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MPI-INF D3 Publications

MPI-INF D3 Publications

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YearAuthor/EditorTitleType
2014Eckel, Sandrah
Baumbach, Jan
Hauschild, Anne-Christin
On the importance of statistics in breath analysis - Hope or curse?Unpublished/Draft
2014Lawyer, GlennCOMET: Adaptive context-based modeling for ultrafast HIV-1 subtype identification.
In: Nucleic Acids Research [42], e144
Journal Article
2014Maurer, Felix
Hauschild, Anne-Christin
Eisinger, Kathrin
Baumbach, Jan
Mayor, Arno
Baumbach, Jörg Ingo
MIMA - A software for analyte identification in MCC/IMS chromatograms by mapping accompanying GC/MS measurements
In: International Journal for Ion Mobility Spectrometry [?], ?
Journal Article
2014Pironti, Alejandro
Lengauer, Thomas
Pfeifer, Nico
Simulation of Sanger-sequencing errors in the context of genotypic tropism determination
In: Antiviral Therapy, A81
Poster
2014Pironti, Alejandro
Pfeifer, Nico
Kaiser, Rolf
Walter, Hauke
Lengauer, Thomas
Accurate prediction of drug-exposure without using established drug-resistance mutations
In: Antiviral Therapy, A75
Poster
2014Pironti, Alejandro
Pfeifer, Nico
Kaiser, Rolf
Walter, Hauke
Lengauer, Thomas
Improved HIV-1 drug-exposure reconstruction with linear support vector machines
In: Reviews in Antiviral Therapy & Infectious Diseases, 67
Poster
2014Pironti, Alejandro
Pfeifer, Nico
Kaiser, Rolf
Walter, Hauke
Lengauer, Thomas
Improved therapy-success prediction with GSS estimated from clinical HIV-1 sequences
In: Abstract Supplement of the HIV Drug Therapy Glasgow Congress 2014, 155
Poster
2014Pironti, Alejandro
Pfeifer, Nico
Lengauer, Thomas
Accurate prediction of drug-exposure without using established drug-resistance mutations
In: Antiviral Therapy, A75
Poster
2014Pironti, Alejandro
Pfeifer, Nico
Lengauer, Thomas
Improved HIV-1 drug-exposure reconstruction with linear support vector machines
In: Reviews in Antiviral Therapy & Infectious Diseases, 67
Poster
2014Pironti, Alejandro
Sierra, Saleta
Kaiser, Rolf
Lengauer, Thomas
Pfeifer, Nico
Simulation of Sanger-sequencing errors in the context of genotypic tropism determination
In: Antiviral Therapy, A81
Poster
2014Smolinska, 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 analysisUnpublished/Draft
2013Beggel, Bastian
Lengauer, Thomas
Inferring short-range linkage information from sequencing chromatograms
In: PLoS One,
Electronic Journal Article
2013Beggel, Bastian
Münk, C.
Däumer, M.
Hauck, K.
Häussinger, D.
Lengauer, Thomas
Ehrhardt, A.
Full genome ultra-deep pyrosequencing associates G-to-A-hypermutation of the hepatitis B virus genome with the natural progression of hepatitis B
In: Journal of Viral Hepatitis [12], 882-889
Journal Article
2013Bhadra, 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
Journal Article
2013Bozek, K.
Lengauer, Thomas
Sierra, S.
Kaiser, Rolf
Domingues, F.S.
Analysis of physicochemical and structural properties determining HIV-1 coreceptor usage
In: PLoS Computational Biology [x], x
Journal Article
2013Dietz, J.
Schelhorn, Sven-Eric
Fitting, D.
Mihm, U.
Susser, S.
Welker, M.-W.
Füller, C.
Däumer, M.
Teuber, G.
Wedemeyer, H.
Berg, T.
Lengauer, Thomas
Z., Stefan
Herrmann, E.
Sarrazin, C.
Deep sequencing reveals mutagenic effects of ribavirin during monotherapy of HCV genotype 1-infected patients
In: Journal of Virology [87], 6172-6181
Journal Article
2013Ellinghaus, David
Zhang, Hu
Zeissig, Sebastian
Lipinski, Simone
Till, Andreas
Jiang, Tao
Stade, Björn
Bromberg, Yana
Ellinghaus, Eva
Keller, Andreas
Rivas, Manuel A.
Skieceviciene, Jurgita
Doncheva, Nadezhda T.
Liu, Xiao
Liu, Qing
Jiang, Fuman
Forster, Michael
Mayr, Gabriele
Albrecht, Mario
Häsler, Robert
Boehm, Bernhard O.
Goodall, Jane
Berzuini, Carlo R.
Lee, James
Andersen, Vibeke
Vogel, Ulla
Kupcinskas, Limas
Kayser, Manfred
Krawczak, Michael
Nikolaus, Susanna
Weersma, Rinse K.
Ponsioen, Cyriel Y.
Sans, Miquel
Wijmenga, Cisca
Strachan, David P.
McArdle, Wendy L.
Vermeire, Séverine
Rutgeerts, Paul
Sanderson, Jeremy D.
Mathew, Christopher G.
Vatn, Morten H.
Wang, Jun
Nöthen, Markus M.
Duerr, Richard H.
Büning, Carsten
Brand, Stephan
Glas, Jürgen
Winkelmann, Juliane
Illig, Thomas
Latiano, Anna
Annese, Vito
Halfvarson, Jonas
D'Amato, Mauro
Daly, Mark J.
Nothnagel, Michael
Karlsen, Tom H.
Subramani, Suresh
Rosenstiel, Philip
Schreiber, Stefan
Parkes, Miles
Franke, Andre
Association between variants of PRDM1 and NDP52 and Crohn's disease, based on exome sequencing and functional studies
In: Gastroenterology [145], 339-347
Journal Article
2013Halachev, Konstantin
Bast, H.
Lengauer, Thomas
Bock, Christoph
Interactive exploration of large genome and epigenome datasets in real time
In: Genome Biology [13], xx
Journal Article
2013Hauschild, Anne-Christin
Baumbach, Joerg Ingo
Baumbach, Jan
Attachment IconPaving the Way for Automated Clinical Breath Analysis and Biomarker DetectionMiscellaneous
2013Hauschild, Anne-Christin
Kopczynski, Dominik
D'Addario, Marianna
Baumbach, Joerg Ingo
Rahmann, Sven
Baumbach, Jan
Peak Detection Method Evaluation for Ion Mobility Spectrometry by using Machine Learning Approaches
In: Metabolites [3], 277-293
Electronic Journal Article
2013Kacprowski, 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
Journal Article
2013Kalaghatgi, Prabhav
Lawyer, Glenn
Inter-country mixing in HIV transmission clusters: a pan-European phylodynamics study
In: Abstract Book 11th European HIV & Hepatitis Workshop, 9
Poster
2013Kalinina, Olga
Pfeifer, Nico
Lengauer, Thomas
Modelling binding between CCR5 and CXCR4 receptors and their ligands suggests the surface electrostatic potential of the co-receptor to be a key player in the HIV-1 tropism
In: Retrovirology [10], 130
Journal Article
2013Le, Hai-Son
Schulz, Marcel Holger
McCauley, Brenna MM
Hinman, Veronica F
Bar-Joseph, Ziv
Probabilistic error correction for RNA sequencing
In: Nucleic Acids Researcb [41], e109
Journal Article
2013Liu, Jimmy Z.
Hov, Johannes Roksund
Folseraas, Trine
Ellinghaus, Eva
Rushbrook, Simon M.
Doncheva, Nadezhda T.
Andreassen, Ole A.
Weersma, Rinse K.
Weismuller, Tobias J.
Eksteen, Bertus
Invernizzi, Pietro
Hirschfield, Gideon M.
Gotthardt, Daniel Nils
Pares, Albert
Ellinghaus, David
Shah, Tejas
Juran, Brian D.
Milkiewicz, Piotr
Rust, Christian
Schramm, Christoph
Muller, Tobias
Srivastava, Brijesh
Dalekos, Georgios
Nothen, Markus M.
Herms, Stefan
Winkelmann, Juliane
Mitrovic, Mitja
Braun, Felix
Ponsioen, Cyriel Y.
Croucher, Peter J. P.
Sterneck, Martina
Teufel, Andreas
Mason, Andrew L.
Saarela, Janna
Leppa, Virpi
Dorfman, Ruslan
Alvaro, Domenico
Floreani, Annarosa
Onengut-Gumuscu, Suna
Rich, Stephen S.
Thompson, Wesley K.
Schork, Andrew J.
Naess, Sigrid
Thomsen, Ingo
Mayr, Gabriele
Konig, Inke R.
Hveem, Kristian
Cleynen, Isabelle
Gutierrez-Achury, Javier
Ricano-Ponce, Isis
van Heel, David
Bjornsson, Einar
Sandford, Richard N.
Durie, Peter R.
Melum, Espen
Vatn, Morten H.
Silverberg, Mark S.
Duerr, Richard H.
Padyukov, Leonid
Brand, Stephan
Sans, Miquel
Annese, Vito
Achkar, Jean-Paul
Boberg, Kirsten Muri
Marschall, Hanns-Ulrich
Chazouilleres, Olivier
Bowlus, Christopher L.
Wijmenga, Cisca
Schrumpf, Erik
Vermeire, Severine
Albrecht, Mario
The UK-PSCSC Consortium,
The International IBD Genetics Consortium,
Rioux, John D.
Alexander, Graeme
Bergquist, Annika
Cho, Judy
Schreiber, Stefan
Manns, Michael P.
Farkkila, Martti
Dale, Anders M.
Chapman, Roger W.
Lazaridis, Konstantinos N.
The International PSC Study Group,
Franke, Andre
Anderson, Carl A.
Karlsen, Tom H.
Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis
In: Nature Genetics [45], 670-677
Journal Article
2013Neumann-Fraune, Maria
Beggel, Bastian
Pfister, Herbert
Kaiser, Rolf
Verheyen, Jens
High frequency of complex mutational patterns in lamivudine resistant hepatitis B virus isolates
In: Journal of Medical Virology [200], 39-49
Journal Article
2013Patil, Kaustubh RaosahebGenome Signature based Sequence Comparison for Taxonomic Assignment and tree inference
Universität des Saarlandes
Thesis - Doctoral dissertation
2013Pfeifer, 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
Poster
2013Pironti, 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
Journal Article
2013Pironti, Alejandro
Lengauer, Thomas
Pfeifer, Nico
Effects of sequencing errors on geno2pheno[coreceptor] predictions
In: Abstract Book 11th European Meeting on HIV & Hepatitis, 23-24
Poster
2013Pironti, 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
Poster
2013Radivojac, Predrag
Clark, Wyatt T
Oron, Tal Ronnen
Schnoes, Alexandra M
Wittkop, Tobias
Sokolov, Artem
Graim, Kiley
Funk, Christopher
Verspoor, Karin
Ben-Hur, Asa
Pandey, Gaurav
Yunes, Jeffrey M
Talwalkar, Ameet S
Repo, Susanna
Souza, Michael L
Piovesan, Damiano
Casadio, Rita
Wang, Zheng
Cheng, Jianlin
Fang, Hai
Gough, Julian
Koskinen, Patrik
T\"{o}r\"{o}nen, Petri
Nokso-Koivisto, Jussi
Holm, Liisa
Cozzetto, Domenico
Buchan, Daniel W A
Bryson, Kevin
Jones, David T
Limaye, Bhakti
Inamdar, Harshal
Datta, Avik
Manjari, Sunitha K
Joshi, Rajendra
Chitale, Meghana
Kihara, Daisuke
Lisewski, Andreas M
Erdin, Serkan
Venner, Eric
Lichtarge, Olivier
Rentzsch, Robert
Yang, Haixuan
Romero, Alfonso E
Bhat, Prajwal
Paccanaro, Alberto
Hamp, Tobias
Ka\ss ner, Rebecca
Seemayer, Stefan
Vicedo, Esmeralda
Schaefer, Christian
Achten, Dominik
Auer, Florian
Boehm, Ariane
Braun, Tatjana
Hecht, Maximilian
Heron, Mark
H\"{o}nigschmid, Peter
Hopf, Thomas A
Kaufmann, Stefanie
Kiening, Michael
Krompass, Denis
Landerer, Cedric
Mahlich, Yannick
Roos, Manfred
Bj\"{o}rne, Jari
Salakoski, Tapio
Wong, Andrew
Shatkay, Hagit
Gatzmann, Fanny
Sommer, Ingolf
Wass, Mark N
Sternberg, Michael J E
Skunca, Nives
Supek, Fran
Bo\v{s}njak, Matko
Panov, Pan\v{c}e
D\v{z}eroski, Sa\v{s}o
Smuc, Tomislav
Kourmpetis, Yiannis A I
van Dijk, Aalt D J
Braak, Cajo J F Ter
Zhou, Yuanpeng
Gong, Qingtian
Dong, Xinran
Tian, Weidong
Falda, Marco
Fontana, Paolo
Lavezzo, Enrico
{Di Camillo}, Barbara
Toppo, Stefano
Lan, Liang
Djuric, Nemanja
Guo, Yuhong
Vucetic, Slobodan
Bairoch, Amos
Linial, Michal
Babbitt, Patricia C
Brenner, Steven E
Orengo, Christine
Rost, Burkhard
Mooney, Sean D
Friedberg, Iddo
A large-scale evaluation of computational protein function prediction
In: Nature Methods [10], 221-227
Journal Article
2013Röttger, Richard
Kalaghatgi, Prabhav
Sun, Peng
de Castro Soares, Siomar
Azevedo, Vasco
Wittkop, Tobias
Baumbach, Jan
Density Parameter Estimation for Finding Clusters of Homologous Proteins - Tracing Actinobacterial Pathogenicity Life Styles
In: Bioinformatics [29], 215-222
Journal Article
2013Sandoval, Juan
Mendez-Gonzales, Jesus
Nadal, Ernest
Chen, Guoan
Carmona, F. Javier
Sayols, Sergi
Moran, Sebastian
Heyn, Holger
Vizoso, Miguel
Gomez, Antonio
Sanchez-Cespedes, Montse
Assenov, Yassen
Müller, Fabian
Bock, Christoph
Taron, Miquel
Mora, Josefina
Muscarella, Lucia A.
Liloglou, Triantafillos
Davies, Michael
Pollan, Marina
Pajares, Maria J.
Torre, Wenceslao
Montuenga, Luis M.
Brambilla, Elisabeth
Field, John K.
Roz, Luca
Lo Iacono, Marco
Scagliotti, Giorgio V.
Rosell, Rafael
Beer, David G.
Esteller,Manel
A Prognostic DNA Methylation Signature for Stage I Non-Small-Cell Lung Cancer
In: Journal of Clinical Oncology [31], 4140-4147
Journal Article
2013Schelhorn, Sven-Eric
Fischer, M.
Tolosi, Laura
Altmüller, J.
Nürnberg, P.
Pfister, H.
Lengauer, Thomas
Berthold, F.
Sensitive detection of viral transcripts in human tumor transcriptomes
In: PLOS Computational Biology [9], xx
Journal Article
2013Schneider, Till
Hauschild, Anne-Christin
Baumbach, Joerg Ingo
Baumbach, Jan
An Integrative Clinical Database and Diagnostics Platform for Biomarker Identification and Analysis in Ion Mobility Spectra of Human Exhaled Air
In: Journal of Integrative Bioinformatics [10],
Electronic Journal Article
2013Schulz, Marcel Holger
Pandit, Kusum V
Lino Cardenas, Christian L
Ambalavanan,Namasivayam
Kaminski, Naftali
Bar-Joseph, Ziv
Reconstructing dynamic microRNA-regulated interaction networks
In: Proceedings of the National Academy of Sciences of the United States [110], 15686–15691
Journal Article
2013Simmer, F.
Brinkmann, A.B.
Assenov, Yassen
Matarese, F.
Kaan, A.
Lengauer, Thomas
Bock, Christoph
Colantuoni, V.
Altucci, L.
Stunnenberg, H.G.
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched human tissue
In: Epigenetics [7], 1355-1367
Journal Article
2013Steijger, T
Abril, JF
Engström,PG
Kokocinski, F
Abril, JF
Akerman, M
Alioto, T
Ambrosini, G
Antonarakis, SE
Behr, J
Bohnert, R
Bucher, P
Cloonan, N
Derrien, T
Djebali, S
Du, J
Dudoit, S
Engström, PG
Gerstein, M
Gingeras, TR
Gonzalez, D
Grimmond, SM
Habegger, L
Iseli, C
Jean, G
Kahles, A
Kokocinski, F
Lagarde, J
Leng, J
Lefebvre, G
Lewis, S
Mortazavi, A
Niermann, P
Rätsch, G
Reymond, A
Ribeca, P
Richard, H
Rougemont, J
Rozowsky, J
Sammeth, M
Sboner, A
Schulz, Marcel Holger
Searle, SM
Solorzano, ND
Solovyev, V
Stanke, M
Steijger, T
Stevenson, BJ
Stockinger, H
Valsesia, A
Weese, D
White, S
Wold, BJ
Wu, J
Wu, TD
Zeller, G
Zerbino, D
Zhang, MQ
Hubbard, TJ
Guigó, R
Harrow, J
Bertone, P
Assessment of transcript reconstruction methods for RNA-seq
In: Nature Methods [10], 1177-84
Journal Article
2013Tolosi, Laura
Theißen, J.
Halachev, Konstantin
Hero, B.
Berthold, F.
Lengauer, Thomas
A method for finding consensus breakpoints in the cancer genome from copy number data
In: Bioinformatics [29], 1793-1800
Journal Article
2013Zanon, Alessandra
Rakovic, Aleksandar
Blankenburg, Hagen
Doncheva, Nadezhda T.
Schwienbacher, Christine
Serafin, Alice
Alexa, Adrian
Weichenberger, Christian X.
Albrecht, Mario
Klein, Christine
Hicks, Andrew A.
Pramstaller, Peter P.
Domingues, Francisco S.
Pichler, Irene
Profiling of parkin-binding partners using tandem affinity purification
In: PLoS ONE [8], 1-17
Journal Article
2013Ziller, Michael J.
Gu, Hongcang
Müller, Fabian
Donaghey, Julie
Tsai, Linus T.-Y.
Kohlbacher, Oliver
De Jager, Philip L.
Rosen, Evan D.
Bennett, David A.
Bernstein, Bradley E.
Gnirke, Andreas
Meissner, Alexander
Charting a dynamic DNA methylation landscape of the human genome
In: Nature [500], 477–481
Journal Article
2012Adams, David
Altucci, Lucia
Antonarakis, Stylianos E
Ballesteros, Juan
Beck, Stephan
Bird, Adrian
Bock, Christoph
Boehm, Bernhard
Campo, Elias
Caricasole, Andrea
Dahl, Fredrik
Dermitzakis, Emmanouil T
Enver, Tariq
Esteller, Manel
Estivill, Xavier
Ferguson-Smith, Anne
Fitzgibbon, Jude
Flicek, Paul
Giehl, Claudia
Graf, Thomas
Grosveld, Frank
Guigó, Roderic
Gut, Ivo
Helin, Kristian
Jarvius, Jonas
Küppers, Ralf
Lehrach, Hans
Lengauer, Thomas
Lernmark, Åke
Leslie, David
Loeffler, Markus
Macintyre, Elizabeth
Mai, Antonello
Martens, Joost H A
Minucci, Saverio
Ouwehand, Willem H
Pelicci, Pier Giuseppe
Pendeville, Hèléne
Porse, Bo
Rakyan, Vardhman
Reik, Wolf
Schrappe, Martin
Schübeler, Dirk
Seifert, Martin
Siebert, Reiner
Simmons, David
Soranzo, Nicole
Spicuglia, Salvatore
Stratton, Michael
Stunnenberg, Hendrik G
Tanay, Amos
Torrents, David
Valencia, Alfonso
Vellenga, Edo
Vingron, Martin
Walter, Jörn
Willcocks, Spike
BLUEPRINT to decode the epigenetic signature written in blood
In: Nature Biotechnology [30], 224-226
Journal Article
2012Alcaraz, Nicolas
Kucuk, Hande
Weile, Jochen
Wipat, Anil
Baumbach, Jan
KeyPathwayMiner - Detecting case-specific biological pathways by using expression data
In: Internet Mathematics [7], 299-313
Journal Article
2012Bader, MathiasClustering epigenetic data using a Dirichlet process prior
Universität des Saarlandes
Thesis - Master's thesis
2012Bastys, TomasAttachment IconMAP Kinase Docking Motifs in HIV Proteins
Universität des Saarlandes
Thesis - Master's thesis
2012Baumbach, JanIntegrative computational biology
In: Integrative Biology [4], 713-714
Journal Article
2012Beggel, Bastian
Neumann-Fraune, Maria
Doering, Matthias
Lawyer, Glenn
Kaiser, Rolf
Verheyen, Jens
Lengauer, Thomas
Genotyping hepatitis B virus dual infections using population-based sequence data
In: Journal of General Virology [9], 1899-1907
Journal Article
2012Bhattacharyya, 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
Journal Article
2012Bock, ChristophAnalysing and interpreting DNA methylation data
In: Nature Reviews Genetics [13], 705-719
Journal Article
2012Bock, Christoph
Lengauer, Thomas
Epigenom-Karten erstellen und nutzen
In: BIOspektrum [18], 138-141
Journal Article
2012Bock, Christoph
Lengauer, Thomas
Managing drug resistance in cancer: lessons from HIV therapy
In: Nature Reviews Cancer [12], 494-501
Journal Article
2012Bogojeska, 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
Journal Article
2012Bogojeska, Jasmina
Stöckel, Daniel
Zazzi, Maurizio
Kaiser, Rolf
Incardona, Francesca
Rosen-Zvi, Michal
Lengauer, Thomas
History-alignment models for bias-aware prediction of virological response to HIV combination therapy
In: Proceedings of the Fifteenth International Conference on Artificial Intelligence and Statistics (AISTATS 2012), 118-126
Proceedings Article
2012Bozek, Katarzyna
Eckhardt, Manon
Sierra, Saleta
Kaiser, Rolf
Kräusslich, Hans-Georg
Müller, Barbara
Lengauer, Thomas
An expanded model of HIV cell entry phenotype based on multi-parameter single-cell data
In: Retrovirology [9], 60.1-60.15
Journal Article
2012Calvanese, Vincenzo
Fernandez, Agustín F.
