In: Bioinformatics [24], 282-284
Bock, ChristophIVF: stars may have to consider the risk of stolen parenthood
In: Nature [454], 938
Bock, Christoph
Lengauer, Thomas
Attachment IconComputational epigenetics
In: Bioinformatics [24], 1-10
Bock, Christoph
Walter, Jörn
Paulsen, Martina
Lengauer, Thomas
Attachment IconInter-individual variation of DNA methylation and its implications for large-scale epigenome mapping
In: Nucleic Acids Research [36], e55
Bogojeska, Jasmina
Alexa, Adrian
Altmann, André
Lengauer, Thomas
Rahnenführer, Jörg
Attachment IconRtreemix: an R package for estimating evolutionary pathways and genetic progression scores
In: Bioinformatics [24], 2391-2392
Bogojeska, Jasmina
Lengauer, Thomas
Rahnenführer, Jörg
Stability analysis of mixtures of mutagenetic trees
In: BMC Bioinformatics [9], 165-181
Emig, Dorothea
Cline, Melissa S.
Klein, Karsten
Kunert, Anne
Mutzel, Petra
Lengauer, Thomas
Albrecht, Mario
Integrative visual analysis of the effects of alternative splicing on protein domain interaction networks
In: Journal of Integrative Bioinformatics [5], 101-115
Emig, Dorothea
Cline, Melissa S.
Lengauer, Thomas
Albrecht, Mario
Integrating expression data with domain interaction networks
In: Bioinformatics [24], 2546-2548
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
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
Jenkinson, Andrew M.
Albrecht, Mario
Birney, Ewan
Blankenburg, Hagen
Down, Thomas
Finn, Robert D.
Hermjakob, Henning
Hubbard, Tim J. P.
Jimenez, Rafael C.
Jones, Philip
Kähäri, Andreas
Kulesha, Eugene
Macías, José R.
Reeves, Gabrielle A.
Prlić, Andreas
Integrating biological data - the Distributed Annotation System
In: BMC Bioinformatics [9], S3.1-7
Kircher, Martin
Bock, Christoph
Paulsen, Martina
Attachment IconStructural conservation versus functional divergence of maternally expressed microRNAs in the Dlk1/Gtl2 imprinting region
In: BMC Genomics [9], 346
Lisurek, Michael
Simgen, Birgit
Antes, Iris
Bernhardt, Rita
Theoretical and Experimental Evaluation of a CYP106A2 Low Homology Model and Production of Mutants with Changed Activity and Selectivity of Hydroxylation
In: ChemBioChem [9], 1439-1449
Lucas, Simon
Heim, Ralph
Negri, Matthias
Antes, Iris
Ries, Christina
Schewe, Katarzyna E.
Bisi, Alessandra
Gobbi, Silvia
Hartmann, Rolf W.
Novel Aldosterone Synthase Inhibitors with Extended Carbocyclic Skeleton by a Combined Ligand-Based and Structure-Based Drug Design Approach
In: Journal of Medical Chemistry [51], 6138-6149
Schelhorn, Sven-Eric
Lengauer, Thomas
Albrecht, Mario
An integrative approach for predicting interactions of protein regions
In: Bioinformatics [24], i35-i41
Schlicker, Andreas
Albrecht, Mario
Attachment IconFunSimMat: a comprehensive functional similarity database
In: Nucleic Acids Research [36], D434-D439
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
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
Weinhold, Nils
Sander, Oliver
Domingues, Francisco S.
Lengauer, Thomas
Sommer, Ingolf
Attachment IconLocal function conservation in sequence and structure space
In: PLoS Computational Biology [4], e1000105
Welsch, Christoph
Domingues, Francisco S.
Susser, Simone
Antes, Iris
Hartmann, Christoph
Mayr, Gabriele
Schlicker, Andreas
Sarrazin, Christoph
Albrecht, Mario
Zeuzem, Stefan
Lengauer, Thomas
Attachment IconMolecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of HCV
In: Genome Biology [9], R16
Zhu, Hongbo
Sommer, Ingolf
Lengauer, Thomas
Domingues, Francisco S.
Attachment IconAlignment of Non-Covalent Interactions at Protein-Protein Interfaces
In: PLoS ONE [3], e1926
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
3
Hide details for Thesis - Bachelor thesisThesis - Bachelor thesis
Müller, FabianInferring virological response to antiretroviral combination therapy based on past treatment lines
Universität des Saarlandes
Perner, JulianeAttachment IconSemi-Supervised Learning for Predicting Anti-HIV Drug Resistance
Universität des Saarlandes
Stöckel, DanielProtein Surface Remeshing and Characterisation Using Morse-Smale Complexes
Universität des Saarlandes
3
Hide details for Thesis - Masters thesisThesis - Masters thesis
Djoumbou, YannickMolecular Dynamics based prediction of HIV-1 drug resistance
Universität des Saarlandes
Fischer, SandraStructure-based prediction of HIV-1 drug resistance
Universität des Saarlandes
Schüffler, PeterMethMarker – A toolkit for design, optimization and validation of DNA methylation biomarkers for cancer diagnosis and therapy optimization
Universität des Saarlandes
7
Hide details for Thesis - PhD thesisThesis - PhD thesis
Bock, ChristophComputational Epigenetics - Bioinformatic methods for epigenome prediction, DNA methylation mapping and cancer epigenetics
Universität des Saarlandes
Hartmann, ChristophModeling of Flexible Side Chains for Protein-Ligand Docking
Universität des Saarlandes
Maydt, JochenAnalysis of recombination in Molecular Sequence Data
Universität des Saarlandes
Sander, OliverStructural Descriptors for the Analysis of Protein Structure, Function, and Evolution
Universität des Saarlandes
Sing, TobiasModel-Based Anti HIV Therapy
Universität des Saarlandes
Steffen, AndreasComputational Approaches in Supramolecular Chemistry with a special Focus on Virtual Screening
Universität des Saarlandes
Talwar, PritiDevelopment of Computational Methods for Metabolic Network Analysis based on Metabolomics Data
Universität des Saarlandes
68
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3
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Lengauer (ed.)Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and Structures
Lengauer (ed.)Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular Interactions
Lengauer (ed.)Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function
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Bock, Christoph
Lengauer, Thomas
Attachment IconComputational Epigenetics: Bioinformatik für neue Wege in der Krebsforschung
In: Jahrbuch 2007, 271-277
Domingues, Francisco S.
