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Oliver Kohlbacher
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- affiliation: University of Tübingen, Germany
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2020 – today
- 2023
- [j75]Mirjam Figaschewski
, Bilge Sürün, Thorsten Tiede, Oliver Kohlbacher:
The personalized cancer network explorer (PeCaX) as a visual analytics tool to support molecular tumor boards. BMC Bioinform. 24(1): 88 (2023) - [j74]Eleftheria Kontou, Axel Walter, Oliver Alka, Julianus Pfeuffer, Timo Sachsenberg, Omkar S. Mohite
, Matin Nuhamunada, Oliver Kohlbacher, Tilmann Weber
:
UmetaFlow: an untargeted metabolomics workflow for high-throughput data processing and analysis. J. Cheminformatics 15(1): 52 (2023) - [c42]Nils Hoffmann
, Irena Maus
, Sebastian Beier
, Peter Belmann, Jan Krüger
, Andreas Tauch, Alexander Goesmann
, Roland Eils, Peer Bork
, Oliver Kohlbacher
, Ursula Kummer, Rolf Backofen
, Ivo Buchhalter
, Alexander Sczyrba
:
Embedding the de.NBI Cloud in the National Research Data Infrastructure Activities. CoRDI 2023 - 2022
- [j73]Mete Akgün
, Nico Pfeifer
, Oliver Kohlbacher
:
Efficient privacy-preserving whole-genome variant queries. Bioinform. 38(8): 2202-2210 (2022) - [j72]Sebastian Winkler
, Ivana Winkler
, Mirjam Figaschewski, Thorsten Tiede, Alfred Nordheim, Oliver Kohlbacher:
De novo identification of maximally deregulated subnetworks based on multi-omics data with DeRegNet. BMC Bioinform. 23(1): 139 (2022) - [c41]Hans-Ulrich Prokosch, Thomas Bahls, Martin Bialke, Jürgen Eils, Christian Fegeler, Julian Gründner, Birger Haarbrandt, Christopher Hampf, Wolfgang Hoffmann, Hauke Hund, Marvin O. Kampf, Lorenz A. Kapsner
, Piotr Kasprzak, Oliver Kohlbacher, Dagmar Krefting, Jonathan Mang
, Michael Marschollek
, Sebastian Mate, Armin Müller
, Fabian Prasser
, Julian Sass
, Sebastian C. Semler, Holger Stenzhorn, Sylvia Thun
, Sven Zenker, Roland Eils:
The COVID-19 Data Exchange Platform of the German University Medicine. MIE 2022: 674-678 - [i18]Marius de Arruda Botelho Herr, Michael Graf, Peter Placzek, Florian König, Felix Bötte, Tyra Stickel, David Hieber, Lukas Zimmermann, Michael Slupina, Christopher Mohr, Stephanie Biergans
, Mete Akgün, Nico Pfeifer, Oliver Kohlbacher:
Bringing the Algorithms to the Data - Secure Distributed Medical Analytics using the Personal Health Train (PHT-meDIC). CoRR abs/2212.03481 (2022) - 2021
- [j71]Mete Akgün, Ali Burak Ünal, Bekir Ergüner, Nico Pfeifer
, Oliver Kohlbacher:
Identifying disease-causing mutations with privacy protection. Bioinform. 36(21): 5205-5213 (2021) - 2020
- [j70]Bilge Sürün, Charlotta P. I. Schärfe, Mathew R. Divine, Julian Heinrich, Nora C. Toussaint
, Lukas Zimmermann, Janina Beha, Oliver Kohlbacher
:
ClinVAP: a reporting strategy from variants to therapeutic options. Bioinform. 36(7): 2316-2317 (2020) - [j69]Lars Christoph Gleim
, Md. Rezaul Karim, Lukas Zimmermann, Oliver Kohlbacher, Holger Stenzhorn, Stefan Decker, Oya Beyan:
Enabling ad-hoc reuse of private data repositories through schema extraction. J. Biomed. Semant. 11(1): 6 (2020) - [j68]Oya Beyan
, Ananya Choudhury, Johan van Soest
, Oliver Kohlbacher, Lukas Zimmermann, Holger Stenzhorn, Md. Rezaul Karim, Michel Dumontier, Stefan Decker, Luiz Olavo Bonino da Silva Santos
, Andre Dekker
:
Distributed Analytics on Sensitive Medical Data: The Personal Health Train. Data Intell. 2(1-2): 96-107 (2020)
2010 – 2019
- 2019
- [j67]Lara Schneider
, Tim Kehl
, Kristina Thedinga, Nadja Liddy Grammes, Christina Backes
, Christopher Mohr, Benjamin Schubert, Kerstin Lenhof
, Nico Gerstner
, Andreas Daniel Hartkopf, Markus Wallwiener
, Oliver Kohlbacher
, Andreas Keller, Eckart Meese, Norbert M. Graf
, Hans-Peter Lenhof:
ClinOmicsTrailbc: a visual analytics tool for breast cancer treatment stratification. Bioinform. 35(24): 5171-5181 (2019) - [c40]Thorsten Tiede, Oliver Kohlbacher:
Biological Network Knowledge in Molecular Tumor Boards. AMIA 2019 - [c39]Maximilian Hanussek, Felix Bartusch
, Jens Krüger
, Oliver Kohlbacher:
BOOTABLE: Bioinformatics Benchmark Tool Suite. CCGRID 2019: 157-160 - [c38]Felix Bartusch
, Maximilian Hanussek, Jens Krüger, Oliver Kohlbacher:
Reproducible Scientific Workflows for High Performance and Cloud Computing. CCGRID 2019: 161-164 - [i17]Daniel Wibberg
, Bérénice Batut
, Peter Belmann
, Jochen Blom, Frank Oliver Glöckner
, Björn A. Grüning
, Nils Hoffmann
, Nils Kleinbölting, René Rahn, Maja Rey, Uwe Scholz
, Malvika Sharan, Andreas Tauch, Ulrike Trojahn, Björn Usadel, Oliver Kohlbacher
:
The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR. F1000Research 8: 1877 (2019) - 2018
- [j66]Benjamin Schubert
, Charlotta Schärfe, Pierre Dönnes
, Thomas A. Hopf, Debora S. Marks, Oliver Kohlbacher
:
Population-specific design of de-immunized protein biotherapeutics. PLoS Comput. Biol. 14(3) (2018) - [c37]Andreas Friedrich
, Luis de la Garza
, Oliver Kohlbacher
, Sven Nahnsen
:
Interactive Visualization for Large-Scale Multi-factorial Research Designs. DILS 2018: 75-84 - [c36]Marc Halfmann
, Holger Stenzhorn
, Peter Gerjets, Oliver Kohlbacher, Uwe Oestermeier:
User-Driven Development of a Novel Molecular Tumor Board Support Tool. DILS 2018: 195-199 - [c35]Md. Rezaul Karim, Binh-Phi Nguyen, Lukas Zimmermann, Toralf Kirsten, Matthias Löbe, Frank A. Meineke, Holger Stenzhorn, Oliver Kohlbacher, Stefan Decker, Oya Beyan:
A distributed analytics platform to execute FHIR based phenotyping algorithms. SWAT4LS 2018 - 2017
- [j65]Marc G. Chevrette
, Fabian Aicheler, Oliver Kohlbacher, Cameron R. Currie, Marnix H. Medema
:
SANDPUMA: ensemble predictions of nonribosomal peptide chemistry reveal biosynthetic diversity across Actinobacteria. Bioinform. 33(20): 3202-3210 (2017) - [j64]Benjamin Schubert
, Luis de la Garza, Christopher Mohr, Mathias Walzer
, Oliver Kohlbacher:
ImmunoNodes - graphical development of complex immunoinformatics workflows. BMC Bioinform. 18(1): 242:1-242:7 (2017) - [c34]Florian Heimgaertner, Stefan Hettich, Oliver Kohlbacher, Michael Menth:
Scaling home automation to public buildings: A distributed multiuser setup for OpenHAB 2. GIoTS 2017: 1-6 - [c33]Maximilian Hanussek, Felix Bartusch, Jens Krüger, Oliver Kohlbacher:
Efficient Mass Spectra Prediction through Container Orchestration with a Scientific Workflow. IWSG 2017 - [i16]Benjamin Schubert, Charlotta Schärfe, Pierre Dönnes, Thomas A. Hopf, Debora S. Marks, Oliver Kohlbacher:
Population-specific design of de-immunized protein biotherapeutics. CoRR abs/1706.09083 (2017) - [i15]Merlijn N. van Rijswijk
, Charlie Beirnaert
, Christophe Caron, Marta Cascante
, Victoria Dominguez Del Angel
, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra N. González-Beltrán
, Thomas Hankemeier, Kenneth Haug
, Jose L. Izquierdo-García
, Rafael C. Jiménez
, Fabien Jourdan, Namrata Kale
, Maria I. Klapa
, Oliver Kohlbacher
, Kairi Koort, Kim Kultima, Gildas Le Corguillé
, Nicholas K. Moschonas
, Steffen Neumann
, Claire O'Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato
, Reza M. Salek
, Susanna-Assunta Sansone
, Venkata P. Satagopam
, Daniel Schober
, Ruth Shimmo, Rachel A. Spicer
, Ola Spjuth
, Etienne A. Thévenot
, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen
, Gianluigi Zanetti, Christoph Steinbeck
:
The future of metabolomics in ELIXIR. F1000Research 6: 1649- (2017) - [i14]Christopher Mohr, Andreas Friedrich, David Wojnar, Erhan Kenar, Aydin Can Polatkan, Marius Cosmin Codrea, Stefan Czemmel, Oliver Kohlbacher, Sven Nahnsen:
qPortal - A science gateway for biomedical applications. PeerJ Prepr. 5: e2839 (2017) - [i13]Luis de la Garza, Fabian Aicheler, Oliver Kohlbacher:
From the desktop to the grid and cloud: conversion of KNIME workflows to WS-PGRADE. PeerJ Prepr. 5: e2849 (2017) - 2016
- [j63]Sabine C. Mueller
, Christina Backes, Alexander Greß, Nina Baumgarten, Olga V. Kalinina
, Andreas Moll, Oliver Kohlbacher, Eckart Meese, Andreas Keller:
BALL-SNPgp - from genetic variants toward computational diagnostics. Bioinform. 32(12): 1888-1890 (2016) - [j62]Benjamin Schubert, Mathias Walzer
, Hans-Philipp Brachvogel, András Szolek, Christopher Mohr, Oliver Kohlbacher:
FRED 2: an immunoinformatics framework for Python. Bioinform. 32(13): 2044-2046 (2016) - [j61]Luis de la Garza, Johannes Veit, András Szolek, Marc Röttig, Stephan Aiche
, Sandra Gesing, Knut Reinert
, Oliver Kohlbacher:
From the desktop to the grid: scalable bioinformatics via workflow conversion. BMC Bioinform. 17: 127 (2016) - [j60]Lisa M. Breckels, Sean B. Holden, David Wojnar, Claire M. Mulvey
, Andy Christoforou
, Arnoud Groen, Matthew W. B. Trotter
, Oliver Kohlbacher, Kathryn S. Lilley, Laurent Gatto
:
Learning from Heterogeneous Data Sources: An Application in Spatial Proteomics. PLoS Comput. Biol. 12(5) (2016) - [c32]Luis de la Garza, Fabian Aicheler, Oliver Kohlbacher:
From the Desktop to the Grid and Cloud: Conversion of KNIME Workflows to WS-PGRADE. IWSG 2016 - [i12]Jens Krüger, Oliver Kohlbacher:
Containerization and wrapping of a mass spectra prediction workflow. PeerJ Prepr. 4: e2528 (2016) - 2015
- [j59]Anna Katharina Hildebrandt, Daniel Stöckel, Nina M. Fischer, Luis de la Garza, Jens Krüger, Stefan Nickels, Marc Röttig, Charlotta Schärfe, Marcel Schumann, Philipp Thiel, Hans-Peter Lenhof, Oliver Kohlbacher, Andreas Hildebrandt
:
ballaxy: web services for structural bioinformatics. Bioinform. 31(1): 121-122 (2015) - [j58]Ramanuja Simha
, Sebastian Briesemeister, Oliver Kohlbacher, Hagit Shatkay:
Protein (multi-)location prediction: utilizing interdependencies via a generative model. Bioinform. 31(12): 365-374 (2015) - [j57]Benjamin Schubert, Hans-Philipp Brachvogel, Christopher Jürges, Oliver Kohlbacher:
EpiToolKit - a web-based workbench for vaccine design. Bioinform. 31(13): 2211-2213 (2015) - [j56]Andreas Gerasch, Jan Küntzer, Peter Niermann, Daniel Stöckel, Michael Kaufmann, Oliver Kohlbacher, Hans-Peter Lenhof:
Network-based interactive navigation and analysis of large biological datasets. it Inf. Technol. 57(1): 37-48 (2015) - [i11]Rudolf Aebersold, Oliver Kohlbacher, Olga Vitek:
Computational Mass Spectrometry (Dagstuhl Seminar 15351). Dagstuhl Reports 5(8): 9-33 (2015) - 2014
- [j55]András Szolek, Benjamin Schubert, Christopher Mohr, Marc Sturm
, Magdalena Feldhahn, Oliver Kohlbacher:
OptiType: precision HLA typing from next-generation sequencing data. Bioinform. 30(23): 3310-3316 (2014) - [j54]Philipp Thiel, Lisa Sach-Peltason, Christian Ottmann, Oliver Kohlbacher:
Blocked Inverted Indices for Exact Clustering of Large Chemical Spaces. J. Chem. Inf. Model. 54(9): 2395-2401 (2014) - [c31]Andreas Gerasch, Michael Kaufmann, Oliver Kohlbacher:
Rebuilding KEGG Maps: Algorithms and Benefits. PacificVis 2014: 97-104 - 2013
- [j53]Lars Packschies, Georg Birkenheuer, Dirk Blunk
, Sebastian Breuers, André Brinkmann, Ines dos Santos Vieira, Gregor Fels, Sandra Gesing, Richard Grunzke, Sonja Herres-Pawlis, Oliver Kohlbacher, Jens Krüger, Martin Kruse, Ulrich Lang, Ralph Müller-Pfefferkorn, Patrick Schäfer, Tobias Schlemmer, Thomas Steinke, Klaus-Dieter Warzecha
, Andreas Zink:
The MoSGrid - e-science gateway: molecular simulations in a distributed computing environment. J. Cheminformatics 5(S-1): 3 (2013) - [j52]Charlotta Schärfe, Joachim Taeger, Peggy Reuter, Nina M. Fischer, Jens Krüger, Bernd Wissinger, Oliver Kohlbacher:
Development of a pharmacorphore model for pharmacological chaperones targeting mutant trafficking-deficient CNG channels. J. Cheminformatics 5(S-1): 18 (2013) - [j51]Philipp Thiel, Lisa Peltason, Christian Ottmann, Oliver Kohlbacher:
Deterministic clustering of the available chemical space. J. Cheminformatics 5(S-1): 53 (2013) - [j50]Jirí Novák
, Timo Sachsenberg, David Hoksza
, Tomás Skopal, Oliver Kohlbacher:
On Comparison of SimTandem with State-of-the-Art Peptide Identification Tools, Efficiency of Precursor Mass Filter and Dealing with Variable Modifications. J. Integr. Bioinform. 10(3) (2013) - [c30]Oliver Kohlbacher, Falk Schreiber, Matthew O. Ward:
Multivariate Networks in the Life Sciences. Multivariate Network Visualization 2013: 61-73 - [c29]Jonathan C. Roberts, Jing Yang, Oliver Kohlbacher, Matthew O. Ward, Michelle X. Zhou:
Novel Visual Metaphors for Multivariate Networks. Multivariate Network Visualization 2013: 127-150 - [c28]Luis de la Garza, Jens Krüger, Charlotta Schärfe, Marc Röttig, Stephan Aiche, Knut Reinert, Oliver Kohlbacher:
From the Desktop to the Grid: conversion of KNIME Workflows to gUSE. IWSG 2013 - [c27]Jirí Novák
, Timo Sachsenberg, David Hoksza
, Tomás Skopal
, Oliver Kohlbacher:
A Statistical Comparison of SimTandem with State-of-the-Art Peptide Identification Tools. PACBB 2013: 101-109 - [i10]Ruedi Aebersold, Oliver Kohlbacher, Olga Vitek:
Computational Mass Spectrometry (Dagstuhl Seminar 13491). Dagstuhl Reports 3(12): 1-16 (2013) - 2012
- [j49]Sven Nahnsen, Oliver Kohlbacher
:
In silico design of targeted SRM-based experiments. BMC Bioinform. 13(S-16): S8 (2012) - [j48]Sandra Gesing, Richard Grunzke, Jens Krüger
, Georg Birkenheuer, Martin Wewior, Patrick Schäfer, Bernd Schuller
, Johannes Schuster, Sonja Herres-Pawlis
, Sebastian Breuers, Ákos Balaskó, Miklos Kozlovszky, Anna Szikszay Fabri, Lars Packschies, Péter Kacsuk, Dirk Blunk
, Thomas Steinke, André Brinkmann