Urdinguio, Rocío G.
Suarez-Álvarez, Beatriz
Mangas, Cristina
Pérez-García, Vicente
Bueno, Clara
Montes, Rosa
Ramos-Mejía, Verónica
Martínez-Camblor, Pablo
Ferrero, Cecilia
Assenov, Yassen
Bock, Christoph
Menendez, Pablo
Carrera, Ana Clara
Lopez-Larrea, Carlos
Fraga, Mario F.
A promoter DNA demethylation landscape of human hematopoietic differentiation
In: Nucleic Acids Research [40], 116-131
Journal Article
2012Dietzen, Matthias
Zotenko, Elena
Hildebrandt, Andreas
Lengauer, Thomas
On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking
In: Journal of Chemical Information and Modeling [52], 844-856
Journal Article
2012Doncheva, 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
Journal Article
2012Doncheva, Nadezhda T
Kacprowski, Tim
Albrecht, Mario
Recent approaches to the prioritization of candidate disease genes
In: Wiley Interdisciplinary Reviews: Systems Biology and Medicine [4], 429-442
Journal Article
2012Eldarov, NasimiModeling influenza evolution in response to immune system pressure
Universität des Saarlandes
Thesis - Master's thesis
2012Emig, 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
Part of a Book
2012Faria, Daniel
Schlicker, Andreas
Pesquita, Catia
Bastos, Hugo
Ferreira, António E N
Albrecht, Mario
Falcão, André O
Mining GO annotations for improving annotation consistency
In: PLoS ONE [7], e40519,1-e40519,7
Electronic Journal Article
2012Fernandez, Agustin F.
Assenov, Yassen
Martin-Subero, Jose Ignacio
Balint, Balazs
Siebert, Reiner
Taniguchi, Hiroaki
Yamamoto, Hiroyuki
Hidalgo, Manuel
Tan, Aik-Choon
Galm, Oliver
Ferrer, Isidre
Sanchez-Cespedes, Montse
Villanueva, Alberto
Carmona, Javier
Sanchez-Mut, Jose V.
Berdasco, Maria
Moreno, Victor
Capella, Gabriel
Monk, David
Ballestar, Esteban
Ropero, Santiago
Martinez, Ramon
Sanchez-Carbayo, Marta
Prosper, Felipe
Agirre, Xabier
Fraga, Mario F.
Gran˜a, Osvaldo
Perez-Jurado, Luis
Mora, Jaume
Puig, Susana
Prat, Jaime
Badimon, Lina
Puca, Annibale A.
Meltzer, Stephen J.
Lengauer, Thomas
Bridgewater, John
Bock, Christoph
Esteller, Manel
A DNA methylation fingerprint of 1628 human samples
In: Genome Research [22], 407-419
Journal Article
2012Feuerbach, Lars
Halachev, Konstantin
Assenov, Yassen
Mueller, Fabian
Bock, Christoph
Lengauer, Thomas
Analyzing epigenome data in context of genome evolution and human diseases
In: Evolutionary Genomics : Statistical and Computational Methods, Volume 2, 431-467
In: Methods of Molecular Biology [856], 431-467
Part of a Book
2012Galata, ValentinaApplying Lasso regression to related cell types for gene network astimation
Universität des Saarlandes
Thesis - Bachelor thesis
2012Garai, Ágnes
Zeke, András
Gógl, Gergo
Töro, Imre
Fördos, Ferenc
Blankenburg, Hagen
Bárkai, Tünde
Varga, János
Alexa, Anita
Emig, Dorothea
Albrecht, Mario
Reményi, Attila
Specificity of linear motifs that bind to a common mitogen-activated protein kinase docking groove
In: Science Signaling [5], ra74,1-ra74,14
Journal Article
2012Halachev, 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
Electronic Journal Article
2012Halachev, K.
Bast, H.
Albrecht, F.
Lengauer, Thomas
Bock, Christoph
EpiExplorer: live exploration and global analysis of large epigenomic datasets
In: Genome Biology [13], R96,1-R96,14
Journal Article
2012Hauschild, 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
Electronic Journal Article
2012Hauschild, 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
Electronic Journal Article
2012Heger, Eva
Thielen, Alexander
Gilles, Ramona
Obermeier, Martin
Lengauer, Thomas
Kaiser, Rolf
Trapp, Susanna
APOBEC3G/F a one possible driving source for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16
Journal Article
2012Kalaghatgi, PrabhavA Phylodynamic Study of HIV Transmission Networks in Europe
Universität des Saarlandes
Thesis - Master's thesis
2012Kalinina, Olga V.
Oberwinkler, Heike
Glass, Bärbel
Kräusslich, Hans-Georg
Russell, Robert B.
Briggs, John A. G.
Computational Identification of Novel Amino-Acid Interactions in HIV Gag via Correlated Evolution
In: PLoS ONE [7], e42468,1-e42468,5
Electronic Journal Article
2012Klingen, ThorstenAutomatic Recombination Analysis Using Recoo and Mebitoo
Universität des Saarlandes
Thesis - Bachelor thesis
2012König, EvaAutomatic detection of loss of heterozygosity in cancer
Universität des Saarlandes
Thesis - Master's thesis
2012Koser, SandraReconstructing anecestral methylation states in phylogenetic trees
Universität des Saarlandes
Thesis - Master's thesis
2012Lawyer, Glenn
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
In: Medical Microbiology and Immunology [201], 259-269
Journal Article
2012Lengauer, ThomasBioinformatical Assistance of Selecting Anti-HIV Therapies: Where Do We Stand?
In: Intervirology [55], 108-112
Journal Article
2012Lengauer, Thomas
Albrecht, Mario
Domingues, Francisco S.
Computational Biology
In: Encyclopedia of Molecular Cell Biology and Molecular Medicine, 1-71
Part of a Book
2012Lengauer, Thomas
Bock, Christoph
Managing drug resistance in cancer: lessons from HIV therapy
In: Nature Reviews Cancer [12], 494-501
Journal Article
2012Mekhubad, Shila
Bock, Christoph
de Boer, A. Sophie
Kiskinis, Evangelos
Meissner, Alexander
Eggan, Kevin
Erosion of dosage compensation impacts human iPSC disease modeling
In: Cell Stem Cell [10], 595-609
Journal Article
2012Mikeska, Thomas
Bock, Christoph
Do, Hongdo
Dobrovic, Alexander
DNA methylation biomarkers in cancer: Progress towards clinical implementation
In: Expert Reviews of Molecular Diagnostics [12], 473-487
Journal Article
2012Müller, JoachimExtracting pathways from biological networks incorporating omics data, introducing a webinterface for KeyPathwayMiner
Universität des Saarlandes
Thesis - Master's thesis
2012Obermeier, Martin
Camacho, Ricardo
Charpentier, Charlotte
Deschamps, Diane
Eberle, Joseph
Gürtler, Lutz
Ruelle, Jean
Pironti, Alejandro
Brun-Veziet, Francoise
Stürmer, Martin
Kaiser, Rolf
HIV2EU: supporting standardized HIV-2 drug resistance interpretation in Europe
In: Journal of the International AIDS Society, 135
Poster
2012Obermeier, Martin
Pironti, Alejandro
Berg, Thomas
Braun, Patrick
Däumer, Martin
Eberle, Josef
Ehret, Robert
Kaiser, Rolf
Kleinkauf, Niels
Korn, Klaus
Kücherer, Claudia
Müller, Harm
Noah, Christian
Stürmer, Martin
Thielen, Alexander
Wolf, Eva
Walter, Hauke
HIV-GRADE: A Publicly Available, Rules-Based Drug Resistance Interpretation Algorithm Integrating Bioinformatic Knowledge
In: Intervirology [55], 102-107
Journal Article
2012Oette, Mark
Schulter, Eugen
Rosen-Zvi, Michal
Peres, Yardena
Zazzi, Maurizio
Sonnerborg, Anders
Struck, Daniel
Altmann, Andre
Kaiser, Rolf
Efficacy of antiretroviral therapy switch in HIV-infected patients: A 10-year analysis of the EuResist cohort
In: Intervirology [55], 160-166
Journal Article
2012Pauling, Josch
Röttger, Richard
Neuner, Andreas
Salgado, Heladia
Collado-Vides, Julio
Kalaghatgi, Prabhav
Azevedo, Vasco
Tauch, Andreas
Pühler, Alfred
Baumbach, Jan
On the trail of EHEC/EAEC - unraveling the gene regulatory networks of human pathogenic Escherichia coli bacteria
In: Integrative Biology [4], 728-733
Journal Article
2012Pauling, Josch
Röttger, Richard
Tauch, Andreas
Azevedo, Vasco
Baumbach, Jan
CoryneRegNet 6.0 - Updated database content, new analysis methods and novel features focusing on community demands
In: Nucleic Acids Research [40], D610-D614
Journal Article
2012Pfeifer, Nico
Lengauer, Thomas
Improving coreceptor usage prediction in the clinic using hints from next generation sequencing data
In: Bioinformatics [28], i589-i595
Journal Article
2012Pfeifer, Nico
Lengauer, Thomas
Attachment IconImproving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data
In: Bioinformatics [28], i589-i595
Journal Article
2012Pironti, Alejandro
Lengauer, Thomas
Kaiser, Rolf
Schülter, Eugen
Verheyen, Jens
Characterization of HIV-1 Gag Subtype C
In: Abstract Book. 9th Workshop on HIV \& Hepatitis Treatment Strategies \& Antiviral Drug Resistance, 40-41
Poster
2012Ramirez, FidelNovel Approaches to the Integration and Analysis of Systems Biology
Universität des Saarlandes
Thesis - Doctoral dissertation
2012Ramírez, Fidel
Lawyer, Glenn
Albrecht, Mario
Novel search method for the discovery of functional relationships
In: Bioinformatics [28], 269-276
Journal Article
2012Reppas, 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
Proceedings Article
2012Reuter, Stefan
Oette, Mark
Kaiser, Rolf
Lengauer, Thomas
Fätkenheuer, Gerd
Rockstroh, Jürgen
Knechten, Heribert
Häussinger, Dieter
Risk factors associated with older age in treatment-naive HIV-positive patients
In: Intervirology [55], 147-153
Journal Article
2012Rost, Burkhard
Gaasterland, Terry
Lengauer, Thomas
Linial, Michal
Markel, Scott
McKay, B. J. Morrison
Schneider, Reinhard
Horton, Paul
Kelso, Janet
Paving the future: finding suitable ISMB venues
In: Bioinformatics [28], 2556-2559
Journal Article
2012Röttger, Richard
Kreutzer, Christoph
Duong Vu, Thuy
Wittkop, Tobias
Baumbach, Jan
Online Transitivity Clustering of Biological Data with Missing Values
In: German Conference on Bioinformatics 2012 (GCB 2012), 57-68
Electronic Proceedings Article
2012Röttger, Richard
Rueckert, Ulrich
Taubert, Jan
Baumbach, Jan
How Little Do We Actually Know? - On the Size of Gene Regulatory Networks.
In: IEEE/ACM transactions on computational biology and bioinformatics [9], 1293-1300
Journal Article
2012Schuelter, Eugen
Lübcke, Nadine
Jensen, Björn
Zazzi, Maurizio
Sönnerborg, Anders
Lengauer, Thomas
Incardona, Francesca
Camacho, Richardo
Schmit, J
Clotet, Bonaventura
Kaiser, Rolf
Pironti, Alejandro
Etravirine in protease inhibitor-free antiretroviral combination therapies
In: Journal of the International AIDS Society, 155-156
Poster
2012Setty, YakiMulti-scale computational modeling of developmental biology
In: Bioinformatics [28], 2022-2028
Journal Article
2012Sierra, Saleta
Dzbowski, Jan Nikolaj
Pironti, Alejandro
Gueney, L
Thielen, Alexander
Reuter, Stefan
Esser, Stefan
Fätkenheuer, Gerd
Lengauer, Thomas
Hider, Dominik
Hoffmann, Daniel
Pfister, Holger
Jensen, Björn
Kaiser, Rolf
Optimisation of baseline genotypic testing for safe and efficient maraviroc administration
In: Journal of the International AIDS Society, 101-102
Poster
2012Simmer, Femke
Brinkman, Arie B.
Assenov, Yassen
Matarese, Filomena
Kaan, Anita
Sabatino, Lina
Villanueva, Alberto
Huertas, Dori
Esteller, Manel
Lengauer, Thomas
Bock, Christoph
Colantuoni, Vittorio
Altucci, Lucia
Stunnenberg, Henk G.
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
In: Epigenetics [7], 1355-1367
Journal Article
2012Soares, Siomar C.
Abreu, Vinícius A. C.
Ramos, Rommel T. J.
Cerdeira, Louise
Silva, Artur
Baumbach, Jan
Trost, Eva
Tauch, Andreas
Hirata, Raphael
Mattos-Guaraldi, Ana L.
Miyoshi, Anderson
Azevedo, Vasco
PIPS: Pathogenicity Island Prediction Software
In: PLoS One [7], e30848,1-e30848,10
Electronic Journal Article
2012Speicher, NoraTowards the identification of cancer subtypes by integrative clustering of molecular data
Universität des Saarlandes
Thesis - Master's thesis
2012Thielen, Alexander
Lengauer, Thomas
Geno2pheno[454]: A Web Server for the Prediction of HIV-1 Coreceptor Usage from Next-Generation Sequencing Data
In: Intervirology [55], 113-117
Journal Article
2012Tolosi, LauraFinding Regions of Aberrant DNA Copy Number Associated With Tumor Phenotype
Universität des Saarlandes
Thesis - Doctoral dissertation
2012Welsch, Christoph
Schweizer, Sabine
Shimakami, Testsuro
Domingues, Francisco S.
Kim, Seungtaek
Lemon, Stanley, M.
Antes, Iris
Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants
of the NS3 Serine Protease
In: Antimicrobial Agents and Chemotherapy [56], 1907-1915
Journal Article
2012Welsch, Christoph
Shimakami, Tetsuro
Hartmann, Christoph
Yang, Yan
Domingues, Francisco S.
Lengauer, Thomas
Zeuzem, Stefan
Lemon, Stanley M.
Peptidomimetic Escape Mechanisms Arise via Genetic Diversity in the Ligand-Binding Site of the Hepatitis C Virus NS3/4A Serine Protease
In: Gastroenterology [142], 654-663
Journal Article
2012Xi, Yuanxin
Bock, Christoph
Müller, Fabian
Sun, Deqiang
Meissner, Alexander
Li, Wei
RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing
In: Bioinformatics [28], 430-432
Journal Article
2012Zazzi, Maurizio
Incardona, Francesca
Rosen-Zvi, Michal
Prosperi, Mattia
Lengauer, Thomas
Altmann, Andre
Sonnerborg, Anders
Lavee, Tamar
Schülter, Eugen
Kaiser, Rolf
Predicting Response to Antiretroviral Treatment by Machine Learning:
The EuResist Project
In: Intervirology [55], 123-127
Journal Article
2012Zeidler, MichaelCloudbasierte Analyse von viralen Sequenzdaten der neuesten Generation
Universität des Saarlandes
Thesis - Bachelor thesis
2011Alcaro, Stefano
Alteri, Claudia
Artese, Anna
Ceccherini-Silberstein, Francesca
Costa, Giosuè
Ortuso, Francesco
Forbici, Federica
Santoro, Maria Mercedes
Parrotta, Lucia
Flandre, Philippe
Descamps, Diane
Calvez, Vincent
Marcelin, Anne-Genevieve
Perno, Carlo Federico
Sing, Tobias
Svicher, Valentina
Docking Analysis and Resistance Evaluation of Clinically Relevant Mutations Associated with the HIV-1 Nonnucleoside Reverse Transcriptase Inhibitors Nevirapine, Efavirenz and Etravirine
In: ChemMedChem [6], 2203-2213
Journal Article
2011Aranda, Bruno
Blankenburg, Hagen
Kerrien, Samuel
Brinkman, Fiona S.
Ceol, Arnaud
Chautard, Emilie
Dana, Jose M.
De Las Rivas, Javier
Dumousseau, Marine
Galeota, Eugenia
Gaulton, Anna
Goll, Johannes
Hancock, Robert E. W.
Isserlin, Ruth
Jimenez, Rafael C.
Kerssemakers, Jules
Khadake, Jyoti
Lynn, David J.
Michaut, Magali
O'Kelly, Gavin
Ono, Keiichiro
Orchard, Sandra
Prieto, Carlos
Razick, Sabry
Rigina, Olga
Salwinski, Lukasz
Simonovic, Milan
Velankar, Sameer
Winter, Andrew
Wu, Guanming
Bader, Gary D.
Cesareni, Gianni
Donaldson, Ian M.
Eisenberg, David
Kleywegt, Gerard J.
Overington, John
Ricard-Blum, Sylvie
Tyers, Mike
Albrecht, Mario
Hermjakob, Henning
PSICQUIC and PSISCORE: accessing and scoring molecular interactions
In: Nature Methods [8], 528-529
Journal Article
2011Bleif, Sabrina
Hannemann, Frank
Lisurek, Michael
von Kries, Jens Peter
Zapp, Josef
Dietzen, Matthias
Antes, Iris
Bernhardt, Rita
Identification of CYP106A2 as a Regioselective Allylic Bacterial Diterpene Hydroxylase
In: ChemBioChem [12], 576-582
Journal Article
2011Bock, Christoph
Kiskinis, Evangelos
Verstappen, Griet
Gu, Hongcang
Boulting, Gabriella
Smith, Zachary D.
Ziller, Michael
Croft, Gist F.
Amoroso, MacKenzie W.
Oakley, Derek H.
Gnirke, Andreas
Eggan, Kevin
Meissner, Alexander
Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines
In: Cell [144], 439-452
Journal Article
2011Bogojeska, JasminaHistory distribution matching method for predicting effectiveness of HIV combination therapies
In: Neural Information Processing Systems (NIPS 2011), 424-432
Electronic Proceedings Article
2011Bogojeska, JasminaAttachment IconStatistical Learning Methods for Bias-aware HIV Therapy Screening
Universität des Saarlandes
Thesis - Doctoral dissertation
2011Bozek, KatarzynaAttachment IconAnalysis of HIV-host interaction on different scales.
Universität des Saarlandes
Thesis - Doctoral dissertation
2011Cerdeira, Louise Teixeira
Carneir, Aadriana Ribeiro
Ramos, Rommel Thiago Juca
de Almeida, Sintia Silva
D'Afonseca, Vivian
Schneider, Maria Paula Cruz
Baumbach, Jan
Tauch, Andreas
McCulloch, John Anthony
Azevedo, Vasco Ariston Carvalho
Silva, Aartur
Rapid hybrid de novo assembly of a microbial genome using only short reads: Corynebacterium pseudotuberculosis I19 as a case study
In: Journal of Microbiological Methods [86], 218-223
Journal Article
2011Codoner, Francisco
Pou, Christian
Thielen, Alexander
García, Federico
Delgado, Rafael
Dalmau, David
Álvarez-Tejado, Miguel
Ruiz, Lidia
Clotet, Bonaventura
Paredes, Roger
Added value of deep sequencing relative to population sequencing in heavily pre-treated HIV-1-infected subjects
In: PLoS One [6], e19461,1-e19461,5
Electronic Journal Article
2011Däumer, Martin
Kaiser, Rolf
Klein, Rolf
Lengauer, Thomas
Thiele, Bernhard
Thielen, Alexander
Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis
In: BMC Medical Informatics and Decision Making [11], 30,1-30,8
Electronic Journal Article
2011Doncheva, Nadezhda T.
Klein, Karsten
Domingues, Francisco S.
Albrecht, Mario
Analyzing and visualizing residue networks of protein structures
In: Trends in Biochemical Sciences [36], 179-182
Journal Article
2011Döring, MatthiasWeb Implementation of the HBV Dual Infection Model
Universität des Saarlandes
Thesis - Bachelor thesis
2011Ebrahimi, 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
Electronic Journal Article
2011Emig, DorotheaNovel analysis approaches to context-dependent molecular networks
Universität des Saarlandes
Thesis - Doctoral dissertation
2011Emig, Dorothea
Albrecht, Mario
Tissue-specific proteins and functional implications
In: Journal of Proteome Research [10], 1893-1903
Journal Article
2011Emig, Dorothea
Kacprowski, Tim
Albrecht, Mario
Measuring and analyzing tissue specificity of human genes and protein complexes
In: EURASIP Journal on Bioinformatics and Systems Biology [2011], 5,1-5,6
Journal Article
2011Emig, Dorothea
Sander, Oliver
Mayr, Gabriele
Albrecht, Mario
Structure collisions between interacting proteins
In: PLoS ONE [6], e19581,1-e19581,7
Electronic Journal Article
2011Feuerbach, Lars
Lyngso, Rune B.