Lengauer, Thomas
Inferring Protein Function from Protein Structure
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1211-1252
Kämper, Andreas
Rognan, Didier
Lengauer, Thomas
Lead Identification by Virtual Screening
In: Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular Interactions, 651-704
Lengauer, ThomasBioinformatik
In: Technologiefüher - Grundlagen, Anwendungen, Trends, 4
Lengauer, ThomasFuture Trends
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1651-1687
Lengauer, ThomasIntroduction
In: Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and Structures, 1-24
Lengauer, ThomasStrategiekonzept "Molekulare Bioinformatik"
In: Informatikforschung in Deutschland, 9
Rahnenführer, Jörg
Lengauer, Thomas
Analysis of Expression Data: Classification of genes
In: Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular Interactions, 993-1021
Roomp, KirstenEvolution of Drug Resistance in HIV
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1457-1496
Sommer, IngolfProtein Fold Recognition Based on Distant Homologs
In: Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and Structures, 351-388
1
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Lengauer, Rost, Schuster (ed.)Proceedings ISMB2007
1
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Sing, Tobias
Beerenwinkel, Niko
Attachment IconMutagenetic tree Fisher kernel improves prediction of HIV drug resistance from viral genotype
In: Advances in Neural Information Processing Systems 19, 1-9
3
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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, -
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
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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, -
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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.
Attachment IconSelective 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
Altmann, Andre
Beerenwinkel, Niko
Sing, Tobias
Savenkov, Igor
Däumer, Martin
Kaiser, Rolf
Rhee, Soo-Yon
Fessel, W Jeffrey
Shafer, Robert W
Lengauer, Thomas
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In: Antiviral Therapy [12], 169-178
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Walter, Jörn
Paulsen, Martina
Lengauer, Thomas
Attachment IconCpG Island Mapping by Epigenome Prediction
In: PLoS Computational Biology [3], 1055-1070
Ceccherini-Silberstein, Francesca
Svicher, Valentina
Sing, Tobias
Artese, Anna
Santoro, Maria Mercedes
Forbici, Federica
Bertoli, Ada
Alcaro, Stefano
Palamara, Guido
Monforte, Antonella d'Arminio
Balzarini, Jan
Antinori, Andrea
Lengauer, Thomas
Perno, Carlo Federico
Attachment IconCharacterization and structural analysis of novel mutations in human immunodeficiency virus type 1 reverse transcriptase involved in the regulation of restistance to nonnucleoside inhibitors
In: Journal of Virology [81], 11507-11519
Domingues, Francisco S.
Rahnenführer, Jörg
Lengauer, Thomas
Conformational analysis of alternative protein structures
In: Bioinformatics [23], 3131-3138
Flockerzi, Aline
Maydt, Jochen
Frank, Oliver
Ruggieri, Alessia
Maldener, Esther
Seifarth, Wolfgang
Medstrand, Patrik
Lengauer, Thomas
Meyerhans, Andreas
Leib-Mosch, Christine
Meese, Eckart
Mayer, Jens
Attachment IconExpression pattern analysis of transcribed HERV sequences is complicated by ex vitvo recombination
In: Retrovirology [4], 39
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
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
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Fölsch, Ulrich R.
Lengauer, Thomas
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Krawczak, Michael
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A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211
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Antes, Iris
Lengauer, Thomas
Attachment IconIRECS: A new algorithm for the selection of most probable ensembles of side-chain conformations in protein models.
In: Protein Science [16], 1294-1307
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
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Welsch, Christoph
Takahashi, Yoshitomo
Miyajima, Hiroaki
Mihm, Ulrike
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Zeuzem, Stefan
Sarrazin, Christoph
Identification and in silico characterization of a novel compound heterozygosty associated with hereditary aceruloplasminemia
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Ketter, Ralf
Kim, Yoo-Jin
Storck, Simone
Rahnenführer, Jörg
Romeike, Bernd F.M.
Steudel, Wolf-Ingo
Zang, Klaus D.
Henn, Wolfram
Attachment IconHyperdiploidy defines a distinct cytogenetic entity of meningiomas
In: Journal of Neuro-Oncology [83], 213-221
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
Kupfer, Bernd
Sing, Tobias
Schüffler, Peter
Hall, Rabea
Kurz, Ralf
McKeown, Astrid
Schneweis, Karl-Eduard
Eberl, Wolfgang
Oldenburg, Johannes
Brackmann, Hans H.
Rockstroh, Jürgen K.
Spengler, Ulrich
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Matz, Bertfried
Fifteen years of env C2V3C3 evolution in six individuals clonally infected with human immunodeficiency virus type 1
In: Journal of Medical Virology [79], 1629-1639
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Sander, Oliver
Sierra, Saleta
Thielen, Alexander
Kaiser, Rolf
Bioinformatics prediction of HIV coreceptor usage
In: Nature Biotechnology [25], 1407-1410
Liu, Fang
Tostesen, Eivind
Sundet, Jostein K.
Jenssen, Tor-Kristian
Bock, Christoph
Jerstad, Geir Ivar
Thilly, William G.
Hovig, Eivind
Attachment IconThe human genomic melting map
In: PLoS Computational Biology [3], e93
Low, Andrew J.
Dong, Winnie
Chan, Dennison
Sing, Tobias
Swanstrom, Ronald
Jensen, Mark
Pillai, Satish
Good, Benjamin
Harrigan, P. Richard
Current V3 genotyping algorithms are inadequate for predicting X4 co-receptor usage in clinical isolates
In: AIDS [21], F19-F26
Mayr, Gabriele
Domingues, Francisco S.
Lackner, Peter
Attachment IconComparative Analysis of Protein Structure Alignments
In: BMC Structural Biology [7], 1
Mikeska, Thomas
Bock, Christoph
El-Maarri, Osman
Hübner, Anika
Ehrentraut, Denise
Schramm, Johannes
Felsberg, Jörg
Kahl, Philip
Büttner, Reinhard
Pietsch, Torsten
Waha, Andreas
Attachment IconOptimization of Quantitative MGMT Promoter Methylation Analysis Using Pyrosequencing and Combined Bisulfite Restriction Analysis
In: Journal of Molecular Diagnostics [9], 368-381
Ramírez, Fidel
Schlicker, Andreas
Assenov, Yassen
Lengauer, Thomas
Albrecht, Mario
Computational analysis of human protein interaction networks
In: Proteomics [7], 2541-2552
Salamat-Miller, Nazila
Fang, Jianwen
Seidel, Christopher W.
Assenov, Yassen
Albrecht, Mario
Middaugh, C. Russell
Attachment IconA network-based analysis of polyanion-binding proteins utilizing human protein arrays
In: Journal of Biological Chemistry [282], 10153-10163
Sander, Oliver
Sing, Tobias
Sommer, Ingolf
Low, Andrew J.
Cheung, Peter K.
Harrigan, P. Richard
Lengauer, Thomas
Domingues, Francisco S.
Attachment IconStructural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage
In: PLoS Computational Biology [3], 555-564
Scheller, Nicoletta
Resa-Infante, Patricia
de la Luna, Susana
Galao, Rui Pedro
Albrecht, Mario
Kaestner, Lars
Lipp, Peter
Lengauer, Thomas
Meyerhans, Andreas
Díez, Juana
Identification of PatL1, a human homolog to yeast P body component Pat1
In: Biochimica et Biophysica Acta - Molecular Cell Research [1773], 1786-1792
Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario
Attachment IconFunctional evaluation of domain-domain interactions and human protein interaction networks
In: Bioinformatics [23], 859-865
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
Attachment IconFactor 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
Sierra, Saleta
Kaiser, Rolf
Thielen, Alexander
Lengauer, Thomas
Attachment IconGenotypic coreceptor analysis.
In: European Journal of Medical Research [12], 453-462
Sing, Tobias
Low, Andrew J.
Beerenwinkel, Niko
Sander, Oliver
Cheung, Peter K.
Domingues, Francisco S.
Büch, Joachim
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Harrigan, P. Richard
Predicting HIV coreceptor usage on the basis of genetic and clinical covariates
In: Antiviral Therapy [12], 1097-1106
Skrabal, Katharina
Low, Andrew J.
Dong, Winnie
Sing, Tobias
Cheung, Peter K.
Mammano, Fabrizio
Harrigan, P. Richard
Attachment IconDetermining human immunodeficiency virus coreceptor use in a clinical setting: Degree of correlation between two phenotypic assays and a bioinformatic model
In: Journal of Clinical Microbiology [45], 279-284
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
Attachment IconVariants in a novel epidermal collagen gene (COL29A1) are associated with atopic dermatitis
In: PLoS Biology [5], e242.1952-1961
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
Steffen, Andreas
Karasz, Maximilian
Thiele, Carolin
Lengauer, Thomas
Kämper, Andreas
Wenz, Gerhard
Apostolakis, Joannis
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In: New Journal of Chemistry [31], 1941-1949
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Thiele, Carolin
Tietze, Simon
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Kämper, Andreas
Lengauer, Thomas
Wenz, Gerhard
Apostolakis, Joannis
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In: Chemistry [13], 6801-6809
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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
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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
Attachment IconThe implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500
Welker, Martin W.
Hofmann, Wolf-Peter
Welsch, Christoph
von Wagner, Michael
Herrmann, Eva
Lengauer, Thomas
Zeuzem, Stefan
Sarrazin, Christoph
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In: Journal of Viral Hepatitis [14], 338-349
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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
2
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Kamradt, Jörn
Jung, Volker
Wahrheit, Kerstin
Tolosi, Laura
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Schilling, Martin
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Davis, Sean
Stöckle, Michael
Meltzer, Paul
Wullich, Bernd
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In: PLoS ONE [2], e769
Schlicker, Andreas
Rahnenführer, Jörg
Albrecht, Mario
Lengauer, Thomas
Domingues, Francisco S.
Attachment IconGOTax: investigating biological processes and biochemical activities along the taxonomic tree
In: Genome Biology [8], R33.1-10
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Lengauer, Oette, Selbig, Hoffmann, Poggensee, Hamouda, Häussinger, Kaiser (ed.)European Journal of Medical Research
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Bogojeska, JasminaStability analysis of oncogenetic trees mixture models
Universität des Saarlandes
Dietzen, MatthiasAn additive tree-based approach to the prediction of the strength of acidity for drug-like molecules
Universität des Saarlandes
Feuerbach, LarsAttachment IconTowards Comparative Epigenomics: A Pilot Study on DNA Methylation of CpG Islands on Human Chromosome 21
Universität des Saarlandes
Haid, CarlaBSIFlex: Binding Site Identification including protein flexibility
Universität des Saarlandes
Kircher, MartinIn silico analysis of microRNA genes on human chromosome 14 and mouse chromosome 12
Universität des Saarlandes
Korbel, Ulli S.Identification of Symmetries in Molecules and Complexes
Universität des Saarlandes
Müller, OliverUsing Shape Retrieval Techniques for Identifying Similar Protein Binding Sites
Universität des Saarlandes
Schelhorn, Sven-EricPrediction of Domain and Motif Interactions from Protein Networks
Universität des Saarlandes
Volkamer, AndreaAutomated generation of pharmacophore type constraints to improve FlexX docking
Universität des Saarlandes
Weisser, HendrikEstimating the local variance of protein structure models
Universität des Saarlandes
2
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Blankenburg, HagenA Distributed Annotation System for Molecular Interactions
Ruprecht Karl Universität Heidelberg; Universität Heilbronn
Emig, DorotheaThe Impact of Alternative Splicing on Protein Interaction Networks
Eberhard Karls Universität Tübingen
57
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Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas
Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99
3
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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
Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
Virtual screening for guest molecules of a biosensor
In: Biosensors 2006: The ninth world congress on biosensors, O66
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
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Lengauer, Thomas
Refinement of homology modeled protein structures for molecular docking
In: Proceedings of the 367. WE-Heraeus Seminar on Biomolecular Simulations, 1
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Albrecht, Mario
Takken, Frank L. W.
Update on the domain architectures of NLRs and R proteins
In: Biochemical and Biophysical Research Communications [339], 459-462
Alexa, Adrian
Rahnenführer, Jörg
Lengauer, Thomas
Attachment IconImproved Scoring of Functional Groups from Gene Expression Data by Decorrelating GO Graph Structure
In: Bioinformatics [22], 1600-1607
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Siu, Shirley Weng-In
Lengauer, Thomas
Attachment IconDynaPred: A structure and sequence based method for the prediction of MHC class I binding peptide sequence and conformations
In: Bioinformatics [22], 16-24
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In: Deutsches Ärzteblatt PRAXiS [103], 10-11
Bock, Christoph
Hesser, Jürgen
Attachment IconAnalysis and Prediction of Helix Shift Errors in Homology Modeling
In: In Silico Biology [6], 131-145
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
Heckmann-Pohl, Dorothee M.