Lengauer, Thomas
Hein, Jotun
Reconstructing the ancestral germline methylation state of young repeats
In: Molecular Biology and Evolution [28], 1777-1784
Journal Article
2011Gu, Hongcang
Smith, Zachary D.
Bock, Christoph
Boyle, Patrick
Gnirke, Andreas
Meissner, Alexander
Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling
In: Nature Protocols [6], 468-481
Journal Article
2011Hauschild, Anne-ChristinModeling HIV Neutralization
Universität des Saarlandes
Thesis - Master's thesis
2011Heger, Eva
Thielen, Alexander
Gilles, Ramona
Obermeier, Martin
Lengauer, Thomas
Kaiser, Rolf
Trapp, Susanna
APOBEC3G/F as one possible driving force for co-receptor switch of the human immunodeficiency virus-1
In: Medical Microbiology and Immunology [201], 7-16
Journal Article
2011Hofmann, Wolf Peter
Chung, Tje Lin
Osbahr, Carola
Susser, Simone
Karey, Ursel
Mihm, Ulrike
Welsch, Christoph
Lötsch, Jörn
Sarrazin, Christoph
Zeuzem, Stefan
Herrmann, Eva
Impact of ribavirin on HCV replicon RNA decline during treatment with interferon-α and the protease inhibitors boceprevir or telaprevir
In: Antiviral Therapy [16], 695-704
Journal Article
2011Hoinka, Jan-MalteFinding the Hairpin in the Haystack: Towards an High Throughput in Silico Pipeline for Aptamer Motif Identification using SELEX Data
Universität des Saarlandes
Thesis - Master's thesis
2011Ivanova, VioletaComparison of methods for discovering genomic aberrations relevant for cancer
Universität des Saarlandes
Thesis - Master's thesis
2011Jing, CuiA comprehensive analysis of the illumina Infinium assay
Universität des Saarlandes
Thesis - Master's thesis
2011Junge, AlexanderUnsupervised dissection of cancer types based on genomic, epigenomic and transciptomic features
Universität des Saarlandes
Thesis - Bachelor thesis
2011Kacprowski, TimDisease gene prioritization by combining network information and functional knowledge
Universität des Saarlandes
Thesis - Master's thesis
2011Knoepfel, Stefanie
Di Giallonardoc, Francesca
Däumer, Martin
Thielen, Alexander
Metzner, Karin J
In-depth analysis of G-to-A hypermutation rate in HIV-1 env DNA induced by endogenous APOBEC3 proteins using massively parallel sequencing
In: Journal of Virological Methods [71], 329-338
Journal Article
2011Krol, Elizaveta
Blom, Jochen
Winnebald, Jörn
Berhörster, Alexander
Barnett, Melanie J.
Goesmann, Alexander
Baumbach, Jan
Becker, Anke
RhizoRegNet - A database of rhizobial transcription factors and regulatory networks.
In: Journal of Biotechnology [155], 127-134
Journal Article
2011Kumar, Vinod
Sun, Peng
Vamathevan, Jessica
Li, Yong
Ingraham, Karen
Palmer, Leslie
Huang, Jianzhong
Brown, James R.
Comparative Genomics of Klebsiella pneumoniae Strains with Different Antibiotic Resistance Profiles
In: Antimicrobial Agents and Chemotherapy [55], 4267-4276
Journal Article
2011Kunert, LarsMaximal Common Subgraph DAGs: Theory and Application to Virtual Screening in Drug Development
Universität des Saarlandes
Thesis - Doctoral dissertation
2011Lawyer, Glenn
Altmann, André
Thielen, Alex
Zazzi, Maurizio
Sönnerborg, Anders
Lengauer, Thomas
HIV-1 mutational pathways under multidrug therapy
In: AIDS Research and Therapy [8], 1-13
Journal Article
2011Lengauer (ed.)Computermodelle in der Wissenschaft - zwischen Analyse, Vorhersage und SuggestionBook
2011Lutsik, Pavlo
Feuerbach, Lars
Arand, Julia
Lengauer, Thomas
Walter, Jörn
Bock, Christoph
BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing
In: Nucleic Acids Research [39], W551-W556
Journal Article
2011Morris, John H.
Apeltsin, Leonard
Newman, Aaron M.
Baumbach, Jan
Wittkop, Tobias
Su, Gang
Bader, Gary D.
Ferrin, Thomas E.
clusterMaker: A Multi-algorithm Clustering Plugin for Cytoscape
In: BMC Bioinformatics [12], 436,1-436,14
Journal Article
2011Nebot, Victoria
Ye, Min
Albrecht, Mario
Eom, Jae-Hong
Weikum, Gerhard
DIDO: a disease-determinants ontology from web sources
In: Proceedings of the 20th International Conference on World Wide Web (WWW 2011), 237-240
Proceedings Article
2011Pironti, 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
Poster
2011Ramos, Rommel T.J.
Carneiro, Adriana R.
Baumbach, Jan
Azevedo, Vasco
Schneider, Maria P.C.
Silva, Artur
Analysis of quality raw data of second generation sequencers with Quality Assessment Software
In: BMC Research Notes [4], 130,1-130,6
Journal Article
2011Reiss, Simon
Rebhan, Ilka
Backes, Perdita
Romero-Brey, Ines
Erfle, Holger
Matula, Petr
Kaderali, Lars
Poenisch, Marion
Blankenburg, Hagen
Hiet, Marie-Sophie
Longerich, Thomas
Diehl, Sarah
Ramírez, Fidel
Balla, Tamas
Rohr, Karl
Kaul, Artur
Bühler, Sandra
Pepperkok, Rainer
Lengauer, Thomas
Albrecht, Mario
Eils, Roland
Schirmacher, Peter
Lohmann, Volker
Bartenschlager, Ralf
Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment
In: Cell Host & Microbe [9], 32-45
Journal Article
2011Reuter, 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
Thesis - Bachelor thesis
2011Reuter, Stefan
Oette, Mark
Wilhelm, Frank Clemens
Beggel, Bastian
Kaiser, Rolf
Balduin, Melanie
Schweitzer, Finja
Verheyen, Jens
Adams, Ortwin
Lengauer, Thomas
Faetkenheuer, Gerd
Pfister, Herbert
Haeussinger, Dieter
Attachment IconErratum to: Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients.
In: Medical Microbiology and Immunology [200], 51-51
Journal Article
2011Reuter, Stefan
Oette, Mark
Wilhelm, Frank Clemens
Beggel, Bastian
Kaiser, Rolf
Balduin, Melanie
Schweitzer, Finja
Verheyen, Jens
Adams, Ortwin
Lengauer, Thomas
Faetkenheuer, Gerd
Pfister, Herbert
Haeussinger, Dieter
Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients
In: Medical Microbiology and Immunology [200], 39-49
Journal Article
2011Roomp, Kirsten
Domingues, Francisco S.
Predicting interactions between T cell receptors and MHC-peptide complexes
In: Molecular Immunology [48], 553-562
Journal Article
2011Ruiz, Jeronimo C.
D'Afonseca, Vivian
Silva, Artur
Ali, Amjad
Pinto, Anne C.
Santos, Anderson R.
Rocha, Aryanne A. M. C.
Lopes, Debora O.
Dorella, Fernanda A.
Pacheco, Luis G. C.
Costa, Marcilia P.
Turk, Meritxell Z.
Seyffert, Nubia
Moraes, Pablo M. R. O.
Soares, Siomar C.
Almeida, Sintia S.
Castro, Thiago L. P.
Abreu, Vinicius A. C.
Trost, Eva
Baumbach, Jan
Tauch, Andreas
Schneider, Maria P. C.
McCulloch, John
Cerdeira, Louise T.
Ramos, Rommel T. J.
Zerlotini, Adhemar
Dominitini, Anderson
Resende, Daniela M.
Coser, Elisangela M.
Oliveira, Luciana M.
Pedrosa, Andre L.
Vieira, Carlos U.
Guimaraes, Claudia T.
Bartholomeu, Daniela C.
Oliveira, Diana M.
Santos, Fabricio R.
Rabelo, Elida Mara
Lobo, Francisco P.
Franco, Gloria R.
Costa, Ana Flavia
Castro, Ieso M.
Dias, Silvia Regina
Ferro, Jesus A.
Ortega, Jose Miguel
Paiva, Luciano V.
Goulart, Luiz R.
Almeida, Juliana Franco
Ferro, Maria Ines
Carneiro, Newton P.
Falcao, Paula R. K.
Grynberg, Priscila
Teixeira, Santuza M. R.
Brommonschenkel, Sergio
Oliveira, Sergio C.
Meyer, Roberto
Moore, Robert J.
Miyoshi, Anderson
Oliveira, Guilherme C.
Azevedo, Vaco
Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in two Corynebacterium pseudotuberculosis strains
In: PLoS One [6], e18551
Electronic Journal Article
2011Saigo, 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
Electronic Journal Article
2011Santos, Anderson R
Santos, Marcos A
Baumbach, Jan
McCulloch, John A
Oliveira, Guilherme C
Silva, Artur
Miyoshi, Anderson
Azevedo, Vasco
A singular value decomposition approach for improved taxonomy classification of biological sequences
In: BMC Genomics [12], S11,1-S11,15
Journal Article
2011Schelhorn, Sven-Eric
Mestre, Julián
Zotenko, Elena
Albrecht, Mario
Inferring physical protein contacts from large-scale purification data of protein complexes
In: Molecular & Cellular Proteomics [10], M110.004929,1-M110.004929,15
Electronic Journal Article
2011Schülter, Eugen
Oette, Mark
Balduin, Melanie
Reuter, Stefan
Rockstroh, Jürgen
Fätkenheuer, Gerd
Esser, Stefan
Lengauer, Thomas
Agacfidan, Ali
Pfister, Herbert
Kaiser, Rolf
Akgul, Baki
HIV prevalence and route of transmission in Turkish immigrants
living in North-Rhine Westphalia, Germany
In: Medical Microbiology and Immunology [200], 219-223
Journal Article
2011Seclen, Eduardo
Soriano, Vincente
González, Maria M
Gómez, Sagrario
Thielen, Alexander
Poveda, Eva
High Concordance between the Position-Specific Scoring Matrix and Geno2pheno Algorithms for Genotypic Interpretation of HIV-1 Tropism: V3 Length as the Major Cause of Disagreement
In: Journal of Clinical Microbiology [49], 3380-3382
Journal Article
2011Shimakami, Tetsuro
Welsch, Christoph
Yamane, Daisuke
McGivern, David R.
Yi, MinKyung
Zeuzem, Stefan
Lemon, Stanley M.
Protease Inhibitor-Resistant Hepatitis C Virus Mutants With Reduced Fitness From Impaired Production of Infectious Virus
In: Gastroenterology [140], 667-675
Journal Article
2011Sierra, Saleta
Kaiser, Rolf
Lübke, Nadine
Thielen, Alexander
Schuelter, Eugen
Heger, Eva
Däumer, Martin
Reuter, Stefan
Esser, Stefan
Fätkenheuer, Gerd
Pfister, Herbert
Oette, Mark
Lengauer, Thomas
Prediction of HIV-1 coreceptor usage (tropism) by sequence analysis using a genotypic approach
In: Journal of Visualized Experiments [58], e3264,1-e3264,9
Electronic Journal Article
2011Svichera, Valentina
Centoa, Valeria
Salpinia, Romina
Mercurioa, Fabio
Fraune, Maria
Beggel, Bastian
Hanc, Yue
Gorid, Caterina
Wittkope, Linda
Bertolif, Ada
Michelig, Valeria
Gubertinig, Guido
Longoh, Roberta
Romanoh, Sara
Viscah, Michela
Gallinaroi, Valentina
Marinoj, Nicoletta
Mazzottaj, Francesco
De Sanctisi, Giuseppe Maria
Fleurye, Hervè
Trimoulete, Pascale
Angelicoa, Mario
Cappielloh, Giuseppina
Zhangc, Xin Xin
Verheyenb, Jens
Ceccherini-Silbersteina, Francesca
Pernoa, Carlo Federico
Role of hepatitis B virus genetic barrier in drug-resistance and immune-escape development
In: Digestive and Liver Disease [43], 975–983
Journal Article
2011Svicher, Valentina
Cento, Valeria
Salpini, Romina
Mercurio, Fabio
Fraune, Maria
Beggel, Bastian
Han, Yue
Gori, Caterina
Wittkop, Linda
Bertoli, Ada
Micheli, Valeria
Gubertini, Guido
Longo, Roberta
Romano, Sara
Visca, Michela
Gallinaro, Valentina
Marino, Nicoletta
Mazzotta, Francesco
De Sanctis, Giuseppe Maria
Fleury, Hervè
Trimoulet, Pascale
Angelico, Mario
Cappiello, Giuseppina
Zhang, Xin Xin
Verheyen, Jens
Ceccherini-Silberstein, Francesca
Perno, Carlo Federico
Role of hepatitis B virus genetic barrier in drug-resistance and immune-escape development
In: Digestive and Liver Disease [43], 975-983
Journal Article
2011Swenson, Luke C
Mo, Theresa
Dong, Winnie WY
Zhong, Xiaoyin
Woods, Conan K
Thielen, Alexander
Jensen, Mark A
Knapp, David JHF
Chapman, Douglass
Lewis, Marilyn
James, Ian
Heera, Jayvant
Valdez, Hernan
Harrigan, P Richard
Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
In: Clinical Infectious Diseases [53], 732-742
Journal Article
2011Swenson, Luke C.
Mo, Theresa
Dong, Winnie W. Y.
Zhong, Xiaoyin
Woods, Conan K.
Jensen, Mark A.
Thielen, Alexander
Chapman, Douglass
Lewis, Marilyn
James, Ian
Heera, Jayvant
Valdez, Hernan
Harrigan, P. Richard
Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients
In: The Journal of Infectious Diseases [203], 237-245
Journal Article
2011Thielen, AlexanderGenotypic Analysis of HIV-1 Coreceptor Usage
Universität des Saarlandes
Thesis - Doctoral dissertation
2011Thielen, Alexander
Lengauer, Thomas
Swenson, Luke C
Dong, Winnie W.Y.
McGovern, Rachel A
Lewis, Marilyn
James, Ian
Heera, Jayvant
Valdez, Hernan
Harrigan, P Richard
Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially
In: Antiviral Therapy [16], 319-328
Journal Article
2011Tolosi, Laura
Lengauer, Thomas
Classification with correlated features: unreliability of feature ranking and solutions
In: Bioinformatics [27], 1986-1994
Journal Article
2011Weimann, AaronFunctional Profiling in Metagenomics
Universität des Saarlandes
Thesis - Master's thesis
2011Welker, M.-W.
Welsch, Christoph
Ochs, D.
Hofmann, W. P.
Herrmann, E.
Piiper, A.
Hartmann, R. W.
Zeuzem, S.
Sarrazin, C.
Kronenberger, Bernd
Comparison of Envelope 2 CD81 binding regions in PBMC-derived versus serum-derived hepatitis C virus isolates: higher conservation of CD81 region 2 in PBMC isolates
In: Journal of Viral Hepatitis [18], 181-192
Journal Article
2011Wittkop, Tobias
Emig, Dorothea
Truss, Anke
Albrecht, Mario
Böcker, Sebastian
Baumbach, Jan
Comprehensive cluster analysis with Transitivity Clustering
In: Nature Protocols [6], 285-295
Journal Article
2011Wittkop, Tobias
Rahmann, Sven
Roettger, Richard
Boecker, Sebastian
Baumbach, Jan
Extension and robustness of Transitivity Clustering for protein-protein interaction network analysis
In: Internet Mathematics [7], 255-273
Journal Article
2011Xi, Yuanxin
Bock, Christoph
Müller, Fabian
Sun, Deqiang
Meissner, Alexander
Li, Wei
RRBSMAP: A Fast, Accurate and User-friendly Alignment Tool for Reduced Representation Bisulfite Sequencing
In: Bioinformatics [28], 430-432
Journal Article
2011Yamanishi, Yoshihiro
Pauwels, Edouard
Saigo, Hiroto
Stovent, Veronique
Extracting Sets of Chemical Substructures and Protein Domains Governing Drug-Target Interactions
In: Journal of Chemical Information and Modeling [51], 1183-1194
Journal Article
2011Zacharek, Sima J.
Fillmore, Christine M.
Lau, Allison N.
Gludish, David W.
Chou, alan
Ho, Joshua W. K.
Zamponi, Raffaella
Gazit, Roi
Bock, Christoph
Jäger, Natalie
Smith, Zachary D.
Kim, Tae-min
Saunders, Arven H.
Wong, Janice
Lee, Joo-Hyeon
Roach, Rebecca R.
Rossi, Derrick J.
Meissner, Alex
Gimelbrant, Alexander A.
Park, Peter J.
Kim, Carla F.
Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci
In: Cell Stem Cell [9], 272-280
Journal Article
2011Zazzi, M.
Kaiser, R.
Sönnerborg, A.
Struck, D
Altmann, Andre
Prosperi, M.
Rosen-Zvi, M.
Petroczi, A.
Peres, Y.
Schülter, E.
Boucher, C.A.
Brun-Vezinet, F.
Harrigan, R.
Morris, L.
Obermeier, M.
Perno, C.-F.
Phanuphak, P.
Pillay, D
Shafer, R.W.
Vandamme, A.-M.
Van Laethem, K.
Wensing, A.
Lengauer, Thomas
Incardona, F.
Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE study)
In: HIV Medicine [12], 211-218
Journal Article
2011Ziller, Michael J.
Müller, Fabian
Liao, Jing
Zhang, Yingying
Gu, Hongcang
Bock, Christoph
Boyle, Patrick
Epstein, Charles B.
Bernstein, Bradley E.
Lengauer, Thomas
Gnirke, Andreas
Meissner, Alexander
Genomic distribution and inter-sample variation of non-CpG methylation across human cell types
In: PLoS Genetics [17], e1002389,1-e1002389,15
Electronic Journal Article
2010Albrecht, MarioColor blindness
In: Nature Methods [7], 775
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2010Albrecht, Mario
Kerren, Andreas
Klein, Karsten
Kohlbacher, Oliver
Mutzel, Petra
Paul, Wolfgang
Schreiber, Falk
Wybrow, Michael
On open problems in biological network visualization
In: Graph Drawing : 17th International Symposium, GD 2009, 256-267
Proceedings Article
2010Altmann, AndréBioinformatical approaches to ranking of anti-HIV combination therapies and planning of treatment schedules
Universität des Saarlandes
Thesis - Doctoral dissertation
2010Altmann, 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
Poster
2010Altmann, André
Tolosi, Laura
Sander, Oliver
Lengauer, Thomas
Permutation importance: an unbiased feature importance measure
In: Bioinformatics [26], 1340-1347
Journal Article
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In: Nucleic Acids Research [38], 7877-7884
Journal Article
2010Bock, 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
Journal Article
2010Bock, Christoph
Von Kuster, Greg
Halachev, Konstantin
Taylor, James
Nekrutenko, Anton
Lengauer, Thomas
Web-based analysis of (epi-) genome data using EpiGRAPH and Galaxy.
In: Genetic Variation : Methods and Protocols, 275-296
In: Methods of Molecular Biology [628], 275-296
Part of a Book
2010Bogojeska, Jasmina
Bickel, Steffen
Altmann, André
Lengauer, Thomas
Attachment IconDealing with sparse data in predicting outcomes of HIV combination therapies
In: Bioinformatics [26], 2085-2092
Journal Article
2010Bozek, Katarzyna
Lengauer, Thomas
Positive selection of HIV host factors and the evolution of lentivirus genes
In: BMC Evolutionary Biology [10], 186,1-186,15
Electronic Journal Article
2010Bozek, Katarzyna
Rosahl, A. L.
Gaub, S.
Lorenzen, S.
Herzel, H.
Circadian transcription in liver
In: Biosystems [102], 61-69
Journal Article
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Hurni, Severine
Streckeisen, Philipp
Mayr, Gabriele
Albrecht, Mario
Yahiaoui, Nabila
Keller, Beat
Intragenic allele pyramiding combines different specificities of wheat Pm3 resistance alleles
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2010Codoñer, 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
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Awerkiew, Sabine
Sierra Aragon, Saleto
Kartashev, Vladimir
Poplavskaja, Tatjana
Klein, Rolf
Sichtig, Nadine
Thielen, Bernhard
Lengauer, Thomas
Roomp, Kirsten
Pfister, Herbert
Kaiser, Rolf
Short Communication: Selection of Thymidine Analogue Resitance Mutational Patterns in Children from a Common HIV Type 1 Subtype G Source
In: AIDS Research and Human Retroviruses [26], 275-278
Journal Article
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Universität des Saarlandes
Thesis - Bachelor thesis
2010Ellinghaus, 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
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Journal Article
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Kacprowski, Tim
Albrecht, Mario
Measuring and analyzing tissue specificity of human genes and protein complexes
In: Seventh International Workshop on Computational Systems
Biology, WCSB 2010, 27-30
Proceedings Article
2010Emig, 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
Journal Article
2010Feuerbach, Lars
Lengauer, Thomas
Ancestral germline methylation reconstruction of young repeats
In: Transcription, chromatin structure and DNA repair in development and differentiation, 81
Poster
2010Feuerbach, Lars
Lyngsoe, Rune
Lengauer, Thomas
Hein, Jotun
Comparative Epigenomiocs - Towards Ancestral Germline Methylome Reconstruction
In: Abstracts of papers presented at the 2010 meeting on The Biology of genomes, 87
Poster
2010Franke, 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
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Universität des Saarlandes
Thesis - Bachelor thesis
2010Gu, 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
Journal Article
2010Harris, R. Alan
Wang, Ting
Coarfa, Cristian
Nagarajan, Raman P.