Bastian, Sabine
Altmeier, S.
Antes, Iris
Improvement of the fungal enzyme pyranose 2-oxidase using protein engineering
In: Journal of Biotechnology [124], 26-40
Heil, Burkhard
Ludwig, Jost
Lichtenberg-Fraté, Hella
Lengauer, Thomas
Computational recognition of potassium channel sequences
In: Bioinformatics [13], 1562-1568
Kämper, Andreas
Apostolakis, Joannis
Rarey, Matthias
Marian, Christel Maria
Lengauer, Thomas
Fully Automated Flexible Docking of Ligands into Flexible Synthetic Receptors Using Forward and Inverse Docking Strategies
In: Journal of Chemical Information and Modeling [46], 903-911
Lehmann, Clara
Däumer, Martin
Bousaad, Ibrahim
Sing, Tobias
Beerenwinkel, Niko
Lengauer, Thomas
Schmeisser, Norbert
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Fätkenheuer, Gerd
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Stable coreceptor usage of HIV in patients with ongoing treatment failure on HAART
In: Journal of Clinical Virology [37], 300-304
Lengauer, Thomas
Domingues, F.S.
Sommer, Ingolf
Zhu, Hongbo
Analysis and prediction of protein-protein-interaction types
In: BMC Bioinformatics [7], -
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Sing, Tobias
Bioinformatics-assisted anti-HIV therapy
In: Nature Reviews Microbiology [4], 790-797
Maydt, Jochen
Lengauer, Thomas
Recco: recombination analysis using cost optimization
In: Bioinformatics [22], 1064-1071
Mihm, Ulrike
Grigorian, Natalia
Welsch, Christoph
Herrmann, Eva
Kronenberger, Bernd
Teuber, Gerlinde
von Wagner, Michael
Hofmann, Wolf-Peter
Albrecht, Mario
Lengauer, Thomas
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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
Neumann, Dirk
Kohlbacher, Oliver
Merkwirth, Christian
Lengauer, Thomas
A Fully Computational Model for Predicting Percutaneous Drug Absorption
In: Journal of Chemical Information and Modeling [1], 424-429
Neumann, Dirk
Kohlbacher, Oliver
Merkwirth, Christian
Lengauer, Thomas
Prediction of percutaneous drug absorption
In: Journal of Chemical Information and Modeling [1], 424-429
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Welsch, Christoph
Giron-Monzon, Luis
Friedhoff, Peter
Albrecht, Mario
Piiper, Albrecht
Biondi, Ricardo M.
Lengauer, Thomas
Zeuzem, Stefan
Raedle, Jochen
Attachment IconMutations in the MutSalpha interaction interface of MLH1 can abolish DNA mismatch repair
In: Nucleic Acids Research [34], 6574-6586
Roomp, Kirsten
Beerenwinkel, Niko
Sing, Tobias
Schülter, Eugen
Büch, Joachim
Sierra-Aragon, Saleta
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Lengauer, Thomas
Selbig, Joachim
Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV
In: Lecture Notes in Computer Science [4075], 185-194
Salamat-Miller, Nazila
Fang, Jianwen
Seidel, Christopher W.
Smalter, Aaron M.
Assenov, Yassen
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Middaugh, C. Russell
A network-based analysis of polyanion-binding proteins utilizing yeast protein arrays
In: Molecular and Cellular Proteomics [5], 2263-2278
Sing, Tobias
Sander, Oliver
Beerenwinkel, Niko
Lengauer, Thomas
ROCR: Visualizing classifier performance in R
In: Bioinformatics [21], 3940-3941
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Kämper, Andreas
Lengauer, Thomas
Flexible Docking of Ligands into Synthetic Receptors Using a Two-Sided Incremental Construction Algorithm
In: Journal of Chemical Information and Modeling [46], 1695-1703
Svicher, Valentina
Sing, Tobias
Santoro, Maria Mercedes
Forbici, Federica
Rodriguez- Barrios, Fátima
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Bellocchi, Maria Concetta
Gago, Federigo
d´Arminio Monforte, Antonella
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Involvement of novel HIV-1 reverse transcriptase mutations in the regulation of resistance to nucleoside inhibitors
In: Journal of Virology [80], 7186-7198
Takken, Frank L. W.
Albrecht, Mario
Tameling, Wladimir I.
Resistance proteins: molecular switches of plant defence
In: Current Opinion in Plant Biology [9], 383-390
Tameling, Wladimir I.
Vossen, Jack H.
Albrecht, Mario
Lengauer, Thomas
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Haring, Michel A.
Cornelissen, Ben J.C.
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Mutations in the NB-ARC domain of I-2 that impair ATP hydrolysis cause autoactivation
In: Plant Physiology [140], 1233-1245
Torda, Andrew E.
Lengauer, Thomas
Attachment IconEditorial: Selection of papers of the German Conference of Bioinformatics (GCB) 2005
In: Bioinformatics [22], 1
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
Verheyen, Jens
Litau, Elena
Sing, Tobias
Däumer, Martin
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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
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Antes, Iris
Scherer, Christiane
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Biemel, Klaus
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In: Journal of Medicinal Chemistry [49], 2222-2231
Yin, Junming
Beerenwinkel, Niko
Rahnenführer, Jörg
Lengauer, Thomas
Attachment IconModel Selection for Mixtures of Mutagenetic Trees
In: Statistical Applications in Genetics and Molecular Biology [5], Article 17
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Tierling, Sascha
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Walter, Jörn
Attachment IconCpG Island Methylation in Human Lymphocytes Is Highly Correlated with DNA Sequence, Repeats, and Predicted DNA Structure
In: PLoS Genetics [2], 0243-0252
Sander, Oliver
Sommer, Ingolf
Lengauer, Thomas
Local protein structure prediction using discriminative models
In: BMC Bioinformatics [7], 1-13
Schlicker, Andreas
Domingues, Francisco S.
Rahnenführer, Jörg
Lengauer, Thomas
Attachment IconA new measure for functional similarity of gene products based on Gene Ontology
In: BMC Bioinformatics [7], 1-16
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
Zhu, Hongbo
Domingues, Francisco S.