Hong, Chibo
Downey, Sara L.
Johnson, Brett E.
Fouse, Shaun D.
Delaney, Allen
Zhao, Yongjun
Olshen, Adam
Ballinger, Tracy
Zhou, Xin
Forsberg, Kevin J.
Gu, Junchen
Echipare, Lorigail
O'Geen, Heriette
Lister, Ryan
Pelizzola, Mattia
Xi, Yuanxin
Epstein, Charles B.
Bernstein, Bradley E.
Hawkins, R. David
Ren, Bing
Chung, Wen-Yu
Gu, Hongcang
Bock, Christoph
Gnirke, Andreas
Zhang, Michael Q.
Haussler, David
Ecker, Joseph R.
Li, Wei
Farnham, Peggy J.
Waterland, Robert a.
Meissner, Alexander
Marra, Marco A.
Hirst, Martin
Milosavljevic, Aleksandar
Costello, Joseph F.
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
In: Nature Biotechnology [28], 1097-1105
Journal Article
2010Johannsen, DanielRandom Combinatorial Structures and Randomized Search Heuristics
Universität des Saarlandes
Thesis - Doctoral dissertation
2010Kacprowski, TimAnalysis of protein complexes and tissue-spedific expression
Universität des Saarlandes
Thesis - Bachelor thesis
2010Kamp, Christel
Wolf, Timo
Bravo, Ignacio G
Kraus, Benjamin
Krause, Birgit
Neumann, Britta
Winskowsky, Gudrun
Thielen, Alexander
Werner, Albrecht
Schnierle, Barbara S
Decreased HIV diversity after allogeneic stem cell transplantation of an HIV-1 infected patient: a case report.
In: Virology Journal [7], 55,1-55,9
Electronic Journal Article
2010König, EvaEnv-wide analysis of coreceptor determining sites and subtype-specific differences in HIV-1
Universität des Saarlandes
Thesis - Bachelor thesis
2010Kuhn Cuellar, Luis EugenioA probabilistic algorithm for matching protein structures - and its application to detecting functionally relevant patterns
Universität des Saarlandes
Thesis - Master's thesis
2010Kuroishi, 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
Electronic Journal Article
2010Lange, Christian Markus
Roomp, Kirsten
Dragan, Anette
Nattermann, Jacob
Michalk, Monika
Spengler, Ulrich
Weich, Viola
Lengauer, Thomas
Zeuzem, Stefan
Berg, Thoma
Sarrazin, Christoph
HLA class I allele associations with HCV genetic variants in patients with chronic HCV genotypes 1a or 1b infection
In: Journal of Hepatology [53], 1022-1028
Journal Article
2010Lengauer, Thomas
Altmann, André
Thielen, Alexander
Kaiser, Rolf
Chasing the AIDS Virus
In: Communications of the ACM [53], 66-74
Journal Article
2010Loi, Luu PhucIdentifying discriminative motifs for molecular function of proteins
Universität des Saarlandes
Thesis - Master's thesis
2010Lutsik, PavloProcessing of high-throughput DNA methylation data
Universität des Saarlandes
Thesis - Master's thesis
2010McGovern, Rachel A
Thielen, Alexander
Mo, Theresa
Dong, Winnie
Woods, Conan K
Chapman, Douglass
Lewis, Marilyn
James, Ian
Heera, Jayvant
Valdez, Hernan
Harrigan, P Richard
Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies
In: AIDS [24], 2517-2525
Journal Article
2010Mihm, Ulrike
Hofmann, W.P.
Welsch, Christoph
Polta, A.
Lengauer, Thomas
Zeuzem, Stefan
Sarrazin, Christoph
Herrmann, E.
Effect of ribavirin on the frequency of RNAse L cleavage sites within the hepatitis C viral genome
In: Journal of Viral Hepatitis [17], 217-221
Journal Article
2010Perner, JulianeFinding local similarities in gene expression patterns between partially reprogrammed cells and know cell types using a module network approach
Universität des Saarlandes
Thesis - Master's thesis
2010Prosperi, Mattia C. F.
Rosen-Zvi, Michal
Altmann, Andre
Zazzi, Maurizio
Di Giambenedetto, Simona
Kaiser, Rolf
Schülter, Eugen
Struck, Daniel
Sloot, Peter
van de Vijver, David A.
Vandamme, Anne-Mieke
Sönnerborg, Anders
Antiretroviral Therapy Optimisation without Genotype Resistance Testing: A Perspective on Treatment History Based Models
In: PLoS ONE [5], e13753,1-e13753,8
Electronic Journal Article
2010Ramirez, FidelTutorial Cytoscape
In: Bioinformática: Aplicaciones a la genómica y proteómica, 73-98
Part of a Book
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Albrecht, Mario
Finding scaffold proteins in interactomes
In: Trends in Cell Biology [20], 2-4
Journal Article
2010Rhee, 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
Journal Article
2010Roomp, Kirsten
Antes, Iris
Lengauer, Thomas
Predicting MHC class I epitopes in large datasets
In: BMC Bioinformatics [11], 90,1-90,11
Electronic Journal Article
2010Saigo, Hiroto
Hattori, Masahiro
Kashima, Hisashi
Tsuda, Koji
Reaction graph kernels predict EC numbers of unknown enzymatic reactions in plant secondary metabolism
In: BMC Bioinformatics [11], S31,1-S31,7
Electronic Journal Article
2010Schlicker, AndreasAttachment IconOntology-based Similarity Measures and their Application in Bioinformatics
Universität des Saarlandes
Thesis - Doctoral dissertation
2010Schlicker, Andreas
Albrecht, Mario
FunSimMat update: new features for exploring functional similarity
In: Nucleic Acids Research [38], D244-D248
Journal Article
2010Schlicker, Andreas
Lengauer, Thomas
Albrecht, Mario
Improving disease gene prioritization using the semantic similarity of Gene Ontology terms
In: Bioinformatics [26], i561-i567
Journal Article
2010Speicher, Nora K.Network analysis of viral host factors
Universität des Saarlandes
Thesis - Bachelor thesis
2010Stöckel, DanielHistory Based HIV Therapy Outcome Prediction
Universität des Saarlandes
Thesis - Master's thesis
2010Swenson, Luke C.
Boehme, Richard
Thielen, Alexander
McGovern, Rachel A.
Harrigan, P. Richard
Genotypic determination of HIV-1 tropism in the clinical setting
In: HIV Therapy [4], 293-303
Journal Article
2010Swenson, Luke C.
Moores, Andrew
Low, Andrew J.
Thielen, Alexander
Dong, Winnie
Woods, Conan
Jensen, Mark A.
Wynhoven, Brian
Chan, Dennison
Glascock, Christopher
Harrigan, P. Richard
Improved detection of CXCR4-using HIV by V3 genotyping: application of population-based and "deep" sequencing to plasma RNA and proviral DNA
In: Journal of Acquired Immune Deficiency Syndromes [54], 506-510
Journal Article
2010Thielen, Alexander
Lengauer, Thomas
Harrigan, P Richard
Swenson, Luke
Dong, Winnie WY
McGovern, Rachel A
Lewis, Marilyn
James, Ian
Heera, Jayvant
Valdez, Hernan
Mutations within GP41 are correlated with coreceptor tropism but do not substantially improve coreceptor usage prediction
In: Reviews in Antiviral Therapy & Infectious Diseases, 47-47
Poster
2010Thielen, Alexander
Sichtig, Nadine
Kaiser, Rolf
Lam, Jeffrey
Harrigan, P. Richard
Lengauer, Thomas
Improved prediction of HIV-1 coreceptor usage with sequence information from the second hypervariable loop of gp120
In: Journal of Infectious Diseases [202], 1435-1443
Journal Article
2010Weisser, Hendrik
Altmann, André
Sierra, Saleta
Incardona, Francesca
Struck, Daniel
Sönnerborg, Anders
Kaiser, Rolf
Zazzi, Maurizio
Tschochner, Monika
Walter, Hauke
Lengauer, Thomas
Only Slight Impact of Predicted Replicative Capacity for Therapy Response Prediction
In: PLoSOne [5], e9044,1-e9044,10
Electronic Journal Article
2010Welker, Martin-Walter
Welsch, Christoph
Meyer, Aline
Antes, Iris
Albrecht, Mario
Forestier, Nicole
Kronenberger, Bernd
Lengauer, Thomas
Piiper, Albrecht
Zeuzem, Stefan
Sarrazin, Christoph
Dimerization of the hepatitis C virus nonstructural protein 4B depends on the integrity of an aminoterminal basic leucine zipper
In: Protein Science [19], 1327-1336
Journal Article
2010Wittkop, Tobias
Emig, Dorothea
Lange, Sita
Rahmann, Sven
Albrecht, Mario
Morris, John H.
Böcker, Sebastian
Stoye, Jens
Baumbach, Jan
Partitioning biological data with transitivity clustering
In: Nature Methods [7], 419-420
Journal Article
2010Wittkop, Tobias
Rahmann, Sven
Baumbach, Jan
Efficient Online Transcription Factor Binding Site Adjustment by Integrating Transitive Graph Projection with MoRAine 2.0
In: Special Issue: 6th International Symposium on Integrative Bioinformatics, 117,1-117,11
Electronic Proceedings Article
2010Wohlers, Inken
Domingues, Francisco S.
Klau, Gunnar W.
Towards optimal alignment of protein structure distance matrices
In: Bioinformatics [26], 2273-2280
Journal Article
2010Zazzi, Maurizio
Kaiser, Rolf
Sönnerborg, Anders
Struck, Daniel
Altmann, Andre
Prosperi, Mattia C. F.
Rosen-Zvi, Michal
Petroczi, Andrea
Peres, Yardena
Schülter, Eugen
Boucher, Charles
Brun-Vezinet, Francoise
Harigan, Richard
Morris, Lynn
Obermeier, Martin
Perno, Federico
Shafer, Robert
Vandamme, Anne-Mieke
van Laethem, Kristel
Wensing, Annemarie
Lengauer, Thomas
Incardona, Francesca
Prediction of Response to Antiretroviral Therapy by Human Experts and by the EuResist Data-Driven Expert System (the EVE Study)
In: HIV Medicine [Early View], 1-8
Electronic Journal Article
2010Zhu, HongboCharacterization, classification and alignment of protein-protein interfaces
Universität des Saarlandes
Thesis - Doctoral dissertation
2009Adams, Ben
McHardy, Alice
Lundegaard, C.
Lengauer, Thomas
Viral Bioinformatics
In: Modern Genome Annotation - The BioSapiens Network, 429-452
Part of a Book
2009Alcaro, 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
Journal Article
2009Altmann, André
Däumer, Martin
Beerenwinkel, Niko
Peres, Yardena
Schülter, Eugen
Büch, Joachim
Rhee, Soo-Yon
Sönnerborg, Anders
Fessel, W. Jeffrey
Shafer, Robert W.
Zazzi, Maurizio
Kaiser, Rolf
Lengauer, Thomas
Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of
geno2pheno-THEO on a Large Clinical Database
In: The Journal of Infectious Diseases [199], 999-1006
Journal Article
2009Altmann, André
Sing, Tobias
Vermeiren, Hans
Winters, Bart
Van Craenenbroeck, Elke
Van der Borght, Koen
Rhee, Soo-Yon
Shafer, Robert W.
Schülter, Eugen
Kaiser, Rolf
Peres, Yardena
Sönnerborg, Anders
Fessel, W. Jeffrey
Incardona, Francesca
Zazzi, Maurizio
Bacheler, Lee
Van Vlijmen, Hermann
Lengauer, Thomas
Advantages of Predicted Phenotypes and Statistical Learning Models in Inferring Virological Response to Antiretroviral Therapy from HIV Genotype
In: Antiviral Therapy [14], 273-283
Journal Article
2009Antes, IrisComputational Methods for the Investigation of Protein-Ligand Interactions
Universität des Saarlandes
Thesis - Habilitation thesis
2009Blankenburg, Hagen
Finn, Robert D.
Prlić, Andreas
Jenkinson, Andrew M.
Ramírez, Fidel
Emig, Dorothea
Schelhorn, Sven-Eric
Büch, Joachim
Lengauer, Thomas
Albrecht, Mario
DASMI: exchanging, annotating and assessing molecular interaction data
In: Bioinformatics [25], 1321-1328
Journal Article
2009Blankenburg, 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
Electronic Journal Article
2009Bock, ChristophAttachment IconEpigenetic biomarker development
In: Epigenomics [1], 99-110
Journal Article
2009Bock, 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
Journal Article
2009Bozek, Kasia
Relógio, Angela
Kielbasa, Szymon M.
Heine, Markus
Dame, Christof
Kramer, Achim
Herzel, Hanspeter
Regulation of clock-controlled genes in mammals.
In: PLoS One [4], e4882:1-e4882:12
Electronic Journal Article
2009Bozek, Kasia
Thielen, Alexander
Sierra, Saleta
Kaiser, Rolf
Lengauer, Thomas
V3 loop sequence space analysis suggests different evolutionary patterns of CCR5- and CXCR4-tropic HIV.
In: PLoS One [4], e7387:1-e.7387:14
Electronic Journal Article
2009Diehl, SarahAnalysis and reconstruction of protein complex topology
Universität des Saarlandes
Thesis - Master's thesis
2009Doncheva, Nadezhda, T.Analysis and visualization of residue interaction networks
Universität des Saarlandes
Thesis - Master's thesis
2009Ebert, PeterComputational Analysis of genomic HPV data
Universität des Saarlandes
Thesis - Bachelor thesis
2009Feuerbach, Lars
Halachev, Konstantin
Lengauer, Thomas
Bock, Christoph
An exhaustive methode for CpG island annotation
In: Special Issue: Abstracts of the 3rd MC-GARD Meeting, 146-146
Poster
2009Frishman, Dmitrij
Albrecht, Mario
Blankenburg, Hagen
Bork, Peer
Harrington, Eoghan D.
Hermjakob, Henning
Jensen, Lars J.
Juan, David A.
Lengauer, Thomas
Pagel, Philipp
Schachter, Vincent
Valencia, Alfonso
Protein-protein interactions: analysis and prediction
In: Modern Genome Annotation - The Biosapiens Network, 353-410
Part of a Book
2009Gwinner, FrederikAssessing the Conservation of Protein Function on Evolutionary Defined Patches
Universität des Saarlandes
Thesis - Master's thesis
2009Harrigan, P Richard
McGovern, Rachel
Dong, Winnie
Thielen, Alexander
Jensen, Mark
Mo, Theresa
Chapman, Douglas
Lewis, Marilyn
James, Ian
Valdez, Hernan
Screening for HIV tropism using population-based V3 genotypic analysis: a retrospective outcome analysis using stored plasma screening samples from MOTIVATE-1
In: Abstracts presented at the XVIII International HIV Drug Resistance Workshop : Basic Principles & Clinical Implications, A17-A17
Poster
2009Hartmann, Christoph
Antes, Iris
Lengauer, Thomas
Docking and scoring with alternative side-chain conformations
In: Proteins: Structure, Function, and Bioinformatics [74], 712-726
Journal Article
2009Kono, Ken
Bozek, Kasia
Domingues, Francisco S.
Shioda, Tatsuo
Nakayama, Emi E.
Impact of a single amino acid in the variable region 2 of the Old World monkey TRIM5alpha SPRY (B30.2) domain on anti-human immunodeficiency virus type 2 activity
In: Virology [388], 160-168
Journal Article
2009Lawyer, Glenn
Ferkingstad, Egil
Nesvåg, Rangan
Varnäs, Katarina
Agartz, Ingrid
Local and covariate-modulated false discovery rates applied in neuroimaging
In: NeuroImage [47], 213-219
Journal Article
2009Lawyer, Glenn
Nesvåg, Ragnar
Varnäs, Katarina
Okugawa, Gaku
Agartz, Ingrid
Grey and white matter proportional relationships in the cerebellar vermis altered in schizophrenia
In: Cerebellum [8], 52-60
Journal Article
2009Lengauer, Thomas
Altmann, André
Thielen, Alexander
Bioinformatische Unterstützung der Auswahl von HIV Therapien
In: Informatik Spektrum [32], 320-331
Journal Article
2009Lengauer, Thomas
Kaiser, Rolf
Computerjagd auf das AIDSVIRUS
In: Spektrum der Wissenschaft [08], 62-67
Journal Article
2009Lengauer, Thomas
Sierra, S.
Kaiser, Rolf
Resistenzbestimmung
In: MMW Fortschritte in der Medizin [151], 74-75
Journal Article
2009Mangels, MiriamIn Silico Models for the Prediction of Metabolism by Cytochrome P450 Enzymes
Universität des Saarlandes
Thesis - Bachelor thesis
2009McHardy, Alice C.
Adams, Ben
The role of genomics in tracking the evolution of influenza A virus
In: PLoS Pathog [5], e1000566
Electronic Journal Article
2009Mihm, Ulrike
Ackermann, Oliver
Welsch, Christoph
Herrmann, Eva
Hofmann, Wolf Peter
Grigorian, Natalia
Welker, Martin Walter
Lengauer, Thomas
Zeuzem, Stefan
Sarrazin, Christoph
Clinical relevance of the 2'-5'-oligoadenylate synthetase/RNase L system for treatment response in chronic hepatitis C
In: Journal of Hepatology [50], 49-58
Journal Article
2009Moser, 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
Journal Article
2009Müller, FabianAssessing Antibody Neutralization of HIV-1 as an Initial Step in the Search for gp160-based Immunogens
Universität des Saarlandes
Thesis - Master's thesis
2009Pironti, AlejandroProbabilistic disease gene prioritization
Universität des Saarlandes
Thesis - Master's thesis
2009Prosperi, Mattia C. F.
Altmann, André
Rosen-Zvi, Michal
Aharoni, Ehud
Gabor, Borgulya
Fulop, Bazso
Sonnerborg, Anders
Schulter, Eugen
Struck, Daniel
Ulivi, Giovanni
Vandamme, Anne-Mieke
Vercauteren, Jurgen
Zazzi, Maurizio
Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
In: Antiviral Therapy [14], 433-442
Journal Article
2009Roomp, 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
Journal Article
2009Schüffler, 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
Journal Article
2009Sichtig, Nadine
Sierra, Saleta
Kaiser, Rolf
Däumer, Martin
Reuter, Stefan
Schülter, Eugen
Altmann, André
Fätkenheuer, Gerd
Dittmer, Ulf
Pfister, Herbert
Esser, Stefan
Evolution of raltegravir resistance during therapy
In: Journal of antimicrobial chemotherapy [64], 25-32
Journal Article
2009Sommer, IngolfAttachment IconFrom Protein Structure to Function
Universität des Saarlandes
Thesis - Habilitation thesis
2009Sos, Martin L.
Michel, Kathrin
Zander, Thomas
Weiss, Jonathan
Frommolt, Peter
Pfeifer, Martin
Li, Danan
Ullrich, Roland
Koker, Mirjam
Fischer, Florian
Shimamura, Takeshi
Rauh, Daniel
Mermel, Craig
Fischer, Stefanie
Stückrath, Isabel
Heynck, Stefanie
Beroukhim, Rameen
Lin, William
Winckler, Wendy
Shah, Kinjal
LaFramboise, Thomas
Moriarty, Whei F.
Hanna, megan
Tolosi, Laura
Rahnenführer, Jörg
Verhaak, Roel
Chiang, Derek
Getz, Gad
Hellmich, Martin
Wolf, Jürgen
Girard, Luc
Peyton, Michael
Weir, Barbara A.
Chen, Tzu-Hsiu
Greulich, Heidi
Barretina, Jordi
Shapiro, Geoffrey I.
Garraway, Levi A.
Gazdar, Adi F.
Minna, John D.
Meyerson, Matthew
Wong, Kwok-Kin
Thomas, Roman K.
Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions
In: Journal of Clinical Investigation [119], 1727-1740
Journal Article
2009Susser, Simone
Welsch, Christoph
Wang, Yalan
Zettler, Markus
Domingues, Francisco S.
Karey, Ursula
Hughes, Eric
Ralston, Robert
Tong, Xiao
Herrmann, Eva
Zeuzem, Stefan
Sarrazin, Christoph
Characterization of resistance to the protease inhibitor boceprevir in hepatitis C virus-infected patients.
In: Hepatology [50], 1709-1718
Journal Article
2009Thielen, Alexander
Altmann, André
Bogojeska, Jasmina
Kaiser, Rolf
Lengauer, Thomas
Estimating evolutionary pathways to 7CXCR4 usage from cross-sectional data
In: Abstracts presented at the XVIII International HIV Drug Resistance Workshop : Basic Principles & Clinical Implications, A16-A16
Poster
2009Thielen, Alexander
Sichtig, Nadine
Braun, Patrick
Däumer, Martin
Walter, Hauke
Noah, Christian
Wolf, Eva
Müller, Harm
Stürmer, Martin
Lengauer, Thomas
Kaiser, Rolf
Obermeier, Martin
Performance of genotypic coreceptor measurement using geno2pheno[coreceptor] in B- and non-B HIV subtypes in a large cohort of therapy-experienced patients in Germany
In: Reviews in Antiviral Therapy, 99-99
Poster
2009Trignetti, Maria
Sing, Tobias
Svicher, Valentina
Santoro, Maria Mercedes
Forbici, Federica
D'Arrigo, Roberta
Bellocchi, Maria Concetta
Santoro, Mario
Marconi, Patrizia
Zaccarelli, Mauro
Trotta, Maria Paola
Bellagamba, Rita
Narciso, Pasquale
Antinori, Andrea
Lengauer, Thomas
Perno, Carlo Federico
Ceccherini-Silberstein, Francesca
Dynamics of NRTI resistance mutations during therapy interruption
In: AIDS Research and Human Retroviruses [25], 57-64
Journal Article
2009Weimann, AaronUsing multidimensional Scaling for visualizing similarities of proteins
Universität des Saarlandes
Thesis - Bachelor thesis
2009Zhang, 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
Electronic Journal Article
2008Altmann, Andre
Rosen-Zvi, Michal
Prosperi, Mattia
Aharoni, Ehud
Neuvirth, Hani
Schülter, Eugen
Büch, Joachim
Peres, Yardena
Incardona, Incardona
Sönnerborg, Anders
Kaiser, Rolf
Zazzi, Maurizio
Lengauer, Thomas
The EuResist approach for predicting response to anti HIV-1 therapy
In: Reviews in Antiviral Therapy, 107
Poster
2008Altmann, Andre
Rosen-Zvi, Michal
Prosperi, Mattia
Aharoni, Ehud
Neuvirth, Hani
Sönnerborg, Anders
Schülter, Eugen
Büch, Joachim
Struck, Daniel
Peres, Yardena
Incardona, Francesca
Kaiser, Rolf
Zazzi, Maurizio
Lengauer, Thomas
Comparison of Classifier Fusion Methods for Predicting Response to Anti HIV-1 Therapy
In: PLoS ONE [3], e3470
Journal Article
2008Assenov, Yassen
Ramírez, Fidel
Schelhorn, Sven-Eric
Lengauer, Thomas
Albrecht, Mario
Computing topological parameters of biological networks
In: Bioinformatics [24], 282-284
Journal Article
2008Bickel, 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
Proceedings Article
2008Bock, ChristophComputational Epigenetics - Bioinformatic methods for epigenome prediction, DNA methylation mapping and cancer epigenetics
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Bock, ChristophIVF: stars may have to consider the risk of stolen parenthood
In: Nature [454], 938
Journal Article
2008Bock, Christoph
Lengauer, Thomas
Attachment IconComputational epigenetics
In: Bioinformatics [24], 1-10
Journal Article
2008Bock, 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
Journal Article
2008Bogojeska, 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
Journal Article
2008Bogojeska, Jasmina
Lengauer, Thomas
Rahnenführer, Jörg
Stability analysis of mixtures of mutagenetic trees
In: BMC Bioinformatics [9], 165-181
Journal Article
2008Däumer, Martin
Kaiser, Rolf
Klein, Rolf
Lengauer, Thomas
Thiele, Bernhard
Thielen, Alexander
Inferring viral tropism from genotype with massively parallel sequencing; qualitative and quantitative analysis
In: Antiviral Therapy, A101
Poster
2008Djoumbou, YannickMolecular Dynamics based prediction of HIV-1 drug resistance
Universität des Saarlandes
Thesis - Master's thesis
2008Emig, Dorothea
Cline, Melissa S.
Klein, Karsten
Kunert, Anne
Mutzel, Petra
Lengauer, Thomas
Albrecht, Mario
Integrative visual analysis of the effects of alternative splicing on protein domain interaction networks
In: Journal of Integrative Bioinformatics [5], 101-115
Journal Article
2008Emig, Dorothea
Cline, Melissa S.
Lengauer, Thomas
Albrecht, Mario
Integrating expression data with domain interaction networks
In: Bioinformatics [24], 2546-2548
Journal Article
2008Emig, Dorothea
Klein, Karsten
Kunert, Anne
Mutzel, Petra
Albrecht, Mario
Visualizing domain interaction networks and the impact of alternative splicing events
In: Proceedings of the 5th International Conference on BioMedical Visualization (MediVis): Information Visualization in Medical and Biomedical Informatics, 36-43
Proceedings Article
2008Feuerbach, Lars
Christopher, Bock
Halachev, Konstantin
Büch, Joachim
Lengauer, Thomas
Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis
In: Abstracts of the 2nd MC-GARD Meeting, 230
Electronic Proceedings Article
2008Fischer, SandraStructure-based prediction of HIV-1 drug resistance
Universität des Saarlandes
Thesis - Master's thesis
2008Franke, Andre
Balschun, Tobias
Karlsen, Tom H.
Sventoraityte, Jurgita
Nikolaus, Susanna
Mayr, Gabriele
Domingues, Francisco S.
Albrecht, Mario
Nothnagel, Michael
Ellinghaus, David
Sina, Christian
Onnie, Clive M.
Weersma, Rinse K.
Stokkers, Pieter C. F.
Wijmenga, Cisca
Gazouli, Maria
Strachan, David
McArdle, Wendy L.
Vermeire, Séverine
Rutgeers, Paul
Rosenstiel, Philip
Krawczak, Michael
Vatn, Morten H.
IBSEN study group, the
Mathew, Christopher G.
Schreiber, Stefan
Sequence variants in IL10, ARPC2, and multiple other loci contribute to ulcerative colitis
In: Nature Genetics [40], 1319-1323
Journal Article
2008Hartmann, ChristophModeling of Flexible Side Chains for Protein-Ligand Docking
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Hornstein, Max
Hoffmann, Michele J.
Alexa, Adrian
Yamanaka, Masanori
Müller, Mirko
Jung, Volker
Rahnenführer, Jörg
Schulz, Wolfgang A.
Protein phosphatase and TRAIL receptor genes as new candidate tumor genes on chromosome 8p in prostate cancer
In: Cancer Genomics & Proteomics [5], 123-136
Journal Article
2008Jenkinson, 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
Journal Article
2008Kircher, 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
Journal Article
2008Lisurek, 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
Journal Article
2008Lucas, Simon
Heim, Ralph
Negri, Matthias
Antes, Iris
Ries, Christina
Schewe, Katarzyna E.
Bisi, Alessandra
Gobbi, Silvia
Hartmann, Rolf W.
Novel Aldosterone Synthase Inhibitors with Extended Carbocyclic Skeleton by a Combined Ligand-Based and Structure-Based Drug Design Approach
In: Journal of Medical Chemistry [51], 6138-6149
Journal Article
2008Maydt, JochenAnalysis of recombination in Molecular Sequence Data
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Moores, Andrew
Thielen, Alexander
Dong, Winnie
Low, Andrew J.
Woods, Conan
Jensen, Mark
Wynhoven, Brian
Chan, Dennison
Glascock, Christopher
Harrigan, P Richard
Improved detection of X4 virus by V3 genotyping: application to plasma RNA and proviral DNA
In: Antiviral Therapy, A99
Poster
2008Müller, FabianInferring virological response to antiretroviral combination therapy based on past treatment lines
Universität des Saarlandes
Thesis - Bachelor thesis
2008Obermeier, Martin
Berg, Thomas
Sichtig, Nadine
Braun, Patrick
Däumer, Martin
Walter, Hauke
Noah, Christian
Wolf, Eva
Müller, Harm
Stürmer, Martin
Thielen, Alexander
Kaiser, Rolf
Determination of HIV-1 co-receptor usage in German patients – comparison of genotypic methods with the TROFILE® phenotypic assay
In: Abstracts of the Ninth International Congress on Drug Therapy in HIV Infection, 123
Poster
2008Obermeier, Martin
Sichtig, Nadine
Braun, Patrick
Däumer, Martin
Walter, Hauke
Noah, Christian
Wolf, Eva
Müller, Harm
Stürmer, Martin
Kaiser, Rolf
Thielen, Alexander
Determination of HIV-1 coreceptor usage in German patients - comparison of genotypic methods with the TROFILE phenotypic assay
In: Antiviral Therapy, A112
Poster
2008Perner, JulianeAttachment IconSemi-Supervised Learning for Predicting Anti-HIV Drug Resistance
Universität des Saarlandes
Thesis - Bachelor thesis
2008Rosen-Zvi, Michal
Altmann, Andre
Prosperi, Mattia
Aharoni, Ehud
Neuvirth, Hani
Sönnerborg, Anders
Schülter, Eugen
Struck, Daniel
Peres, Yardena
Incardona, Francesca
Kaiser, Rolf
Zazzi, Maurizio
Lengauer, Thomas
Selecting anti-HIV therapies based on a variety of genomic and clinical factors
In: Proceedings of the 16th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2008), i399-406
Proceedings Article
2008Rosen-Zvi, Michal
Schülter, Eugen
Altmann, Andre
Sierra-Aragon, Saleta
Zazzi, Maurizio
Sönnerborg, Anders
Oette, Mark
Lengauer, Thomas
Kaiser, Rolf
Sustaining lamivudine/emtricitabine, abacavir, zidovudine or atazanavir from a previous treatment shows a clinical benefit
In: Antiviral Therapy, A86
Poster
2008Saigo, Hiroto
Tsuda, Koji
Iterative Subgraph Mining for Principal Component Analysis.
In: Proceedings of the IEEE International Conference on Data Mining (ICDM2008), DM934
Proceedings Article
2008Sander, OliverStructural Descriptors for the Analysis of Protein Structure, Function, and Evolution
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Sander, 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
Poster
2008Sander, Oliver
Domingues, Francisco S.
Zhu, Hongbo
Lengauer, Thomas
Sommer, Ingolf
Structural descriptors of protein-protein binding sites
In: Proceedings of 6th Asia-Pacific Bioinformatics Conference, 79-88
Proceedings Article
2008Schelhorn, Sven-Eric
Lengauer, Thomas
Albrecht, Mario
An integrative approach for predicting interactions of protein regions
In: Bioinformatics [24], i35-i41
Journal Article
2008Schlicker, Andreas
Albrecht, Mario
Attachment IconFunSimMat: a comprehensive functional similarity database
In: Nucleic Acids Research [36], D434-D439
Journal Article
2008Schüffler, PeterMethMarker – A toolkit for design, optimization and validation of DNA methylation biomarkers for cancer diagnosis and therapy optimization
Universität des Saarlandes
Thesis - Master's thesis
2008Sierra, Saleta
Kaiser, Rolf
Thielen, Alexander
Sander, Oliver
Lengauer, Thomas
Genotypic Analysis of HIV Co-Receptor Usage
In: Entry Inhibitoren - Neue Formen der HIV-Therapie, 31-39
Part of a Book
2008Sing, TobiasModel-Based Anti HIV Therapy
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Steffen, AndreasComputational Approaches in Supramolecular Chemistry with a special Focus on Virtual Screening
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Stöckel, DanielProtein Surface Remeshing and Characterisation Using Morse-Smale Complexes
Universität des Saarlandes
Thesis - Bachelor thesis
2008Talwar, PritiDevelopment of Computational Methods for Metabolic Network Analysis based on Metabolomics Data
Universität des Saarlandes
Thesis - Doctoral dissertation
2008Thielen, Alexander
Harrigan, P Richard
Low, Andrew J.
Moores, A
Altmann, Andre
Bozek, Kasia
Heger, Eva
Sichtig, Nadine
Kaiser, Rolf
Lengauer, Thomas
Improved genotypic prediction of HIV-1 coreceptor usage by incorporating V2 loop sequence variation
In: Antiviral Therapy, A100
Poster
2008Thielen, Alexander
Kaiser, Rolf
Lengauer, Thomas
Improving HIV-1 coreceptor usage prediction from genotype with regions outside of V3
In: Reviews in Antiviral Therapy, 81-82
Poster
2008Van Ooijen, Gerben
Mayr, Gabriele
Albrecht, Mario
Cornelissen, Ben J. C.
Takken, Frank L. W.
Transcomplementation, but not physical association of the CC-NB-ARC and LRR domains of tomato R protein Mi-1.2 is altered by mutations in the ARC2 subdomain
In: Molecular Plant [1], 401-410
Journal Article
2008Van Ooijen, Gerben
Mayr, Gabriele
Kasiem, Mobien M. A.
Albrecht, Mario
Cornelissen, Ben J. C.
Takken, Frank L. W.
Structure-function analysis of the NB-ARC domain of plant disease resistance proteins
In: Journal of Experimental Botany [59], 1383-1397
Journal Article
2008Verheyen, Jens
Altmann, Andre
Knops, Elena
Schülter, Eugen
Sichtig, Nadine
Reuter, Stefan
Fätkenheuer, Gerd
Pfister, Herbert
Kaiser, Rolf
Relevance of HIV gag cleavage site mutations in failures of protease inhibitor therapies
In: Antiviral Therapy, A53
Poster
2008Watson, James D.
Thornton, Janet M.
Tress, Michael L.
Lopez, Gonzalo
Valencia, Alfonso
Redfern, Oliver
Orengo, Christine A.
Sommer, Ingolf
Domingues, Francisco S.
Structure to function
In: Modern Genome Annotation, 239-262
Part of a Book
2008Weinhold, 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
Journal Article
2008Welsch, 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
Journal Article
2008Zhu, Hongbo
Sommer, Ingolf
Lengauer, Thomas
Domingues, Francisco S.
Attachment IconAlignment of Non-Covalent Interactions at Protein-Protein Interfaces
In: PLoS ONE [3], e1926
Journal Article
2008Zotenko, Elena
Mestre, Julian
O'Leary, Dianne
Przytycka, Teresa
Why Do Hubs in the Yeast Protein Interaction Network Tend To Be Essential: Reexamining the Connection between the Network Topology and Essentiality
In: PLoS Computational Biology [4], e1000140
Journal Article
2007Ahlenstiel, 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
Journal Article
2007Altmann, Andre
Beerenwinkel, Niko
Sing, Tobias
Savenkov, Igor
Däumer, Martin
Kaiser, Rolf
Rhee, Soo-Yon
Fessel, W Jeffrey
Shafer, Robert W
Lengauer, Thomas
Improved prediction of response to antiretroviral combination therapy using the genetic barrier to drug resistance
In: Antiviral Therapy [12], 169-178
Journal Article
2007Altmann, Andre
Däumer, Martin
Sing, Tobias
Beerenwinkel, Niko
Walter, Hauke
Kaiser, Rolf
Lengauer, Thomas
Validation of geno2pheno and THEO on a large independent clinical dataset
In: Proceedings of the 5th European HIV Drug Resistance Workshop, -
Poster
2007Altmann, Andre
Sing, Tobias
Vermeiren, Hans
Winters, Bart
Van Craenenbroeck, Elke
Van der Borght, Koen
Rhee, Soo-Yon
Shafer, Robert W
Schülter, Eugen
Kaiser, Rolf
Peres, Yardena
Sonnerborg, Anders
Fessel, W Jeffrey
Incardona, Francesca
Zazzi, Maurizio
Bacheler, Lee
Van Vlijmen, Hermann
Lengauer, Thomas
Inferring virological response from genotype: with or without predicted phenotypes?
In: Proceedings of the 16th International HIV Drug Resistance Workshop, S169
Poster
2007Blankenburg, HagenA Distributed Annotation System for Molecular Interactions
Ruprecht Karl Universität Heidelberg; Universität Heilbronn
Thesis - Diploma thesis
2007Bock, Christoph
Lengauer, Thomas
Attachment IconComputational Epigenetics: Bioinformatik für neue Wege in der Krebsforschung
In: Jahrbuch 2007, 271-277
Part of a Book
2007Bock, Christoph
Walter, Jörn
Paulsen, Martina
Lengauer, Thomas
Attachment IconCpG Island Mapping by Epigenome Prediction
In: PLoS Computational Biology [3], 1055-1070
Journal Article
2007Bogojeska, JasminaStability analysis of oncogenetic trees mixture models
Universität des Saarlandes
Thesis - Master's thesis
2007Ceccherini-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
Journal Article
2007Dietzen, MatthiasAn additive tree-based approach to the prediction of the strength of acidity for drug-like molecules
Universität des Saarlandes
Thesis - Master's thesis
2007Domingues, Francisco S.
Lengauer, Thomas
Inferring Protein Function from Protein Structure
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1211-1252
Part of a Book
2007Domingues, Francisco S.
Rahnenführer, Jörg
Lengauer, Thomas
Conformational analysis of alternative protein structures
In: Bioinformatics [23], 3131-3138
Journal Article
2007Emig, DorotheaThe Impact of Alternative Splicing on Protein Interaction Networks
Eberhard Karls Universität Tübingen
Thesis - Diploma thesis
2007Feuerbach, LarsAttachment IconTowards Comparative Epigenomics: A Pilot Study on DNA Methylation of CpG Islands on Human Chromosome 21
Universität des Saarlandes
Thesis - Master's thesis
2007Flockerzi, 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
Journal Article
2007Franke, Andre
Hampe, Jochen
Rosenstiel, Philip
Becker, Christoph
Wagner, Florian
Häsler, Robert
Little, Randall D.
Huse, Klaus
Ruether, Andreas
Balschun, Tobias
Wittig, Michael
ElSharawy, Abdou
Mayr, Gabriele
Albrecht, Mario
Prescott, Natalie J.
Onnie, Clive M.
Fournier, Hélène
Keith, Tim
Radelof, Uwe
Platzer, Matthias
Mathew, Christopher G.
Stoll, Monika
Krawczak, Michael
Nürnberg, Peter
Schreiber, Stefan
Systematic association mapping identifies NELL1 as a novel IBD disease gene
In: PLoS ONE [2], e691.1-13
Journal Article
2007Haid, CarlaBSIFlex: Binding Site Identification including protein flexibility
Universität des Saarlandes
Thesis - Master's thesis
2007Hampe, Jochen
Franke, Andre
Rosenstiel, Philip
Till, Andreas
Teuber, Markus
Huse, Klaus
Albrecht, Mario
Mayr, Gabriele
De La Vega, Francisco M.
Briggs, Jason
Günther, Simone
Prescott, Natalie J.
Onnie, Clive M.
Häsler, Robert
Sipos, Bence
Fölsch, Ulrich R.
Lengauer, Thomas
Platzer, Matthias
Mathew, Christopher G.
Krawczak, Michael
Schreiber, Stefan
A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
In: Nature Genetics [39], 207-211
Journal Article
2007Hartmann, Christoph
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
Journal Article
2007Hofmann, Wolf Peter
Fernandez, B.
Herrmann, E.
Welsch, Christoph
Mihm, Ulrike
Kronenberg, B.
Feldmann, G.
Spengler, U.
Zeuzem, Stefan
Sarrazin, Christoph
Somatic hypermutation and mRNA expression levels of the BCL-6 gene in patients with hepatitis C virus-associated lymphoproliferative diseases
In: Journal of Viral Hepatitis [14], 484-491
Journal Article
2007Hofmann, Wolf Peter
Welsch, Christoph
Takahashi, Yoshitomo
Miyajima, Hiroaki
Mihm, Ulrike
Krick, Christoph
Zeuzem, Stefan
Sarrazin, Christoph
Identification and in silico characterization of a novel compound heterozygosty associated with hereditary aceruloplasminemia
In: Scandinavian Journal of Gastroenterology [42], 1088-1094
Journal Article
2007Kämper, Andreas
Rognan, Didier
Lengauer, Thomas
Lead Identification by Virtual Screening
In: Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular Interactions, 651-704
Part of a Book
2007Kamradt, Jörn
Jung, Volker
Wahrheit, Kerstin
Tolosi, Laura
Rahnenführer, Jörg
Schilling, Martin
Walker, Robert
Davis, Sean
Stöckle, Michael
Meltzer, Paul
Wullich, Bernd
Detection of Novel Amplicons in Prostate Cancer by Comprehensive Genomic Profiling of Prostate Cancer Cell Lines Using Oligonucleotide-Based ArrayCGH
In: PLoS ONE [2], e769
Electronic Journal Article
2007Ketter, 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
Journal Article
2007Ketter, Ralf
Urbschat, Steffi
Henn, Wolfram
Feiden, Wolfgang
Beerenwinkel, Niko
Lengauer, Thomas
Steudel, Wolf-Ingo
Zang, Klaus D.
Rahnenführer, Jörg
Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas
In: International Journal of Cancer [121], 1473-1480
Journal Article
2007Kircher, MartinIn silico analysis of microRNA genes on human chromosome 14 and mouse chromosome 12
Universität des Saarlandes
Thesis - Master's thesis
2007Korbel, Ulli S.Identification of Symmetries in Molecules and Complexes
Universität des Saarlandes
Thesis - Master's thesis
2007Kupfer, Bernd
Sing, Tobias
Schüffler, Peter
Hall, Rabea
Kurz, Ralf
McKeown, Astrid
Schneweis, Karl-Eduard
Eberl, Wolfgang
Oldenburg, Johannes
Brackmann, Hans H.
Rockstroh, Jürgen K.