Sommer, Ingolf
Lengauer, Thomas
NOXclass: prediction of protein-protein interaction types
In: BMC Bioinformatics [7], 1-15
7
Hide details for Thesis - Bachelor thesisThesis - Bachelor thesis
Frings, OliverDevelopment of a
Smith-Waterman-Like Multi-Aspect
Alignment Tool
Universität des Saarlandes
Glaab, EnricoOn the predictability of CpG methylation in human tissue at single basepair resolution
Universität des Saarlandes
Hobler, AnnaDocking of monosaccharids into the wild type and mutants of pyranose 2-oxidase
Universität des Saarlandes
Jung, HolgerYamada Analyzer - A tool for fast calculation of genomic attributes
Universität des Saarlandes
Pfeifer, SusanneDevelopment of a fast
geometry-based screening
compound prefiltering technique
Universität des Saarlandes
Reimer, DanielaDocking studies to investigate the effect of correlated mutations in the HIV-Protease on the drug resistance of HIV
Universität des Saarlandes
Zimmer, TobiasFunctional Site Scaffolds
Universität des Saarlandes
8
Hide details for Thesis - Masters thesisThesis - Masters thesis
Assenov, YassenTopological Analysis of Biological
Networks
Universität des Saarlandes
Binsl, ThomasFeature Prints: A new method for calculating molecular similarities
Universität des Saarlandes
Guo, XinImproving Fold Recognition Using Protein
and Domain Interactions
Universität des Saarlandes
Halachev, KonstantinEpiGRAPHregression: A toolkit for (epi-)genomic correlation analysis and prediction of quantitative attributes
Universität des Saarlandes
Kaspar, MelanieAutomated conformational analysis of macrocyclic ring systems
Universität des Saarlandes
Thielen, AlexanderPrediction of linear B-cell epitopes and MHC class II binding peptides
Eberhardt-Karls-Universität Tübingen
Tolosi, LauraAnalysis of Array CGH Data for the Estimation of Genetic Tumor Progression
Universität des Saarlandes
Weinhold, NilsInference of Protein Function based on Functionally Conserved Regions in Sequence and Structure Space
Universität des Saarlandes
1
Hide details for Thesis - PhD thesisThesis - PhD thesis
Albrecht, MarioCombining protein structure prediction with experiments and functional information
Universität des Saarlandes
1
Hide details for Thesis - Habilitation thesisThesis - Habilitation thesis
Rahnenführer, JörgStatistical methods for the biological interpretation of genome-wide measurements
Universität des Saarlandes
1
Hide details for Thesis - otherThesis - other
Huthmacher, CarolaDecomposing Protein Networks Into
Domain-Domain Interactions
Eberhard Karls University Tübingen
57
Hide details for 20052005
1
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Lengauer, ThomasAttachment IconInformatics (Computational Biology)
In: Growth Factors and Oncogenes in Gastrointestinal Cancers to Informatics (Computational Biology), 567-626
6
Hide details for Proceedings ArticleProceedings Article
Kämper, Andreas
Kaspar, Melanie
Lengauer, Thomas
Efficient conformational analysis of synthetic receptors with macrocyclic and fused ring systems
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O4
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, -
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
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
Svicher, Valentina
Ceccherini-Silberstein, Francesca
Sing, Tobias
Santoro, Maria Mercedes
Gori, C.
Beerenwinkel, Niko
Gago, F.
D'Arrigo, R.
Bellocchi, M. C.
Giannella, S.
Bertoli, A.
D'Arminio Monforte, A.
Antinori, A.
Perno, Carlo-Federico
Additional Mutations in HIV-1 Reverse Transcriptase are Involved in the Highly Ordered Regulation of NRTI Resistance
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -
Svicher, Valentina
Ceccherini-Silberstein, Francesca
Sing, Tobias
Santoro, Maria Mercedes
Gori, C.
Beerenwinkel, Niko
Gago, F.
D'Arrigo, R.
Bellochi, M.C.
Giannella, S.
Bertoli, A.
D'Arminio Monforte, A.
Antinori, A.
Perno, Carlo-Federico
A highly ordered network of HIV-1 RT mutations regulates the continuous escape from antiviral drugs
In: International Workshop in HIV Dynamics and Evolution, -
4
Hide details for PosterPoster
Sing, Tobias
Beerenwinkel, Niko
Kaiser, Rolf
Hoffmann, Daniel
Däumer, Martin
Lengauer, Thomas
Geno2pheno[coreceptor]: a tool for predicting coreceptor usage from genotype and for monitoring coreceptor-associated sequence alterations
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -
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
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
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
32
Hide details for Journal ArticleJournal Article
Albrecht, MarioLRRK2 mutations and parkinsonism
In: The Lancet [365], 1230
Albrecht, Mario
Choubey, Divaker
Lengauer, Thomas
The HIN domain of IFI-200 proteins consists of two OB folds
In: Biochemical and Biophysical Research Communications [327], 679-687
Albrecht, Mario
Huthmacher, Carola
Tosatto, Silvio C.E.
Lengauer, Thomas
Decomposing protein networks into domain-domain interactions
In: Bioinformatics [21], ii220-ii221
Antes, Iris
Merkwirth, Christian
Lengauer, Thomas
POEM: Parameter Optimization using Ensemble Methods: Application to target specific scoring functions
In: Journal of Chemical Information and Modeling [45], 1291-1302
Balduin, Melanie
Beerenwinkel, Niko
Sierra, Saleta
Däumer, Martin
Rockstroh, Jürgen
Oette, Mark
Fätkenheuer, Gerd
Kupfer, Bernd
Hoffmann, Daniel
Selbig, Joachim
Pfister, Herbert
Kaiser, Rolf
Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy
In: J Clin Virol [34], 277-287
Beerenwinkel, Niko
Däumer, Martin
Sing, Tobias
Rahnenführer, Jörg
Lengauer, Thomas
Selbig, Joachim
Hoffmann, Daniel
Kaiser, Rolf
Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
In: The Journal of Infectious Diseases [191], 1953-1960
Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas
Learning multiple evolutionary pathways from cross-sectional data
In: Journal of Computational Biology [12], 584-598
Beerenwinkel, Niko
Rahnenführer, Jörg
Kaiser, Rolf
Hoffmann, Daniel
Selbig, Joachim
Lengauer, Thomas
Mtreemix: a software package for learning and using mixture models of mutagenetic trees
In: Bioinformatics [21], 2106-2107
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
Bock, Christoph
Lengauer, Thomas
Reither, Sabine
Mikeska, Thomas
Paulsen, Martina
Walter, Jörn
Attachment IconBiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing
In: Bioinformatics [21], 4067-4068
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
Castellano, Sergi
Lobanov, Alexey V.
Chapple, Charles
Novoselov, Sergey V.
Albrecht, Mario
Hua, Deame
Lescure, Alain
Lengauer, Thomas
Krol, Alain
Gladyshev, Vadim N.
Guigó, Roderic
Diversity and functional plasticity of eukaryotic selenoproteins: Identification and characterization of the SelJ family
In: Proceedings of the National Academy of Sciences [102], 16188-16193
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
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
Gu, Wei
Kofler, Michael
Antes, Iris
Freund, Christian
Helms, Volkhard
Alternative Binding Modes of Polyproline Peptides Binding to the GYF Domain
In: Biochemistry [44], 6404-6415
Hahn, Andreas
Rahnenführer, Jörg
Talwar, Priti
Lengauer, Thomas
Confirmation of human protein interaction data by human expression data
In: BMC Bioinformatics [6], 1-11
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
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
Lengauer, Thomas
Merkwirth, Christian
Automatic Generation of complementary descriptors with molecular graph networks
In: Journal of Chemical Information and Modeling [45], 1159-1168
Rahnenführer, JörgClustering algorithms and other exploratory methods for microarray data analysis
In: Methods of Information in Medicine [44], 444-448
Rahnenführer, JörgImage analysis for cDNA microarrays
In: Methods of Information in Medicine [44], 405-407
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
Ralser, Markus
Albrecht, Mario
Nonhoff, Ute
Lengauer, Thomas
Lehrach, Hans
Krobitsch, Sylvia
An integrative approach to gain insights into the cellular function of human ataxin-2
In: Journal of Molecular Biology [346], 203-214
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
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
Schreiber, Stefan
Rosenstiel, Philip
Albrecht, Mario
Hampe, Jochen
Krawczak, Michael
Genetics of Crohn disease, an archetypal inflammatory barrier disease
In: Nature Reviews Genetics [6], 376-388
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
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
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
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
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
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
Attachment IconPatients with high grade gliomas harboring delections of chromosomes 9p and 10q benefit from temozolomide treatment
In: Neoplasia [7], 883-893
9
Hide details for Thesis - Bachelor thesisThesis - Bachelor thesis
Djoumbou, YannickDocking studies to investigate the effect of correlated mutations in the HIV-Protease on the drug resistance of HIV
Universität des Saarlandes
Immesberger, StefanAttachment IconA Prefiltering Method to Speed up Protein
Structure Prediction
Universität des Saarlandes
Kaspar, MelanieAttachment IconConformational Analysis of Macrocyclic Ring Systems
Universität des Saarlandes
Krier, MarkusAttachment IconMotif Search in Protein Sequences for Protein
Structure Prediction
Universität des Saarlandes
Meiser, InaIdentification of functionally important regions in cytochrome P450 systems and a systematic analysis of various CYP P450 homology models
Universität des Saarlandes
Nickels, StefanAttachment IconGenerating Molecular Hashcodes for
Finding Duplicates in Virtual Screening
Libraries
Universität des Saarlandes
Volkamer, AndreaAttachment IconImplementation of a method to filter
out compounds with toxic, reactive
and unsuitable functional groups
Universität des Saarlandes
Weiss, JuliaAttachment IconGenerating Frequency Profiles from Multiple
Structure Alignments
Universität des Saarlandes
Yalak, GarifAttachment IconAnalysis of Mutations in the Death Domains, Death Effector Domains, Caspase
Recruitment Domains, and Pyrin Domains
Universität des Saarlandes
5
Hide details for Thesis - Masters thesisThesis - Masters thesis
Alexa, AdrianIntegrating the GO graph structure in scoring the
significance of Gene Ontology terms
Universität des Saarlandes
Ifrim, GeorgianaA Bayesian Learning Approach to Concept-Based Document Classification
Universität des Saarlandes
Schlicker, AndreasA Global Approach to Comparative Genomics: Comparison of Functional Annotation over the Taxonomic Tree
Universität des Saarlandes
Siu, Shirley Weng-InComputational prediction of MHC-peptide interactions
Universität des Saarlandes
Yin, JunmingModel Selection for Mixtures of Mutagenetic Trees
Universität des Saarlandes
41
Hide details for 20042004
1
Hide details for BookBook
Beerenwinkel, NikoComputational Analysis of HIV Drug resistance Data
4
Hide details for Part of a BookPart of a Book
Beerenwinkel, NikoDas Arevir-Projekt : neue Wege zur Optimierung von Anti-HIV-Therapien
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 94-98
Beerenwinkel, NikoMethoden zur Interpretation genotypischer Resistenztests
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 66-68
Domingues, Francisco S.
Lengauer, Thomas
Sommer, Ingolf
Protein Structure Prediction and Databases
In: Nature Encyclopedia of the Human Genome, 864-867
Ramírez, FidelEvolucion de la Evolucionalidad
In: Biologos lejos del equilibrio: Nuevas metaforas evolutivas, 59-87
1
Hide details for ProceedingsProceedings
Thornton, Bourne, Gilbert, Goble, Goldman, Gribskov, Hide, Higgins, Kanehisa, Lengauer, Linial, Myers, Quackenbush, Rebholz-Schuhmann, Rost, Sowdhamini, Valencia, Vingron, Xu (ed.)Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computional Biology 2004 (ISMB/ECCB 2004)
5
Hide details for Proceedings ArticleProceedings Article
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
Beerenwinkel, Niko
Sing, Tobias
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Computing the genetic barrier
In: XII International HIV Drug resistance Workshop, S125-S125
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
Sing, Tobias
Beerenwinkel, Niko
Lengauer, Thomas
Learning mixtures of localized rules by maximizing the area under the ROC curve
In: ROCAI-2004: 1st International Workshop on ROC Analysis in Artificial Intelligence, 89-96
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
5
Hide details for PosterPoster
Hahn, Andreas
Costello, Christine M.
Lu, Tim
Lengauer, Thomas
Schreiber, Stefan
Expression analysis for inflammatory bowel disease
In: Workshop Poster Competition, ?
Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
Development of a new tool for predicting the structure of host-guest complexes
In: Proceedings of the 2nd Summer School Medicinal Chemistry Regensburg 2004, 83
Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
FlexR - Predicting the structure of host-guest complexes
In: Proceedings of the Annual Meeting of the German Pharmaceutical Society - Joint Meeting 2004 (DPhG 2004), 130
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
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
16
Hide details for Journal ArticleJournal Article
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
Albrecht, Mario
Lengauer, Thomas
Novel Sm-like proteins with long C-terminal tails and associated methyltransferases
In: FEBS Letters [569], 18-26
Albrecht, Mario
Lengauer, Thomas
Survey on the PABC recognition motif PAM2
In: Biochemical and Biophysical Research Communications [316], 129-138
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
Domingues, Francisco S.
Rahnenführer, Jörg
Lengauer, Thomas
Automated clustering of ensembles of alternative models in protein structure databases
In: Protein Engineering Design and Selection [17], 537-543
Hannemann, A.
Schön, J.C.
Jansen, M.
Putz, H.
Lengauer, Thomas
Modelling amorphous Si3B3N7: Structure and elastic properties
In: Physical Review [B 70], 144201-144201
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
James, Jackson
Das, Ani V.
Rahnenführer, Jörg
Ahmad, Iqbal
Cellular and Molecular Characterization of Early and Late Retinal Stem Cells/Progenitors: Differential Regulation of Proliferation and Context Dependent Role of Notch Signaling
In: Journal of Neurobiology [61], 359-376
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
Lengauer, Thomas
Lemmen, Christian
Rarey, Matthias
Zimmermann, M.
Novel technologies for virtual screening
In: Drug Discovery Today [9], 27-34
Merkwirth, Christian
Mauser, H.
Schulz-Gasch, T.
Roche, O.
Stahl, M.
Lengauer, Thomas
Ensemble methods for classification in cheminformatics
In: Journal of Chemical Information and Modeling [44], 1971-1978
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
Prlic, Andreas
Domingues, Francisco S.
Lackner, Peter
Sippl, Manfred J.
WILMA-automated annotation of protein sequences
In: Bioinformatics [20], 127-128
Rahnenführer, Jörg
Bozinov, Daniel
Hybrid clustering for microarray image analysis combining intensity and shape features
In: BMC Bioinformatics [5], 1-11
Sommer, Ingolf
Rahnenführer, Jörg
Domingues, Francisco S.
de Lichtenberg, Ulrik
Lengauer, Thomas
Predicting Protein Structure Classes from Function Predictions
In: Bioinformatics [20], 770-776
Stoll, Monika
Corneliussen, Brit
Costello, Christine M.
Waetzig, Georg H.
Mellgard, Bjorn
Koch, W. Andreas
Rosenstiel, Philip
Albrecht, Mario
Croucher, Peter J.P.
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Nikolaus, Susanna
Hampe, Jochen
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Foelsch, Ulrich R.
Mathew, Christopher G.
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Schreiber, Stefan
Genetic variation in DLG5 is associated with inflammatory bowel disease
In: Nature Genetics [36], 376-380
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Domingues, Francisco S.
Maydt, Jochen
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Calculating the statistical significance of changes in pathway activity from gene expression data
In: Statistical Applications in Genetics and Molecular Biology [3], Article 16
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Universität des Saarlandes
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Ramírez, FidelHacia una comprension de la accion de la recombinacion genetica y la mutacion en el origen de la variacion fenotipica, mediante el analisis de la computacion evolutiva
Universidad Nacional de Colombia
Sing, TobiasLearning localized rule mixtures by maximizing the area under the ROC curve, with an application to the prediction of HIV-1 coreceptor usage
Universität Freiburg
Trajkovski, IgorAnalysis of protein binding pocket flexibility
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Sander, OliverLocal sequence-structure relationships in proteins
Friedrich-Alexander-Universität Erlangen-Nürnberg
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Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas
Bioinformatikmethoden für die Optimierung antiviraler Kombinationstherapien
In: MPG Jahrbuch, 481-486
Lengauer, Thomas
Schäfer, M.
Combinatorial Optimization Techniques for Three-Dimensional Arrangement Problems
In: Mathematics - Key Technology for the Future, 63-73
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Däumer, Martin
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Selbig, Joachim
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Estimating effective drug combinations against drug-resistant mutants from genotypes
In: Proceedings of the 1st European HIV Drug Resistamce Workshop, 18-18
Beerenwinkel, Niko
Kaiser, Rolf
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Selbig, Joachim
Lengauer, Thomas
Tree models for the evolution of drug resistance
In: XII International HIV Drug resistance Workshop, S107-S107
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
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Ogorzalek, Maciej
Wichard, Jörg Daniel
Attachment IconStochastic Gradient Descent Training of Ensembles of DT-CNN Classifiers for Digit Recognition
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Rahnenführer, JörgEfficient Clustering Methods for Tumor Classification with Microarrays
In: Proceedings of the 26th Annual Conference of the Gesellschaft für Klassifikation, 670-679
Rahnenführer, JörgStatistical Inference for Clustering Microarrays
In: Proceedings of the MSRI Workshop: Nonlinear Estimation and Classification, 323-332
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
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
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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
Kämper, Andreas
Lengauer, Thomas
Virtual Screening for novel Urease Inhibitors
In: Proceedings of the International Workshop on New Approaches in Drug Design & Discovery, 39
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Bozinov, Daniel
Comparative quality analyses for hybrid clustering of microarray images
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Identification of mammalian orthologs associates PYPAF5 with distinct functional roles
In: FEBS Letters [538], 173-177
Albrecht, Mario
Domingues, Francisco S.
Schreiber, Stefan
Lengauer, Thomas
Structural localization of disease-associated sequence variations in the NACHT and LRR domains of PYPAF1 and NOD2
In: FEBS Letters [554], 520-528
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
Albrecht, Mario
Lengauer, Thomas
Pyranose oxidase identified as a member of the GMC oxidoreductase family
In: Bioinformatics [19], 1216-1220
Albrecht, Mario
Lengauer, Thomas
Schreiber, Stefan
Disease-associated variants in PYPAF1 and NOD2 result in similar alterations of conserved sequence
In: Bioinformatics [19], 2171-2175
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
Antes, Iris
Wang, Hongyun
Chandler, David
Oster, George
The unbinding of ATP from F1-ATPase
In: Biophysical Journal [85], 695-706
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
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
Domingues, Francisco S.