Spengler, Ulrich
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Matz, Bertfried
Fifteen years of env C2V3C3 evolution in six individuals clonally infected with human immunodeficiency virus type 1
In: Journal of Medical Virology [79], 1629-1639
Journal Article
2007Lengauer (ed.)Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and StructuresBook
2007Lengauer (ed.)Bioinformatics - From Genomes to Therapies 2. Getting at the Inner Workings: Molecular InteractionsBook
2007Lengauer (ed.)Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular FunctionBook
2007Lengauer, Oette, Selbig, Hoffmann, Poggensee, Hamouda, Häussinger, Kaiser (ed.)European Journal of Medical ResearchJournal
2007Lengauer, Rost, Schuster (ed.)Proceedings ISMB2007Proceedings
2007Lengauer, ThomasBioinformatik
In: Technologiefüher - Grundlagen, Anwendungen, Trends, 4
Part of a Book
2007Lengauer, ThomasFuture Trends
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1651-1687
Part of a Book
2007Lengauer, ThomasIntroduction
In: Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and Structures, 1-24
Part of a Book
2007Lengauer, ThomasStrategiekonzept "Molekulare Bioinformatik"
In: Informatikforschung in Deutschland, 9
Part of a Book
2007Lengauer, Thomas
Sander, Oliver
Sierra, Saleta
Thielen, Alexander
Kaiser, Rolf
Bioinformatics prediction of HIV coreceptor usage
In: Nature Biotechnology [25], 1407-1410
Journal Article
2007Liu, 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
Journal Article
2007Low, Andrew J.
Dong, Winnie
Chan, Dennison
Sing, Tobias
Swanstrom, Ronald
Jensen, Mark
Pillai, Satish
Good, Benjamin
Harrigan, P. Richard
Current V3 genotyping algorithms are inadequate for predicting X4 co-receptor usage in clinical isolates
In: AIDS [21], F19-F26
Journal Article
2007Mayr, Gabriele
Domingues, Francisco S.
Lackner, Peter
Attachment IconComparative Analysis of Protein Structure Alignments
In: BMC Structural Biology [7], 1
Journal Article
2007Mikeska, 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
Journal Article
2007Müller, OliverUsing Shape Retrieval Techniques for Identifying Similar Protein Binding Sites
Universität des Saarlandes
Thesis - Master's thesis
2007Rahnenführer, 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
Part of a Book
2007Ramírez, Fidel
Schlicker, Andreas
Assenov, Yassen
Lengauer, Thomas
Albrecht, Mario
Computational analysis of human protein interaction networks
In: Proteomics [7], 2541-2552
Journal Article
2007Roomp, KirstenEvolution of Drug Resistance in HIV
In: Bioinformatics - From Genomes to Therapies 3. The Holy Grail: Molecular Function, 1457-1496
Part of a Book
2007Salamat-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
Journal Article
2007Sander, 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
Journal Article
2007Schelhorn, Sven-EricPrediction of Domain and Motif Interactions from Protein Networks
Universität des Saarlandes
Thesis - Master's thesis
2007Scheller, Nicoletta
Resa-Infante, Patricia
de la Luna, Susana
Galao, Rui Pedro
Albrecht, Mario
Kaestner, Lars
Lipp, Peter
Lengauer, Thomas
Meyerhans, Andreas
Díez, Juana
Identification of PatL1, a human homolog to yeast P body component Pat1
In: Biochimica et Biophysica Acta - Molecular Cell Research [1773], 1786-1792
Journal Article
2007Schlicker, 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
Journal Article
2007Schlicker, 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
Electronic Journal Article
2007Schulz, 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
Journal Article
2007Sierra, Saleta
Kaiser, Rolf
Thielen, Alexander
Lengauer, Thomas
Attachment IconGenotypic coreceptor analysis.
In: European Journal of Medical Research [12], 453-462
Journal Article
2007Sing, 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
Proceedings Article
2007Sing, Tobias
Low, Andrew J.
Beerenwinkel, Niko
Sander, Oliver
Cheung, Peter K.
Domingues, Francisco S.
Büch, Joachim
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Harrigan, P. Richard
Predicting HIV coreceptor usage on the basis of genetic and clinical covariates
In: Antiviral Therapy [12], 1097-1106
Journal Article
2007Skrabal, 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
Journal Article
2007Söderhäll, 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
Journal Article
2007Sommer, IngolfProtein Fold Recognition Based on Distant Homologs
In: Bioinformatics - From Genomes to Therapies 1. The Building Blocks: Molecular Sequences and Structures, 351-388
Part of a Book
2007Sommer, Ingolf
Müller, Oliver
Domingues, Francisco S.
Sander, Oliver
Weickert, Joachim
Lengauer, Thomas
Moment invariants as shape recognition technique for comparing protein binding sites
In: Bioinformatics [23], 3139-3146
Journal Article
2007Steffen, Andreas
Karasz, Maximilian
Thiele, Carolin
Lengauer, Thomas
Kämper, Andreas
Wenz, Gerhard
Apostolakis, Joannis
Combined similarity and QSPR virtual screening for guest molecules of $\beta$-cyclodextrin
In: New Journal of Chemistry [31], 1941-1949
Journal Article
2007Steffen, Andreas
Thiele, Carolin
Tietze, Simon
Strassnig, Christian
Kämper, Andreas
Lengauer, Thomas
Wenz, Gerhard
Apostolakis, Joannis
Improved cyclodextrin-based receptors for camptothecin by inverse virtual screening
In: Chemistry [13], 6801-6809
Journal Article
2007Tress, Michael L.
Martelli, Pier L.
Frankish, Adam
Reeves, Gabrielle A.
Wesselink, Jan J.
Yeats, Corin
Ólason, Páll Í.
Albrecht, Mario
Hegyi, Hedi
Giorgetti, Alejandro
Raimondo, Domenico
Lagarde, Julien
Laskowski, Roman A.
López, Gonzalo
Sadowski, Michael I.
Watson, James D.
Fariselli, Piero
Rossi, Ivan
Nagy, Alinda
Kai, Wang
Størling, Zenia
Orsini, Massimiliano
Assenov, Yassen
Blankenburg, Hagen
Huthmacher, Carola
Ramírez, Fidel
Schlicker, Andreas
Denoued, France
Jones, Phil
Kerrien, Samuel
Orchard, Sandra
Antonarakis, Stylianos E.
Reymond, Alexandre
Birney, Ewan
Brunak, Søren
Casadio, Rita
Guigo, Roderic
Harrow, Jennifer
Hermjakob, Henning
Jones, David T.
Lengauer, Thomas
Orengo, Christine A.
Patthy, László
Thornton, Janet M.
Tramontano, Anna
Valencia, Alfonso
Attachment IconThe implications of alternative splicing in the ENCODE protein complement
In: Proceedings of the National Academy of Sciences [104], 5495-5500
Journal Article
2007Volkamer, AndreaAutomated generation of pharmacophore type constraints to improve FlexX docking
Universität des Saarlandes
Thesis - Master's thesis
2007Weisser, HendrikEstimating the local variance of protein structure models
Universität des Saarlandes
Thesis - Master's thesis
2007Welker, Martin W.
Hofmann, Wolf-Peter
Welsch, Christoph
von Wagner, Michael
Herrmann, Eva
Lengauer, Thomas
Zeuzem, Stefan
Sarrazin, Christoph
Correlation nonstructural (NS)4B amino acid variations with initial viral kinetics during interferon-alpha-based therapy in HCV-1b-infected patients
In: Journal of Viral Hepatitis [14], 338-349
Journal Article
2007Welsch, Christoph
Albrecht, Mario
Maydt, Jochen
Herrmann, E.
Welker, M.W.
Sarrazin, C.
Scheidig, A.
Lengauer, Thomas
Zeuzem, S.
Structural and functional comparison of the non-structural protein 4B of flaviviridae
In: Journal of Molecular Graphics and Modeling [26], 546-557
Journal Article
2007Zazzi, Maurizio
Aharoni, Ehud
Altmann, Andre
Baszó, Fulop
Bidgood, Penny
Borgulya, Gabór
Denholm-Prince, J
Fielder, M
Kaiser, Rolf
Kent, Carmel
Lengauer, Thomas
Nepusz, T
Neuvirth, Hanni
Peres, Yardena
Petroczi, Andrea
Prosperi, Mattia
Romano, L
Rosen-Zvi, Michal
Schülter, Eugen
Sing, Tobias
Sonnerborg, Andras
Thompson, R
Ulivi, G
Zalány, L
Incardona, Francesca
EuResist: exploration of multiple modeling techniques for prediction of response to treatment
In: Proceedings of the 5th European HIV Drug Resistance Workshop, -
Poster
2006Albrecht, MarioCombining protein structure prediction with experiments and functional information
Universität des Saarlandes
Thesis - Doctoral dissertation
2006Albrecht, Mario
Takken, Frank L. W.
Update on the domain architectures of NLRs and R proteins
In: Biochemical and Biophysical Research Communications [339], 459-462
Journal Article
2006Alexa, 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
Journal Article
2006Antes, Iris
Lengauer, Thomas
Refinement of homology modeled protein structures for molecular docking
In: Proceedings of the 367. WE-Heraeus Seminar on Biomolecular Simulations, 1
Poster
2006Antes, Iris
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
Journal Article
2006Assenov, YassenTopological Analysis of Biological
Networks
Universität des Saarlandes
Thesis - Master's thesis
2006Binsl, ThomasFeature Prints: A new method for calculating molecular similarities
Universität des Saarlandes
Thesis - Master's thesis
2006Bock, ChristophBioinformatik: Neue Strategien gegen Krebs
In: Deutsches Ärzteblatt PRAXiS [103], 10-11
Journal Article
2006Bock, Christoph
Halachev, Konstantin
Lengauer, Thomas
Bioinformatisches Data Mining erschließt neue Strategien gegen Krebs
In: Aktuelle Trends in der Softwareforschung, 91-99
Part of a Book
2006Bock, Christoph
Hesser, Jürgen
Attachment IconAnalysis and Prediction of Helix Shift Errors in Homology Modeling
In: In Silico Biology [6], 131-145
Journal Article
2006Bock, Christoph
Paulsen, Martina
Tierling, Sascha
Mikeska, Thomas
Lengauer, Thomas
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
Electronic Journal Article
2006Boeddrich, Annett
Gaumer, Sébastien
Haacke, Annette
Tzvetkov, Nikolay
Albrecht, Mario
Evert, Bernd O.
Müller, Eva C.
Lurz, Rudi
Breuer, Peter
Schugardt, Nancy
Plaßmann, Stephanie
Xu, Kexiang
Warrick, John M.
Suopanki, Jaana
Wüllner, Ullrich
Frank, Ronald
Hartl, Ulrich F.
Bonini, Nancy M.
Wanker, Erich E.
An arginine/lysine-rich motif is crucial for VCP/p97-mediated modulation of ataxin-3 fibrillogenesis
In: EMBO Journal [25], 1547-1558
Journal Article
2006Frings, OliverDevelopment of a
Smith-Waterman-Like Multi-Aspect
Alignment Tool
Universität des Saarlandes
Thesis - Bachelor thesis
2006Glaab, EnricoOn the predictability of CpG methylation in human tissue at single basepair resolution
Universität des Saarlandes
Thesis - Bachelor thesis
2006Guo, XinImproving Fold Recognition Using Protein
and Domain Interactions
Universität des Saarlandes
Thesis - Master's thesis
2006Halachev, KonstantinEpiGRAPHregression: A toolkit for (epi-)genomic correlation analysis and prediction of quantitative attributes
Universität des Saarlandes
Thesis - Master's thesis
2006Heckmann-Pohl, Dorothee M.
Bastian, Sabine
Altmeier, S.
Antes, Iris
Improvement of the fungal enzyme pyranose 2-oxidase using protein engineering
In: Journal of Biotechnology [124], 26-40
Journal Article
2006Heil, Burkhard
Ludwig, Jost
Lichtenberg-Fraté, Hella
Lengauer, Thomas
Computational recognition of potassium channel sequences
In: Bioinformatics [13], 1562-1568
Journal Article
2006Hobler, AnnaDocking of monosaccharids into the wild type and mutants of pyranose 2-oxidase
Universität des Saarlandes
Thesis - Bachelor thesis
2006Huthmacher, CarolaDecomposing Protein Networks Into
Domain-Domain Interactions
Eberhard Karls University Tübingen
Thesis - Diploma thesis
2006Jung, HolgerYamada Analyzer - A tool for fast calculation of genomic attributes
Universität des Saarlandes
Thesis - Bachelor thesis
2006Kämper, Andreas
Apostolakis, Joannis
Rarey, Matthias
Marian, Christel Maria
Lengauer, Thomas
Fully Automated Flexible Docking of Ligands into Flexible Synthetic Receptors Using Forward and Inverse Docking Strategies
In: Journal of Chemical Information and Modeling [46], 903-911
Journal Article
2006Kaspar, MelanieAutomated conformational analysis of macrocyclic ring systems
Universität des Saarlandes
Thesis - Master's thesis
2006Lehmann, Clara
Däumer, Martin
Bousaad, Ibrahim
Sing, Tobias
Beerenwinkel, Niko
Lengauer, Thomas
Schmeisser, Norbert
Wyen, Christoph
Fätkenheuer, Gerd
Kaiser, Rolf
Stable coreceptor usage of HIV in patients with ongoing treatment failure on HAART
In: Journal of Clinical Virology [37], 300-304
Journal Article
2006Lengauer, Thomas
Domingues, F.S.
Sommer, Ingolf
Zhu, Hongbo
Analysis and prediction of protein-protein-interaction types
In: BMC Bioinformatics [7], -
Journal Article
2006Lengauer, Thomas
Sing, Tobias
Bioinformatics-assisted anti-HIV therapy
In: Nature Reviews Microbiology [4], 790-797
Journal Article
2006Maydt, Jochen
Lengauer, Thomas
Recco: recombination analysis using cost optimization
In: Bioinformatics [22], 1064-1071
Journal Article
2006Mihm, Ulrike
Grigorian, Natalia
Welsch, Christoph
Herrmann, Eva
Kronenberger, Bernd
Teuber, Gerlinde
von Wagner, Michael
Hofmann, Wolf-Peter
Albrecht, Mario
Lengauer, Thomas
Zeuzem, Stefan
Sarrazin, Christoph
Amino acid variations in hepatitis C virus p7 and sensitivity to antiviral combination therapy with amantadine in chronic hepatitis C
In: Antiviral Therapy [11], 507-519
Journal Article
2006Neumann, 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
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2006Neumann, Dirk
Kohlbacher, Oliver
Merkwirth, Christian
Lengauer, Thomas
Prediction of percutaneous drug absorption
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2006Pfeifer, SusanneDevelopment of a fast
geometry-based screening
compound prefiltering technique
Universität des Saarlandes
Thesis - Bachelor thesis
2006Plotz, Guido
Welsch, Christoph
Giron-Monzon, Luis
Friedhoff, Peter
Albrecht, Mario
Piiper, Albrecht
Biondi, Ricardo M.
Lengauer, Thomas
Zeuzem, Stefan
Raedle, Jochen
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Journal Article
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Universität des Saarlandes
Thesis - Habilitation thesis
2006Reimer, DanielaDocking studies to investigate the effect of correlated mutations in the HIV-Protease on the drug resistance of HIV
Universität des Saarlandes
Thesis - Bachelor thesis
2006Roomp, Kirsten
Beerenwinkel, Niko
Sing, Tobias
Schülter, Eugen
Büch, Joachim
Sierra-Aragon, Saleta
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Lengauer, Thomas
Selbig, Joachim
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2006Salamat-Miller, Nazila
Fang, Jianwen
Seidel, Christopher W.
Smalter, Aaron M.
Assenov, Yassen
Albrecht, Mario
Middaugh, C. Russell
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2006Sander, Oliver
Sommer, Ingolf
Lengauer, Thomas
Local protein structure prediction using discriminative models
In: BMC Bioinformatics [7], 1-13
Electronic Journal Article
2006Schlicker, 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
Electronic Journal Article
2006Schlicker, Andreas
Huthmacher, Carola
Ramírez, Fidel
Lengauer, Thomas
Albrecht, Mario
Functional evaluation of domain-domain interactions and human protein interaction networks
In: German Conference on Bioinformatics (GCB 2006), 115-126
Proceedings Article
2006Sing, Tobias
Sander, Oliver
Beerenwinkel, Niko
Lengauer, Thomas
ROCR: Visualizing classifier performance in R
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Journal Article
2006Sommer, Ingolf
Toppo, Stefano
Sander, Oliver
Lengauer, Thomas
Tosatto, Silvio C. E.
Improving the quality of protein structure models by selecting from alignment alternatives
In: BMC Bioinformatics [7], 1-11
Electronic Journal Article
2006Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
Flexible Docking of Ligands into Synthetic Receptors Using a Two-Sided Incremental Construction Algorithm
In: Journal of Chemical Information and Modeling [46], 1695-1703
Journal Article
2006Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
Virtual screening for guest molecules of a biosensor
In: Biosensors 2006: The ninth world congress on biosensors, O66
Proceedings Article
2006Svicher, Valentina
Sing, Tobias
Santoro, Maria Mercedes
Forbici, Federica
Rodriguez- Barrios, Fátima
Bertoli, Ada
Beerenwinkel, Niko
Bellocchi, Maria Concetta
Gago, Federigo
d´Arminio Monforte, Antonella
Antinori, Andrea
Lengauer, Thomas
Ceccherini-Silberstein, Francesca
Perno, Carlo-Federico
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In: Journal of Virology [80], 7186-7198
Journal Article
2006Takken, Frank L. W.
Albrecht, Mario
Tameling, Wladimir I.
Resistance proteins: molecular switches of plant defence
In: Current Opinion in Plant Biology [9], 383-390
Journal Article
2006Talwar, Priti
Lengauer, Thomas
Wittmann, Christoph
Velagapudi, V. R.
Heinzle, Elmar
Development of Computational Methods for Analysis of Metabolic Profiling Data
In: Proceedings of International Conference on Systems Biology (ICSB 2006), Japan, 42-42
Proceedings Article
2006Tameling, Wladimir I.
Vossen, Jack H.
Albrecht, Mario
Lengauer, Thomas
Berden, Jan A.
Haring, Michel A.
Cornelissen, Ben J.C.
Takken, Frank L. W.
Mutations in the NB-ARC domain of I-2 that impair ATP hydrolysis cause autoactivation
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Journal Article
2006Thielen, AlexanderPrediction of linear B-cell epitopes and MHC class II binding peptides
Eberhardt-Karls-Universität Tübingen
Thesis - Master's thesis
2006Tolosi, LauraAnalysis of Array CGH Data for the Estimation of Genetic Tumor Progression
Universität des Saarlandes
Thesis - Master's thesis
2006Torda, Andrew E.
Lengauer, Thomas
Attachment IconEditorial: Selection of papers of the German Conference of Bioinformatics (GCB) 2005
In: Bioinformatics [22], 1
Journal Article
2006Velagapudi, Vidya R.
Wittmann, Christoph
Lengauer, Thomas
Talwar, Priti
Heinzle, Elmar
Metabolic high- content screening of Saccharomyces cerevisiae reveals superior performance of single gene deletion strains
In: Process Biochemistry [41], 2170-2179
Journal Article
2006Verheyen, Jens
Litau, Elena
Sing, Tobias
Däumer, Martin
Balduin, Melanie
Oette, Mark
Fätkenheuer, Gerd
Rockstroh, Jürgen K.
Schuldenzucker, Ulrike
Hoffmann, Daniel
Pfister, Herbert
Kaiser, Rolf
Compensatory mutations at the HIV cleavage sites p7/p1 and p1/p6-gag in therapy-naive and therapy-experienced patients
In: Antiviral Therapy [11], 879-887
Journal Article
2006Voets, Marieke
Antes, Iris
Scherer, Christiane
Müller-Vieira, Ursula
Biemel, Klaus
Marchais-Oberwinkler, Sandrine
Hartmann, Rolf W.
Synthesis and evaluation of heteroaryl substituted dihydronaphthalenes and indenes: potent and selective inhibitors of aldosterone synthase (CYP11B2) for the treatment of congestive heart failure and myocardial fibrosis
In: Journal of Medicinal Chemistry [49], 2222-2231
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2006Weinhold, NilsInference of Protein Function based on Functionally Conserved Regions in Sequence and Structure Space
Universität des Saarlandes
Thesis - Master's thesis
2006Yin, 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
Journal Article
2006Zhu, Hongbo
Domingues, Francisco S.
Sommer, Ingolf
Lengauer, Thomas
NOXclass: prediction of protein-protein interaction types
In: BMC Bioinformatics [7], 1-15
Electronic Journal Article
2006Zimmer, TobiasFunctional Site Scaffolds
Universität des Saarlandes
Thesis - Bachelor thesis
2005Albrecht, MarioLRRK2 mutations and parkinsonism
In: The Lancet [365], 1230
Journal Article
2005Albrecht, 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
Journal Article
2005Albrecht, Mario
Huthmacher, Carola
Tosatto, Silvio C.E.
Lengauer, Thomas
Decomposing protein networks into domain-domain interactions
In: Bioinformatics [21], ii220-ii221
Journal Article
2005Alexa, AdrianIntegrating the GO graph structure in scoring the
significance of Gene Ontology terms
Universität des Saarlandes
Thesis - Master's thesis
2005Antes, 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
Journal Article
2005Balduin, Melanie
Beerenwinkel, Niko
Sierra, Saleta
Däumer, Martin
Rockstroh, Jürgen
Oette, Mark
Fätkenheuer, Gerd
Kupfer, Bernd
Hoffmann, Daniel
Selbig, Joachim
Pfister, Herbert
Kaiser, Rolf
Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy
In: J Clin Virol [34], 277-287
Journal Article
2005Beerenwinkel, Niko
Däumer, Martin
Sing, Tobias
Rahnenführer, Jörg
Lengauer, Thomas
Selbig, Joachim
Hoffmann, Daniel
Kaiser, Rolf
Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
In: The Journal of Infectious Diseases [191], 1953-1960
Journal Article
2005Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas
Learning multiple evolutionary pathways from cross-sectional data
In: Journal of Computational Biology [12], 584-598
Journal Article
2005Beerenwinkel, Niko
Rahnenführer, Jörg
Kaiser, Rolf
Hoffmann, Daniel
Selbig, Joachim
Lengauer, Thomas
Mtreemix: a software package for learning and using mixture models of mutagenetic trees
In: Bioinformatics [21], 2106-2107
Journal Article
2005Beerenwinkel, Niko
Sing, Tobias
Lengauer, Thomas
Rahnenführer, Jörg
Roomp, Kirsten
Savenkov, Igor
Fischer, Roman
Hoffmann, Daniel
Selbig, Joachim
Korn, Klaus
Walter, Hauke
Berg, Thomas
Braun, Patrick
Fätkenheuer, Gerd
Oette, Mark
Rockstroh, Jürgen
Kupfer, Bernd
Kaiser, Rolf
Däumer, Martin
Computational methods for the design of effective therapies against drug resistant HIV strains
In: Bioinformatics [21], 3943-3950
Journal Article
2005Bock, 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
Journal Article
2005Bojunga, Jörg
Welsch, Christoph
Antes, Iris
Albrecht, Mario
Lengauer, Thomas
Zeuzem, Stefan
Structural and functional analysis of a novel mutation of CYP21B in a heterozygote carrier of 21-hydroxylase deficiency
In: Human Genetics [117], 558-564
Journal Article
2005Castellano, Sergi
Lobanov, Alexey V.
Chapple, Charles
Novoselov, Sergey V.
Albrecht, Mario
Hua, Deame
Lescure, Alain
Lengauer, Thomas
Krol, Alain
Gladyshev, Vadim N.
Guigó, Roderic
Diversity and functional plasticity of eukaryotic selenoproteins: Identification and characterization of the SelJ family
In: Proceedings of the National Academy of Sciences [102], 16188-16193
Journal Article
2005Costello, Christine M.
Mah, Nancy
Häsler, Robert
Rosenstiel, Philip
Waetzig, Georg H.
Hahn, Andreas
Lu, Tim
Gurbuz, Yesim
Nikolaus, Susanna
Albrecht, Mario
Hampe, Jochen
Lucius, Ralph
Klöppel, Günther
Eickhoff, Holger
Lehrach, Hans
Lengauer, Thomas
Schreiber, Stefan
Dissection of the inflammatory bowel disease transcriptome using genome-wide cDNA microarrays identifies novel candidate disease genes
In: PLoS Medicine [2], 771-787
Journal Article
2005Das, Ani V.
James, Jackson
Rahnenführer, Jörg
Thoresona, Wallace B.
Bhattacharyaa, Sumitra
Zhao, Xing
Ahmad, Iqbal
Retinal properties and potential of the adult mammalian ciliary epithelium stem cells
In: Vision Research [45], 1653-1666
Journal Article
2005Djoumbou, YannickDocking studies to investigate the effect of correlated mutations in the HIV-Protease on the drug resistance of HIV
Universität des Saarlandes
Thesis - Bachelor thesis
2005Gu, Wei
Kofler, Michael
Antes, Iris
Freund, Christian
Helms, Volkhard
Alternative Binding Modes of Polyproline Peptides Binding to the GYF Domain
In: Biochemistry [44], 6404-6415
Journal Article
2005Hahn, Andreas
Rahnenführer, Jörg
Talwar, Priti
Lengauer, Thomas
Confirmation of human protein interaction data by human expression data
In: BMC Bioinformatics [6], 1-11
Journal Article
2005Hessler, G.
Zimmermann, M.
Matter, H.
Evers, A.
Naumann, T.
Lengauer, Thomas
Rarey, M.
Multiple-Ligand-Based Virtual Screening: Methods and Applications of the MTree Approach
In: Journal of Medicinal Chemistry [48], 6575-6584
Journal Article
2005Ifrim, GeorgianaA Bayesian Learning Approach to Concept-Based Document Classification
Universität des Saarlandes
Thesis - Master's thesis
2005Immesberger, StefanAttachment IconA Prefiltering Method to Speed up Protein
Structure Prediction
Universität des Saarlandes
Thesis - Bachelor thesis
2005Kaiser, Rolf
Boussaad, Ibo
Lehmann, C.
Däumer, Martin
Sing, Tobias
Schmeisser, N.
Wyen, C.
Fätkenheuer, Gerd
Stable coreceptor usage of HIV-1 in patients with ongoing treatment failure on HAART
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -
Proceedings Article
2005Kämper, Andreas
Kaspar, Melanie
Lengauer, Thomas
Efficient conformational analysis of synthetic receptors with macrocyclic and fused ring systems
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O4
Proceedings Article
2005Kaspar, MelanieAttachment IconConformational Analysis of Macrocyclic Ring Systems
Universität des Saarlandes
Thesis - Bachelor thesis
2005Krier, MarkusAttachment IconMotif Search in Protein Sequences for Protein
Structure Prediction
Universität des Saarlandes
Thesis - Bachelor thesis
2005Lengauer, ThomasAttachment IconInformatics (Computational Biology)
In: Growth Factors and Oncogenes in Gastrointestinal Cancers to Informatics (Computational Biology), 567-626
Part of a Book
2005Lengauer, Thomas
Albrecht, Mario
Sarrazin, C.
Mihm, U.
Herrmann, E.
Welsch, Christoph
Sarrazin, U.
Traver, S.
Zeuzem, S.
Clinical significance of in vitro replication-enhancing mutations of the hepatitis C virus (HCV) replicon in patients with chronic HCV infection.
In: Journal of Infectious Diseases [192], 1710-1719
Journal Article
2005Lengauer, Thomas
Merkwirth, Christian
Automatic Generation of complementary descriptors with molecular graph networks
In: Journal of Chemical Information and Modeling [45], 1159-1168
Journal Article
2005Meiser, InaIdentification of functionally important regions in cytochrome P450 systems and a systematic analysis of various CYP P450 homology models
Universität des Saarlandes
Thesis - Bachelor thesis
2005Nickels, StefanAttachment IconGenerating Molecular Hashcodes for
Finding Duplicates in Virtual Screening
Libraries
Universität des Saarlandes
Thesis - Bachelor thesis
2005Rahnenführer, JörgClustering algorithms and other exploratory methods for microarray data analysis
In: Methods of Information in Medicine [44], 444-448
Journal Article
2005Rahnenführer, JörgImage analysis for cDNA microarrays
In: Methods of Information in Medicine [44], 405-407
Journal Article
2005Rahnenführer, Jörg
Beerenwinkel, Niko
Schulz, Wolfgang A.
Hartmann, Christian
von Deimling, Andreas
Wullich, Bernd
Lengauer, Thomas
Estimating cancer survival and clinical outcome based on genetic tumor progression scores
In: Bioinformatics [21], 2438-2446
Journal Article
2005Ralser, 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
Journal Article
2005Ralser, Markus
Nonhoff, Ute
Albrecht, Mario
Lengauer, Thomas
Wanker, Erich E.
Lehrach, Hans
Krobitsch, Sylvia
Ataxin-2 and huntingtin interact with endophilin-A complexes to function in plastin-associated pathways
In: Human Molecular Genetics [14], 2893-2909
Journal Article
2005Sarrazin, Christoph
Mihm, Ulrike
Herrmann, Eva
Welsch, Christoph
Albrecht, Mario
Sarrazin, Ulrike
Traver, Stella
Lengauer, Thomas
Zeuzem, Stefan
Clinical significance of in vitro replication-enhancing mutations of the hepatitis C virus (HCV) replicon in patients with chronic HCV infection
In: The Journal of Infectious Diseases [192], 1710-1719
Journal Article
2005Schlicker, AndreasA Global Approach to Comparative Genomics: Comparison of Functional Annotation over the Taxonomic Tree
Universität des Saarlandes
Thesis - Master's thesis
2005Schreiber, Stefan
Rosenstiel, Philip
Albrecht, Mario
Hampe, Jochen
Krawczak, Michael
Genetics of Crohn disease, an archetypal inflammatory barrier disease
In: Nature Reviews Genetics [6], 376-388
Journal Article
2005Sing, Tobias
Beerenwinkel, Niko
Kaiser, Rolf
Hoffmann, Daniel
Däumer, Martin
Lengauer, Thomas
Geno2pheno[coreceptor]: a tool for predicting coreceptor usage from genotype and for monitoring coreceptor-associated sequence alterations
In: Proceedings of the 3rd European HIV Drug Resistance Workshop, -
Poster
2005Sing, Tobias
Svicher, Valentina
Beerenwinkel, Niko
Ceccherini-Silberstein, Francesca
Däumer, Martin
Kaiser, Rolf
Walter, Hauke
Korn, Klaus
Hoffmann, Daniel
Oette, Mark
Rockstroh, Jürgen K.
Fätkenheuer, Gerd
Perno, Carlo-Federico
Lengauer, Thomas
Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
In: Knowledge Discovery in Databases: PKDD 2005., 285-296
Proceedings Article
2005Siu, Shirley Weng-InComputational prediction of MHC-peptide interactions
Universität des Saarlandes
Thesis - Master's thesis
2005Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
FlexR - A new tool for predicting the structure of synthetic host-guest complexes
In: Synthetic Receptors 2005: Second World Congress on Synthetic Receptors, O7
Proceedings Article
2005Svicher, 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, -
Proceedings Article
2005Svicher, 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, -
Proceedings Article
2005Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
Heinzle, Elmar
Velagapudi, VR
Wittmann, Christoph
Towards computational analysis of metabolic profiling data for protein function prediction.
In: Proceedings of the Yeast Systems Biology, 6th International Conference on Systems Biology (ICSB 2005), 1
Poster
2005Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
Wittmann, Christoph
Velagapudi, VR
Heinzle, Elmar
Computational Methods for Protein Function Prediction using Metabolomics Data
In: Proceedings of International Workshop on Systems Biology 2005, 1
Poster
2005Ulmschneider, Sarah
Mueller-Vieira, Ursula
Klein, Christian D.
Antes, Iris
Lengauer, Thomas
Hartmann, Rolf W.
Synthesis and Evaluation of Pyridylmethylene-tetrahydronaphthalenes and -indanes: Potent and Selective Inhibitors of Aldosterone Synthase (CYP11B2)
In: Journal of Medicinal Chemistry [48], 4489-4490
Journal Article
2005Ulmschneider, Sarah
Mueller-Vieira, Ursula
Mitrenga, Markus
Hartmann, Rolf W.
Oberwinkler-Marchais, S
Klein, Christian D.
Bureik, M.
Bernhardt, R.
Antes, Iris
Lengauer, Thomas
Synthesis and Evaluation of Imidazolylmethylenetetrahydronaphthalenes and Imidazolylmethyleneindanes: Potent Inhibitors of Aldosterone Synthase
In: Journal of Medicinal Chemistry [48], 1796-1805
Journal Article
2005Valentonyte, Ruta
Hampe, Jochen
Huse, Klaus
Rosenstiel, Philip
Albrecht, Mario
Stenzel, Annette
Nagy, Marion
Gaede, Karoline I.
Franke, Andre
Haesler, Robert
Koch, Andreas
Lengauer, Thomas
Seegert, Dirk
Reiling, Norbert
Ehlers, Stefan
Schwinger, Eberhard
Platzer, Mathias
Krawczak, Michael
Müller-Quernheim, Joachim
Schürmann, Manfred
Schreiber, Stefan
Sarcoidosis is associated with a truncating splice site mutation in BTNL2
In: Nature Genetics [37], 357-364
Journal Article
2005Van Duist, Marjan M.
Albrecht, Mario
Podswiadek, Marta
Giachino, Daniela
Lengauer, Thomas
Punzi, Leonardo
De Marchi, Mario
A new CARD15 mutation in Blau syndrome
In: European Journal of Human Genetics [13], 742-747
Journal Article
2005Voets, Marieke
Antes, Iris
Scherer, C
Mueller-Vieira, U.
Biemel, K.
Barrassin, C.
Marchais-Oberwinkler, S.
Hartmann, R. W.
Heteroaryl-substituted naphthalenes and structurally modified derivatives: selective inhibitors of CYP11B2 for the treatment of congestive heart failure and myocardial fibrosis
In: Journal of Medicinal Chemistry [48], 6632-6642
Journal Article
2005Volkamer, AndreaAttachment IconImplementation of a method to filter
out compounds with toxic, reactive
and unsuitable functional groups
Universität des Saarlandes
Thesis - Bachelor thesis
2005Weiss, JuliaAttachment IconGenerating Frequency Profiles from Multiple
Structure Alignments
Universität des Saarlandes
Thesis - Bachelor thesis
2005Wemmert, 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
Journal Article
2005Yalak, GarifAttachment IconAnalysis of Mutations in the Death Domains, Death Effector Domains, Caspase
Recruitment Domains, and Pyrin Domains
Universität des Saarlandes
Thesis - Bachelor thesis
2005Yin, JunmingModel Selection for Mixtures of Mutagenetic Trees
Universität des Saarlandes
Thesis - Master's thesis
2005Zhu, Hongbo
Domingues, Francisco S.
Sommer, Ingolf
Lengauer, Thomas
Analysis and prediction of protein-protein interaction types
In: 4th European Conference on Computational Biology (ECCB05), 1
Poster
2004Albrecht, Mario
Golatta, Michael
Wüllner, Ullrich
Lengauer, Thomas
Structural and functional analysis of ataxin-2 and ataxin-3
In: European Journal of Biochemistry [271], 3155-3170
Journal Article
2004Albrecht, Mario
Lengauer, Thomas
Novel Sm-like proteins with long C-terminal tails and associated methyltransferases
In: FEBS Letters [569], 18-26
Journal Article
2004Albrecht, Mario
Lengauer, Thomas
Survey on the PABC recognition motif PAM2
In: Biochemical and Biophysical Research Communications [316], 129-138
Journal Article
2004Bayjanov, JumamuratScoring pathway activity from gene
expression data
Universität des Saarlandes
Thesis - Master's thesis
2004Beerenwinkel, NikoComputational Analysis of HIV Drug resistance DataBook
2004Beerenwinkel, NikoDas Arevir-Projekt : neue Wege zur Optimierung von Anti-HIV-Therapien
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 94-98
Part of a Book
2004Beerenwinkel, NikoMethoden zur Interpretation genotypischer Resistenztests
In: Resistenz in der HIV-Therapie : Diagnostik und Management, 66-68
Part of a Book
2004Beerenwinkel, Niko
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas
Learning multiple evolutionary pathways from cross-sectional data
In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, 36-44
Proceedings Article
2004Beerenwinkel, Niko
Sing, Tobias
Däumer, Martin
Kaiser, Rolf
Lengauer, Thomas
Computing the genetic barrier
In: XII International HIV Drug resistance Workshop, S125-S125
Proceedings Article
2004Binsl, ThomasAttachment IconImplementation of a Generic Fragment
Based Method for Automated
Calculation of the Octanol-Water
Partition Coefficient
Universität des Saarlandes
Thesis - Bachelor thesis
2004Crass, T.
Antes, Iris
Basekow, R.
Bork, P.
Buning, Christian
Christensen, M.
Claußen, H.
Ebeling, C.
Ernst,P.
Gailus-Durner, V.
Glatting, K.-H.
Gohla, R.
Gößling, F.
Grote, K.
Heidtke, K.
Herrmann, A.
O Keefe, S.
Kießlich, O.
Kolibal, S.
Korbel, J.O.
Lengauer, Thomas
Liebich, I.
van der Linden, M.
Luz, H.
Meissner, K.
von Mering, C.
Mevissen, T.
Mewes, H.-W.
Michael, H.
Mokrejs, M.
Müller, T.
Pospisil, H.
Rarey, Matthias
Reich, J.G.
Schneider, R.
Schomburg, D.
Schulze-Kremer, S.
Schwarzer, K.
Sommer, Ingolf
Springstubbe, S.
Suhai, S.
Thoppae, G.
Vingron, M.
Warfsmann, J.
Werner, T.
Wetzler, D.
Wingender, E.
Zimmer, Ralf
The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources
In: Bioinformatics [20], 268-270
Journal Article
2004Domingues, Francisco S.
Lengauer, Thomas
Sommer, Ingolf
Protein Structure Prediction and Databases
In: Nature Encyclopedia of the Human Genome, 864-867
Part of a Book
2004Domingues, 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
Journal Article
2004Eyrisch, SusanneAttachment IconFun2Struc-A Tool For Predicting Protein Structure
Classes from Function Predictions
Universität des Saarlandes
Thesis - Bachelor thesis
2004Hahn, Andreas
Costello, Christine M.
Lu, Tim
Lengauer, Thomas
Schreiber, Stefan
Expression analysis for inflammatory bowel disease
In: Workshop Poster Competition, ?
Poster
2004Hannemann, A.
Schön, J.C.
Jansen, M.
Putz, H.
Lengauer, Thomas
Modelling amorphous Si3B3N7: Structure and elastic properties
In: Physical Review [B 70], 144201-144201
Journal Article
2004Hofmann, W.P.
Herrmann, E.
Kronenberger, B.
Merkwirth, Christian
Welsch, Christoph
Lengauer, Thomas
Zeuzem, S.
Sarrazin, C.
Association of HCV-related mixed cryoglobulinemia with specific mutational patterns of the HCV E2 protein and CD81 expression on peripheral B lymphocytes
In: Blood [104], 1228-1229
Journal Article
2004James, Jackson
Das, Ani V.
Rahnenführer, Jörg
Ahmad, Iqbal
Cellular and Molecular Characterization of Early and Late Retinal Stem Cells/Progenitors: Differential Regulation of Proliferation and Context Dependent Role of Notch Signaling
In: Journal of Neurobiology [61], 359-376
Journal Article
2004James, Jackson
Das, Ani V.
Zhao, Xing
Rahnenführer, Jörg
Ahmad, Iqbal
Identification of c-Kit receptor as a regulator of adult neural stem cells in the mammalian eye: interactions with Notch signaling
In: Developmental Biology [273], 87-105
Journal Article
2004Lengauer, Thomas
Lemmen, Christian
Rarey, Matthias
Zimmermann, M.
Novel technologies for virtual screening
In: Drug Discovery Today [9], 27-34
Journal Article
2004Merkwirth, Christian
Bröcker, J.
Ogorzalek, Maciej
Wichard, J.D.
Finite iteration DT-CNN - new design and operation principles
In: Proceedings (ISCAS-04) : 2004 IEEE International Symposium on Circuits and Systems. - Vol. 5, Blind signal processing, computer-aided network design, invited sessions, neural sytems and applications, power systems and power electronic circuits, 504-507
Proceedings Article
2004Merkwirth, 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
Journal Article
2004Öhsen von, Niklas
Sommer, Ingolf
Zimmer, Ralf
Lengauer, Thomas
Arby: Automatic protein structure prediction using profile-profile alignment and confidence measures
In: Bioinformatics [20], 2228-2235
Journal Article
2004Prlic, Andreas
Domingues, Francisco S.
Lackner, Peter
Sippl, Manfred J.
WILMA-automated annotation of protein sequences
In: Bioinformatics [20], 127-128
Journal Article
2004Rahnenführer, Jörg
Bozinov, Daniel
Hybrid clustering for microarray image analysis combining intensity and shape features
In: BMC Bioinformatics [5], 1-11
Journal Article
2004Rahnenführer, Jörg
Domingues, Francisco S.
Maydt, Jochen
Lengauer, Thomas
Calculating the statistical significance of changes in pathway activity from gene expression data
In: Statistical Applications in Genetics and Molecular Biology [3], Article 16
Electronic Journal Article
2004Ramírez, FidelEvolucion de la Evolucionalidad
In: Biologos lejos del equilibrio: Nuevas metaforas evolutivas, 59-87
Part of a Book
2004Ramírez, 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
Thesis - Master's thesis
2004Sander, OliverLocal sequence-structure relationships in proteins
Friedrich-Alexander-Universität Erlangen-Nürnberg
Thesis - Diploma thesis
2004Schlicker, AndreasAttachment IconAutomated Differential Analysis of Proteomes
Universität des Saarlandes
Thesis - Bachelor thesis
2004Sing, 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
Thesis - Master's thesis
2004Sing, Tobias
Beerenwinkel, Niko
Lengauer, Thomas
Learning mixtures of localized rules by maximizing the area under the ROC curve
In: ROCAI-2004: 1st International Workshop on ROC Analysis in Artificial Intelligence, 89-96
Proceedings Article
2004Sommer, Ingolf
Rahnenführer, Jörg
Domingues, Francisco S.
de Lichtenberg, Ulrik
Lengauer, Thomas
Predicting Protein Structure Classes from Function Predictions
In: Bioinformatics [20], 770-776
Journal Article
2004Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
Development of a new tool for predicting the structure of host-guest complexes
In: Proceedings of the 2nd Summer School Medicinal Chemistry Regensburg 2004, 83
Poster
2004Steffen, Andreas
Kämper, Andreas
Lengauer, Thomas
FlexR - Predicting the structure of host-guest complexes
In: Proceedings of the Annual Meeting of the German Pharmaceutical Society - Joint Meeting 2004 (DPhG 2004), 130
Poster
2004Stoll, Monika
Corneliussen, Brit
Costello, Christine M.