Lengauer, Thomas
Protein Function from Sequence and Structure Data
In: Applied Bioinformatics [2], 3-12
Janssen, A.
Rahnenführer, Jörg
A hazard based approach to dependence tests for bivariate censored models
In: Mathematical Methods in Statistics [11], 297-322
Lengauer, ThomasAnalyzing resistance phenomena in HIV with bioinformatics methods
In: Bioinformatics [19], 92i
Olsen, Lars
Antony, Jens
Ryde, Ulf
Adolph, Hans-Werner
Hemmingsen, Lars
Lactam hydrolysis catalyzed by mononuclear metallo-beta-lactamases: a density functional study
In: Journal of Physical Chemistry / B [107], 2366-2375
Peinado, M.
Lengauer, Thomas
Parallel "go with the winners algorithms" in Distributed Memory Models
In: Journal of Parallel and Distributed Processing [63], 801-814
Rahnenführer, JörgOn preferences of general two-sided tests with applications to Kolmogorov-Smirnov-type tests
In: Statistics & Decisions [21], 115-136
Rahnenführer, Jörg
Futschik, Andreas
Cost-effective screening for differentially expressed genes in microarray experiments based on normal mixtures
In: Austrian Journal of Statistics [32], 225-238
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
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
Zien, Alexander
Fluck, Juliane
Zimmer, Ralf
Lengauer, Thomas
Microarrays: How many do you need?
In: Journal of Computational Biology [10], 653-667
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ECLIPPSE: Environment for Chemical Library Inspection, Pre- and Postprocessing, and Screening Evaluation. User Guide
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Das, Ani V.
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Leon, FAS
Ahmad, Iqbal
Identification of rat brahma (rBRM), a subunit of SWI/SNF chromatin remodeling complex: Involvement in the differentiation of retinal stem cells/progenitors
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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
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
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Rahnenführer, Jörg
Burson, Cathy
Spiegelstein, Ofer
Automated Grid Alignment for High-Throughput Analysis of Microarray Images (CIIST-02)
In: Proceedings of the 2002 International Conference on Imaging Science, Systems, and Technology, 161-167
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
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
Lienhart, Rainer
Maydt, Jochen
An Extended Set of Haar-like Features for Rapid Object Detection
In: Proceedings of the International Conference on Image Processing, 900-903
Maydt, Jochen
Lienhart, Rainer
A Fast Method for Training Support Vector Machines With a Very Large Set of Linear Features
In: Proceedings of the International Conference on Multimedia and Expo, 309-312
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
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Chandler, David
Oster, George
A classical dynamics study of the unbinding of ATP from the F0F1-ATPase
In: Poster book of the European Conference on Computational Biology, Saarbrücken, Germany 2002, -
Hahn, Andreas
Costello, Christine M.
Lu, Tim
Lengauer, Thomas
Schreiber, Stefan
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Docking of Bacterial Cell-Wall Fragments into Glycopeptide Antibiotics
In: From Genes to Drugs via Crystallography: 33rd crytallographic course at the E. Majorana Center, 49
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Lengauer, Thomas
Docking of Ligands into Molecular Tweezers and Molecular Clips
In: Workshop of the SFB 624 'Templates', ?-?
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In: Poster book of the European Conference on Computational Biology, Saarbrücken, Germany 2002, -
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Attachment IconImproving fold recognition of protein threading by experimental distance constraints
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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
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
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
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
Hindle, Sally A.
Rarey, Matthias
Buning, Christian
Lengauer, Thomas
Flexible docking under pharmacophore type constraints
In: Journal of Computer-Aided Molecular Design [16], 129-149
Lengauer, ThomasAusbildung im Bereich Bioinformatik
In: Ernst & Young Report Biotechnologie, Segmentreport Bioinformatik [1], 57-58
Lengauer, ThomasPreface: Special RECOMB 2001 Issue
In: Journal of Computational Biology [9], 147-148
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
Rahnenführer, JörgMultivariate permutation tests for the k-sample problem with clustered data
In: Computational Statistics [17], 165-184
Rahnenführer, Jörg
Bozinov, Daniel
Unsupervised technique for robust target separation and analysis of DNA microarray spots through adaptive pixel clustering
In: Bioinformatics [18], 747-756
Sommer, Ingolf
Zien, Alexander
Öhsen von, Niklas
Zimmer, Ralf
Lengauer, Thomas
Confidence measures for protein fold recognition
In: Bioinformatics [18], 802-812
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
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
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In: Was wissen wir, wenn wir das menschliche Genom kennen, 56-62
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Apostolakis, Joannis
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Docking of Ligands into Artificial Receptors
In: Electronically Excited Molecules: Structure and Dynamics, 37th Symposium for Theoretical Chemistry, P76
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Hofmann, D.
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Derivation of a scoring function for crystal structure prediction
In: Acta Crystallographica [A57], 442-450
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
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
Claussen, C.
Buning, Christian
Rarey, Matthias
Lengauer, Thomas
FlexE: Efficient Molecular Docking Considering Protein Structure Variations
In: Journal of Molecular Biology [308], 377-395
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
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
Schäfer, M.
Lengauer, Thomas
Automated Layout Generation and Wiring Area Estimation for 3D Electronic Modules
In: ASME Journal of Machanical Design [123], 330-336
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
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Klein, Michael L.
The formation of a β-Peptide/DPC-micelle complex studied by MD simulations
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Marian, Christel Maria
Lengauer, Thomas
Docking of Ligands into Artificial Receptors
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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
Ramírez, Fidel
Garcia, Sergio
GenLab: Laboratorio virtual de genetica
In: Acta Biologica Colombiana [5], 45-48
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Denis, M
Martindale, D
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Hayden, Michael R.
Mutations in ABC1 in Tangier disease and familial high-density lipoprotein
In: Nature Genetics [22], 336-45
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Brooks-Wilson, A.
Clee, Susanne M.
Roomp, Kirsten
Zhang, Lin-Hua
Yu, L.
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van Dam, M.
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Ouelette, B. F.
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Fichter, K.
Mott, S.
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Pimstone, S.
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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
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Genomic organization of the human tissue inhibitor of metalloproteinases-3 (TIMP3)
In: Genome Research [5], 483-7
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