Waetzig, Georg H.
Mellgard, Bjorn
Koch, W. Andreas
Rosenstiel, Philip
Albrecht, Mario
Croucher, Peter J.P.
Seegert, Dirk
Nikolaus, Susanna
Hampe, Jochen
Lengauer, Thomas
Pierrou, Stefan
Foelsch, Ulrich R.
Mathew, Christopher G.
Lagerstrom-Fermer, Maria
Schreiber, Stefan
Genetic variation in DLG5 is associated with inflammatory bowel disease
In: Nature Genetics [36], 376-380
Journal Article
2004Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
Velagapudi, VR
Wittmann, Christoph
Heinzle, Elmar
Computational Methods For Metabolite Screening
In: Proceedings of the 12th International Conference on Intelligent Systems for Molecular Biology + 3rd European Conference on Computational Biology (ISMB/ECCB 2004), 1
Poster
2004Talwar, Priti
Lengauer, Thomas
Rahnenführer, Jörg
Velagapudi, VR
Wittmann, Christoph
Heinzle, Elmar
Computational Methods For Metabolite Screening
In: Proceedings of the 5th International Conference on Systems Biology (ICSB 2004), 1
Poster
2004Thornton, 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)Proceedings
2004Trajkovski, IgorAnalysis of protein binding pocket flexibility
Universität des Saarlandes
Thesis - Master's thesis
2004Wichard, J.D.
Ogorzalek, Maciej
Merkwirth, Christian
Bröcker, J.
Finite iteration DT-CNN with stationary templates
In: Proceedings of the 8th IEEE International Workshop on Cellular Neural Networks and their Applications (CNNA 2004), 459-464
Proceedings Article
2003Albrecht, Mario
Domingues, Francisco S.
Schreiber, Stefan
Lengauer, Thomas
Identification of mammalian orthologs associates PYPAF5 with distinct functional roles
In: FEBS Letters [538], 173-177
Journal Article
2003Albrecht, 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
Journal Article
2003Albrecht, Mario
Hoffmann, Daniel
Evert, Bernd O.
Schmitt, Ina
Wüllner, Ullrich
Lengauer, Thomas
Structural modeling of ataxin-3 reveals distant homology to adaptins
In: Proteins: Structure, Function, and Genetics [50], 355-370
Journal Article
2003Albrecht, Mario
Lengauer, Thomas
Pyranose oxidase identified as a member of the GMC oxidoreductase family
In: Bioinformatics [19], 1216-1220
Journal Article
2003Albrecht, Mario
Lengauer, Thomas
Schreiber, Stefan
Disease-associated variants in PYPAF1 and NOD2 result in similar alterations of conserved sequence
In: Bioinformatics [19], 2171-2175
Journal Article
2003Albrecht, Mario
Tosatto, Silvio C.E.
Lengauer, Thomas
Valle, Giorgio
Simple consensus procedures are effective and sufficient in secondary structure prediction
In: Protein Engineering [16], 459-462
Journal Article
2003Antes, Iris
Lengauer, Thomas
Mueller, Ursula
Ulmschneider, Sarah
Hartmann, Rolf
Docking into the homology models of CYP11B1 and CYP11B2
In: Proceedings of the German Conference on Bioinformatics 2003, 13
Poster
2003Antes, Iris
Wang, Hongyun
Chandler, David
Oster, George
The unbinding of ATP from F1-ATPase
In: Biophysical Journal [85], 695-706
Journal Article
2003Beerenwinkel, NikoAttachment IconComputational Analysis of HIV Drug Resistance Data
Universität des Saarlandes
Thesis - Doctoral dissertation
2003Beerenwinkel, Niko
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Lengauer, Thomas
Bioinformatikmethoden für die Optimierung antiviraler Kombinationstherapien
In: MPG Jahrbuch, 481-486
Part of a Book
2003Beerenwinkel, Niko
Däumer, Martin
Kaiser, Rolf
Walter, Hauke
Korn, Klaus
Hoffmann, Daniel
Selbig, Joachim
Lengauer, Thomas
Estimating effective drug combinations against drug-resistant mutants from genotypes
In: Proceedings of the 1st European HIV Drug Resistamce Workshop, 18-18
Proceedings Article
2003Beerenwinkel, Niko
Däumer, Martin
Oette, Mark
Korn, Klaus
Hoffmann, Daniel
Kaiser, Rolf
Lengauer, Thomas
Selbig, Joachim
Walter, Hauke
Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes
In: Nucleic Acids Research [31], 3850-3855
Journal Article
2003Beerenwinkel, Niko
Kaiser, Rolf
Rahnenführer, Jörg
Däumer, Martin
Hoffmann, Daniel
Selbig, Joachim
Lengauer, Thomas
Tree models for the evolution of drug resistance
In: XII International HIV Drug resistance Workshop, S107-S107
Proceedings Article
2003Beerenwinkel, Niko
Lengauer, Thomas
Däumer, Martin
Kaiser, Rolf
Walter, Hauke
Korn, Klaus
Hoffmann, Daniel
Selbig, Joachim
Methods for optimizing antiviral combination therapies
In: Bioinformatics [19], i16-i25
Journal Article
2003Domingues, Francisco S.
Lengauer, Thomas
Protein Function from Sequence and Structure Data
In: Applied Bioinformatics [2], 3-12
Journal Article
2003James, Jackson
Das, Ani V.
Rahnenführer, Jörg
Leon, FAS
Ahmad, Iqbal
Identification of rat brahma (rBRM), a subunit of SWI/SNF chromatin remodeling complex: Involvement in the differentiation of retinal stem cells/progenitorsMiscellaneous
2003Janssen, A.
Rahnenführer, Jörg
A hazard based approach to dependence tests for bivariate censored models
In: Mathematical Methods in Statistics [11], 297-322
Journal Article
2003Jose, Joachim
Betschieder, Dirk
Ray, Somak
Lengauer, Thomas
Zangen, D
New inhibitors of human cathepsin G identified by surface display library screening and peptide-protein docking
In: 7th International Symposium on Pharmaceutical Sciences (ISOPS-7), 46-49
Proceedings Article
2003Kämper, Andreas
Lengauer, Thomas
ECLIPPSE: Environment for Chemical Library Inspection, Pre- and Postprocessing, and Screening Evaluation. User GuideManual
2003Kämper, Andreas
Lengauer, Thomas
Virtual Screening for novel Urease Inhibitors
In: Proceedings of the International Workshop on New Approaches in Drug Design & Discovery, 39
Poster
2003Lengauer, ThomasAnalyzing resistance phenomena in HIV with bioinformatics methods
In: Bioinformatics [19], 92i
Journal Article
2003Lengauer, Thomas
Schäfer, M.
Combinatorial Optimization Techniques for Three-Dimensional Arrangement Problems
In: Mathematics - Key Technology for the Future, 63-73
Part of a Book
2003Merkwirth, Christian
Ogorzalek, Maciej
Wichard, Jörg Daniel
Attachment IconStochastic Gradient Descent Training of Ensembles of DT-CNN Classifiers for Digit Recognition
In: Proceedings of the 16th European Conference on Circuit Theory and Design ECCTD'03, 337-341
Proceedings Article
2003Olsen, Lars
Antony, Jens
Ryde, Ulf
Adolph, Hans-Werner
Hemmingsen, Lars
Lactam hydrolysis catalyzed by mononuclear metallo-beta-lactamases: a density functional study
In: Journal of Physical Chemistry / B [107], 2366-2375
Journal Article
2003Peinado, M.
Lengauer, Thomas
Parallel "go with the winners algorithms" in Distributed Memory Models
In: Journal of Parallel and Distributed Processing [63], 801-814
Journal Article
2003Rahnenführer, JörgEfficient Clustering Methods for Tumor Classification with Microarrays
In: Proceedings of the 26th Annual Conference of the Gesellschaft für Klassifikation, 670-679
Proceedings Article
2003Rahnenführer, JörgOn preferences of general two-sided tests with applications to Kolmogorov-Smirnov-type tests
In: Statistics & Decisions [21], 115-136
Journal Article
2003Rahnenführer, JörgStatistical Inference for Clustering Microarrays
In: Proceedings of the MSRI Workshop: Nonlinear Estimation and Classification, 323-332
Proceedings Article
2003Rahnenführer, Jörg
Bozinov, Daniel
Comparative quality analyses for hybrid clustering of microarray images
In: Proceedings of the Sventh Annual International Conference on Computational Biology, -
Poster
2003Rahnenführer, 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
Journal Article
2003Talwar, Priti
Lengauer, Thomas
Wittmann, Christoph
Mangadu, Vidya
Heinzle, Elmar
Towards cellular function through metabolite screening
In: Proceedings of the 3rd Annual Conference on Metabolic Profiling: Pathways in Discovery, 7
Proceedings Article
2003Talwar, Priti
Wittmann, Christoph
Lengauer, Thomas
Heinzle, Elmar
Software tool for automated processing of 13C labeling data from mass spectrometry data
In: BioTechniques [35], 1214-1215
Journal Article
2003von Öhsen, Niklas
Sommer, Ingolf
Zimmer, Ralf
Profile-Profile Alignment: A Powerful Tool For Protein Structure Prediction
In: Pacific Symposium on Biocomputing, PSB 2003, 252-263
Proceedings Article
2003Wolf, Katharina
Walter, Hauke
Beerenwinkel, Niko
Keulen, Wilco
Kaiser, Rolf
Hoffmann, Daniel
Lengauer, Thomas
Selbig, Joachim
Vandamme, Anne-Mieke
Korn, Klaus
Schmidt, Barbara
Tenofovir resistance and resensitization
In: Antimicrobial Agents and Chemotherapy [47], 3478-3484
Journal Article
2003Zien, Alexander
Fluck, Juliane
Zimmer, Ralf
Lengauer, Thomas
Microarrays: How many do you need?
In: Journal of Computational Biology [10], 653-667
Journal Article
2002Albrecht, Mario
Hanisch, Daniel
Zimmer, Ralf
Lengauer, Thomas
Attachment IconImproving fold recognition of protein threading by experimental distance constraints
In: In Silico Biology [2], 325-337
Journal Article
2002Antes, Iris
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, -
Poster
2002Antes, Iris
Thiel, Walter
Gunsteren van, Wilfred F.
Molecular dynamics simulations of photoactive yellow protein (PYP) in three states of its photocycle: a comparison with X-ray and NMR data and analysis of the effects of Glu46 deprotonation and mutation
In: European Biophysics Jounal [31], 504-520
Journal Article
2002Beerenwinkel, Niko
Lengauer, Thomas
Däumer, Martin
Sierra, S.
Schmidt, Barbara
Walter, Hauke
Korn, Klaus
Oette, Mark
Fätkenheuer, Gerd
Rockstroh, J.
Hoffmann, Daniel
Kaiser, Rolf
Selbig, Joachim
Geno2pheno is predictive of short-term virological response
In: Proceedings from the 5th International Workshop on HIV Drug Resistance & Treatment Strategies, 74-74
Proceedings Article
2002Beerenwinkel, Niko
Lengauer, Thomas
Schmidt, Barbara
Walter, Hauke
Kaiser, Rolf
Hoffmann, Daniel
Korn, Klaus
Selbig, Joachim
Quantitative phenotype prediction by support vector machines
In: Proceedings from the 5th International Workshop on HIV Drug resistance & Treatment Strategies, 97
Proceedings Article
2002Beerenwinkel, Niko
Schmidt, Barbara
Walter, Hauke
Kaiser, Rolf
Lengauer, Thomas
Hoffmann, Daniel
Korn, Klaus
Selbig, Joachim
Diversity and complexity of HIV-1drug resistance: A bioinformatics approach to predicting phenotype from genotype
In: Proceedings of the National Academy of Sciences [99], 8271-8276
Journal Article
2002Bozinov, Daniel
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
Proceedings Article
2002Freudenberg, Jan
Zimmer, Ralf
Hanisch, Daniel
Lengauer, Thomas
A hypergraph-based method for unification of existing protein structure- and sequence-families
In: In Silico Biology [2], 339 - 349
Journal Article
2002Hahn, Andreas
Costello, Christine M.
Lu, Tim
Lengauer, Thomas
Schreiber, Stefan
Attachment IconExpression analysis for inflammatory bowel disease
In: Proceedings of the n?th Conference on, ?
Poster
2002Hanisch, Daniel
Zien, Alexander
Zimmer, Ralf
Lengauer, Thomas
Co-clustering of biological networks and gene expression data
In: Proceedings of the Tenth Conference on Intelligent Systems for Molecular Biology (ISMB 2002), 145-154
Proceedings Article
2002Hanisch, Daniel
Zimmer, Ralf
Lengauer, Thomas
ProML - the Protein Markup Language for specification of protein sequences, structures and families
In: In Silico Biology [2], 313 - 324
Journal Article
2002Hindle, Sally A.
Rarey, Matthias
Buning, Christian
Lengauer, Thomas
Flexible docking under pharmacophore type constraints
In: Journal of Computer-Aided Molecular Design [16], 129-149
Journal Article
2002Hoffmann, Daniel
Schnaible, Volker
Wefing, Stephan,
Albrecht, Mario
Hanisch, Daniel
Zimmer, Ralf
A new method for the fast solution of protein-3D-structures, combining experiments and bioinformatics
In: Coupling of Biological and Electronic Systems: Proceedings of the 2nd Caesarium, Bonn, 1-3 November 2000, 59-78
Proceedings Article
2002Kämper, Andreas
Apostolakis, Joannis
Lengauer, Thomas
Docking of Bacterial Cell-Wall Fragments into Glycopeptide Antibiotics
In: From Genes to Drugs via Crystallography: 33rd crytallographic course at the E. Majorana Center, 49
Poster
2002Kämper, Andreas
Lengauer, Thomas
Docking of Ligands into Molecular Tweezers and Molecular Clips
In: Workshop of the SFB 624 'Templates', ?-?
Poster
2002Lengauer, Lenhof (ed.)Proceedings of the European Conference on Computational Biology (ECCB 2002)Proceedings
2002Lengauer, ThomasAusbildung im Bereich Bioinformatik
In: Ernst & Young Report Biotechnologie, Segmentreport Bioinformatik [1], 57-58
Journal Article
2002Lengauer, ThomasPreface: Special RECOMB 2001 Issue
In: Journal of Computational Biology [9], 147-148
Journal Article
2002Lienhart, 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
Proceedings Article
2002Maydt, 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
Proceedings Article
2002Nishida, Yoshiharu
Hirano, Kenichi
Tsukamoto, Kosuke
Nagano, Makoto
Ikegami, Chiaki
Roomp, Kirsten
Ishihara, Mitsuaki
Sakane, Naoki
Zhang, Zhongyan
Tsujii, Ken-ichi
Matsuyama, Akifumi
Ohama, Tohru
Matsuura, Fumihiko
Ishigami, Masato
Sakai, Naohiko
Hiraoka, Hisatoyo
Hattori, Hiroaki
Wellington, Cheryl L.
Yoshida, Yoshihide
Misugi, Susumu
Hayden, Michael R.
Egashira, Toru
Yamashita, Shizuya
Matsuzawa, Yuji
Expression and Functional Analyses of Novel Mutations ot ATP-Binding Cassette Transporter-1 in Japanese Patients with High-Density Lipoprotein Deficiency
In: Biochemical and Biophysical Research Communications [290], 713-721
Journal Article
2002Rahnenführer, JörgHybrid clustering for microarray analysis combining intensity and shape features
In: Poster book of the European Conference on Computational Biology, Saarbrücken, Germany 2002, -
Poster
2002Rahnenführer, JörgMultivariate permutation tests for the k-sample problem with clustered data
In: Computational Statistics [17], 165-184
Journal Article
2002Rahnenführer, Jörg
Bozinov, Daniel
Unsupervised technique for robust target separation and analysis of DNA microarray spots through adaptive pixel clustering
In: Bioinformatics [18], 747-756
Journal Article
2002Sommer, Ingolf
Zien, Alexander
Öhsen von, Niklas
Zimmer, Ralf
Lengauer, Thomas
Confidence measures for protein fold recognition
In: Bioinformatics [18], 802-812
Journal Article
2002Wellington, Cheryl L.
Yang, Yu-Zhou
Zhou, Stephen
Clee, Susanne M.
Tan, Bing
Hirano, Kenichi
Zwarts, K.Y.
Kwok, Anita
Gelfer, Allison
Marcil, Michel
Newman, Scott
Roomp, Kirsten
Singaraja, Roshni
Collins, Jennifer A.
Zhang, Lin-Hua
Groen, Albert K.
Hovingh, Kees
Brownlie, Alison
Tafuri, Sherrie
Genest, Jacques Jr
Kastelein, J.J.P.
Hayden, Michael R.
Truncation mutations in ABCA1 suppress normal upregulation of full-length ABCA1 by 9-cis-retinoic acid and 22-R-hydroxycholesterol
In: Journal of Lipid Research [43], 1939-1949
Journal Article
2002Zien, Alexander
Fluck, Juliane
Zimmer, Ralf
Lengauer, Thomas
Microarrays: How Many Do You Need?
In: Proceedings of the Sixth Annual Conference on Research in Computational Molecular Biology (RECOMB2002), 321-330
Proceedings Article
2002Zwarts, K.Y.
Clee, Susanne M.
Zwinderman, A.H.
Engert, J.C.
Singaraja, Roshni
Loubser, O
James, E
Roomp, Kirsten
Hudson, T.J.
Jukema, J.W.
Kastelein, J.J.P.
Hayden, Michael R.
ABCA1 regulatory variants influence coronary artery disease independent of effects on plasma lipid levels
In: Clinical Genetics [61], 115-125
Journal Article
2001Antes, Iris
Klein, Michael L.
The formation of a β-Peptide/DPC-micelle complex studied by MD simulationsMiscellaneous
2001Apostolakis, Joannis
Hofmann, D.
Lengauer, Thomas
Derivation of a scoring function for crystal structure prediction
In: Acta Crystallographica [A57], 442-450
Journal Article
2001Beerenwinkel, Niko
Däumer, Martin
Hoffmann, Daniel
Kaiser, Rolf
Korn, Klaus
Lengauer, Thomas
Schmidt, Barbara
Walter, Hauke
Selbig, Joachim
Neue Wege zur Optimierung von Anti-HIV Therapien
In: BIOforum [24], 912-914
Journal Article
2001Beerenwinkel, Niko
Schmidt, Barbara
Walter, Hauke
Kaiser, Rolf
Lengauer, Thomas
Hoffmann, Daniel
Korn, Klaus
Selbig, Joachim
Geno2pheno: A system for the interpretation of genotypic HIV Drug resistance tests
In: IEEE Intelligent Systems [16], 35-41
Journal Article
2001Claussen, C.
Buning, Christian
Rarey, Matthias
Lengauer, Thomas
FlexE: Efficient Molecular Docking Considering Protein Structure Variations
In: Journal of Molecular Biology [308], 377-395
Journal Article
2001Clee, Susanne M.
Zwinderman, A.H.
Engert, J.C.
Zwarts, K.Y.
Molhuizen, H.O.
Roomp, Kirsten
Jukema, J.W.
van Wijland, M
van Dam, M
Hudson, T.J.
Brooks-Wilson, A
Genest, Jacques Jr
Kastelein, J.J.P.
Hayden, Michael R.
Common genetic variation in ABCA1 is associated with altered lipoprotein levels and a modified risk for coronary artery disease
In: Circulation [103], 1198-205
Journal Article
2001Kämper, Andreas
Apostolakis, Joannis
Rarey, Matthias
Marian, Christel Maria
Lengauer, Thomas
Docking of Ligands into Artificial ReceptorsMiscellaneous
2001Kämper, Andreas
Apostolakis, Joannis
Rarey, Matthias
Marian, Christel Maria
Lengauer, Thomas
Docking of Ligands into Artificial Receptors
In: Electronically Excited Molecules: Structure and Dynamics, 37th Symposium for Theoretical Chemistry, P76
Proceedings Article
2001Lengauer (ed.)From Genomes to DrugsBook
2001Lengauer, Sankoff, Istrail, Pevzner, Waterman (ed.)Proceedings of the 5th Annual Conference on Research in Computational Molecular Biology (RECOMB2001)Book
2001Lengauer, ThomasBioinformatik an der Schwelle zur postgenomischen Ära
In: Was wissen wir, wenn wir das menschliche Genom kennen, 56-62
Part of a Book
2001Lengauer, Thomas
Beerenwinkel, Niko
Schmidt, B.
Walter, H.
Kaiser, R.
Hoffmann, D.
Korn, K.
Selbig, J.
Geno2pheno: a new machine learning approach to predicting phenotypic drug resistance from genotype
In: Antiviral Therapy [6], 104
Journal Article
2001Schäfer, M.
Lengauer, Thomas
Automated Layout Generation and Wiring Area Estimation for 3D Electronic Modules
In: ASME Journal of Machanical Design [123], 330-336
Journal Article
2001Zien, Alexander
Aigner, T.
Zimmer, Ralf
Lengauer, Thomas
Centralization: A biologically sensible method for the normalization of gene expression data
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