, Gregor Fels, Ralph Müller-Pfefferkorn
, René Jäkel
, Oliver Kohlbacher
:
A Single Sign-On Infrastructure for Science Gateways on a Use Case for Structural Bioinformatics. J. Grid Comput. 10(4): 769-790 (2012) - [j47]Oliver Kohlbacher:
CADDSuite - a workflow-enabled suite of open-source tools for drug discovery. J. Cheminformatics 4(S-1): 2 (2012) - [j46]Georg Birkenheuer, Dirk Blunk
, Sebastian Breuers, André Brinkmann, Ines dos Santos Vieira, Gregor Fels, Sandra Gesing, Richard Grunzke, Sonja Herres-Pawlis, Oliver Kohlbacher, Jens Krüger, Ulrich Lang, Lars Packschies, Ralph Müller-Pfefferkorn
, Patrick Schäfer, Thomas Steinke, Klaus-Dieter Warzecha
, Martin Wewior:
MoSGrid: efficient data management and a standardized data exchange format for molecular simulations in a grid environment. J. Cheminformatics 4(S-1): 21 (2012) - [c26]Magdalena Feldhahn, Karin Schilbach, Pierre Dönnes, Hans-Georg Rammensee, Benjamin Schubert, Oliver Kohlbacher
:
miHA-match: computational detection of tissue-specific minor histocompatibility antigens. BCB 2012: 625-626 - [c25]Sonja Herres-Pawlis
, Georg Birkenheuer, André Brinkmann
, Sandra Gesing, Richard Grunzke, René Jäkel
, Oliver Kohlbacher
, Jens Krüger
, Ines dos Santos Vieira:
Workflow-enhanced conformational analysis of guanidine zinc complexes via a science gateway. HealthGrid 2012: 142-151 - 2011
- [j45]Chun-Wei Tung
, Matthias Ziehm
, Andreas Kämper
, Oliver Kohlbacher
, Shinn-Ying Ho
:
POPISK: T-cell reactivity prediction using support vector machines and string kernels. BMC Bioinform. 12: 446 (2011) - [j44]Sandra Gesing, Jano I. van Hemert
, Péter Kacsuk, Oliver Kohlbacher
:
Special Issue: Portals for life sciences - Providing intuitive access to bioinformatic tools. Concurr. Comput. Pract. Exp. 23(3): 223-234 (2011) - [j43]Georg Birkenheuer, Dirk Blunk
, Sebastian Breuers, André Brinkmann
, Ines dos Santos Vieira, Gregor Fels, Sandra Gesing, Richard Grunzke, Sonja Herres-Pawlis
, Oliver Kohlbacher
, Nico Kruber, Jens Krüger
, Ulrich Lang, Lars Packschies, Ralph Müller-Pfefferkorn
, Patrick Schäfer, Hans-Günther Schmalz, Thomas Steinke, Klaus-Dieter Warzecha
, Martin Wewior:
MoSGrid - a molecular simulation grid as a new tool in computational chemistry, biology and material science. J. Cheminformatics 3(S-1): 14 (2011) - [j42]Marcel Schumann, Marc Röttig, Nina M. Fischer, Oliver Kohlbacher
:
A framework and workflow system for virtual screening and molecular docking. J. Cheminformatics 3(S-1): 15 (2011) - [j41]Jens Krüger
, Georg Birkenheuer, Dirk Blunk
, Sebastian Breuers, André Brinkmann
, Gregor Fels, Sandra Gesing, Richard Grunzke, Oliver Kohlbacher
, Nico Kruber, Ulrich Lang, Lars Packschies, Ralph Müller-Pfefferkorn
, Sonja Herres-Pawlis
, Patrick Schäfer, Hans-Günther Schmalz, Thomas Steinke, Klaus-Dieter Warzecha
, Martin Wewior:
Molecular simulation grid. J. Cheminformatics 3(S-1): 17 (2011) - [j40]Marc Röttig, Marnix H. Medema
, Kai Blin
, Tilmann Weber, Christian Rausch, Oliver Kohlbacher
:
NRPSpredictor2 - a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Res. 39(Web-Server-Issue): 362-367 (2011) - [c24]Nora C. Toussaint
, Magdalena Feldhahn, Matthias Ziehm
, Stefan Stevanovic, Oliver Kohlbacher
:
T-cell epitope prediction based on self-tolerance. BCB 2011: 584-588 - [c23]Sandra Gesing, Richard Grunzke, Ákos Balaskó, Georg Birkenheuer, Dirk Blunk, Sebastian Breuers, André Brinkmann, Gregor Fels, Sonja Herres-Pawlis, Péter Kacsuk, Miklos Kozlovszky, Jens Krüger, Lars Packschies, Patrick Schäfer, Bernd Schuller, Johannes Schuster, Thomas Steinke, Anna Szikszay Fabri, Martin Wewior, Ralph Müller-Pfefferkorn, Oliver Kohlbacher:
Granular Security for a Science Gateway in Structural Bioinformatics. IWSG-Life 2011 - 2010
- [j39]Sebastian Briesemeister, Jörg Rahnenführer
, Oliver Kohlbacher
:
Going from where to why - interpretable prediction of protein subcellular localization. Bioinform. 26(9): 1232-1238 (2010) - [j38]Andreas Hildebrandt
, Anna Katharina Dehof, Alexander Rurainski, Andreas Bertsch, Marcel Schumann
, Nora C. Toussaint
, Andreas Moll, Daniel Stöckel, Stefan Nickels, Sabine C. Mueller
, Hans-Peter Lenhof, Oliver Kohlbacher
:
BALL - biochemical algorithms library 1.3. BMC Bioinform. 11: 531 (2010) - [j37]Nora C. Toussaint
, Christian Widmer, Oliver Kohlbacher
, Gunnar Rätsch
:
Exploiting physico-chemical properties in string kernels. BMC Bioinform. 11(S-8): S7 (2010) - [j36]Nina M. Fischer, Wolfgang M. Schneider, Oliver Kohlbacher:
Rescoring of docking poses using force field-based methods. J. Cheminformatics 2(S-1): 52 (2010) - [j35]Sebastian Briesemeister, Jörg Rahnenführer
, Oliver Kohlbacher
:
YLoc - an interpretable web server for predicting subcellular localization. Nucleic Acids Res. 38(Web-Server-Issue): 497-502 (2010) - [j34]Marc Röttig, Christian Rausch, Oliver Kohlbacher
:
Combining Structure and Sequence Information Allows Automated Prediction of Substrate Specificities within Enzyme Families. PLoS Comput. Biol. 6(1) (2010) - [c22]Sandra Gesing, Jano I. van Hemert
, Jos Koetsier, Andreas Bertsch, Oliver Kohlbacher
:
TOPP goes Rapid The OpenMS Proteomics Pipeline in a Grid-Enabled Web Portal. CCGRID 2010: 598-599 - [c21]Carsten Henneges, Marc Röttig, Oliver Kohlbacher, Andreas Zell:
Graphlet Data Mining of Energetical Interaction Patterns in Protein 3D Structures. IJCCI (ICFC-ICNC) 2010: 190-195 - [c20]Christian Widmer, Nora C. Toussaint
, Yasemin Altun, Oliver Kohlbacher
, Gunnar Rätsch
:
Novel Machine Learning Methods for MHC Class I Binding Prediction. PRIB 2010: 98-109 - [c19]Georg Birkenheuer, Sebastian Breuers, André Brinkmann, Dirk Blunk, Gregor Fels, Sandra Gesing, Sonja Herres-Pawlis, Oliver Kohlbacher, Jens Krüger, Lars Packschies:
Grid-Workflows in Molecular Science. Software Engineering (Workshops) 2010: 177-184 - [p1]Knut Reinert, Oliver Kohlbacher
:
OpenMS and TOPP: Open Source Software for LC-MS Data Analysis. Proteome Bioinformatics 2010: 201-211
2000 – 2009
- 2009
- [j33]Sebastian J. Schultheiß
, Wolfgang Busch
, Jan U. Lohmann
, Oliver Kohlbacher
, Gunnar Rätsch
:
KIRMES: kernel-based identification of regulatory modules in euchromatic sequences. Bioinform. 25(16): 2126-2133 (2009) - [j32]Magdalena Feldhahn, Pierre Dönnes
, Philipp Thiel, Oliver Kohlbacher
:
FRED - a framework for T-cell epitope detection. Bioinform. 25(20): 2758-2759 (2009) - [j31]Andreas Keller
, Christina Backes, Andreas Gerasch, Michael Kaufmann, Oliver Kohlbacher
, Eckart Meese, Hans-Peter Lenhof:
A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis. Bioinform. 25(21): 2787-2794 (2009) - [j30]Sebastian J. Schultheiß, Wolfgang Busch, Jan U. Lohmann, Oliver Kohlbacher, Gunnar Rätsch:
KIRMES: kernel-based identification of regulatory modules in euchromatic sequences. BMC Bioinform. 10(S-13): 0 (2009) - [j29]Torsten Blum, Sebastian Briesemeister, Oliver Kohlbacher
:
MultiLoc2: integrating phylogeny and Gene Ontology terms improves subcellular protein localization prediction. BMC Bioinform. 10: 274 (2009) - [j28]Andreas Dräger
, Marcel Kronfeld, Michael J. Ziller, Jochen Supper, Hannes Planatscher, Jørgen B. Magnus
, Marco Oldiges
, Oliver Kohlbacher
, Andreas Zell:
Modeling metabolic networks in C. glutamicum: a comparison of rate laws in combination with various parameter optimization strategies. BMC Syst. Biol. 3: 5 (2009) - [j27]Nora C. Toussaint
, Oliver Kohlbacher
:
OptiTope - a web server for the selection of an optimal set of peptides for epitope-based vaccines. Nucleic Acids Res. 37(Web-Server-Issue): 617-622 (2009) - [c18]Ernst Althaus, Gunnar W. Klau
, Oliver Kohlbacher
, Hans-Peter Lenhof, Knut Reinert
:
Integer Linear Programming in Computational Biology. Efficient Algorithms 2009: 199-218 - [c17]Mario Albrecht, Andreas Kerren, Karsten Klein, Oliver Kohlbacher
, Petra Mutzel
, Wolfgang Paul, Falk Schreiber, Michael Wybrow
:
On Open Problems in Biological Network Visualization. GD 2009: 256-267 - [c16]Sandra Gesing, Oliver Kohlbacher, Jano I. van Hemert:
Portals for Life Sciences - a Brief Introduction. IWPLS 2009 - 2008
- [j26]Torsten Blum, Oliver Kohlbacher
:
MetaRoute: fast search for relevant metabolic routes for interactive network navigation and visualization. Bioinform. 24(18): 2108-2109 (2008) - [j25]Andreas Keller
, Christina Backes, Maher Al-Awadhi, Andreas Gerasch, Jan Küntzer, Oliver Kohlbacher
, Michael Kaufmann, Hans-Peter Lenhof:
GeneTrailExpress: a web-based pipeline for the statistical evaluation of microarray experiments. BMC Bioinform. 9 (2008) - [j24]Ole Schulz-Trieglaff, Nico Pfeifer
, Clemens Gröpl, Oliver Kohlbacher
, Knut Reinert
:
LC-MSsim - a simulation software for liquid chromatography mass spectrometry data. BMC Bioinform. 9 (2008) - [j23]Marc Sturm
, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt
, Rene Hussong, Eva Lange, Nico Pfeifer
, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert
, Oliver Kohlbacher
:
OpenMS - An open-source software framework for mass spectrometry. BMC Bioinform. 9 (2008) - [j22]Wiebke Timm, Alexandra Scherbart, Sebastian Böcker
, Oliver Kohlbacher
, Tim W. Nattkemper
:
Peak intensity prediction in MALDI-TOF mass spectrometry: A machine learning study to support quantitative proteomics. BMC Bioinform. 9 (2008) - [j21]Torsten Blum, Oliver Kohlbacher
:
Using Atom Mapping Rules for an Improved Detection of Relevant Routes in Weighted Metabolic Networks. J. Comput. Biol. 15(6): 565-576 (2008) - [j20]Andreas Kerzmann, Jan Fuhrmann, Oliver Kohlbacher
, Dirk Neumann:
BALLDock/SLICK: A New Method for Protein-Carbohydrate Docking. J. Chem. Inf. Model. 48(8): 1616-1625 (2008) - [j19]Magdalena Feldhahn, Philipp Thiel, Mathias M. Schuler, Nina Hillen, Stefan Stevanovic, Hans-Georg Rammensee, Oliver Kohlbacher
:
EpiToolKit - a web server for computational immunomics. Nucleic Acids Res. 36(Web-Server-Issue): 519-522 (2008) - [j18]Nora C. Toussaint
, Pierre Dönnes
, Oliver Kohlbacher
:
A Mathematical Framework for the Selection of an Optimal Set of Peptides for Epitope-Based Vaccines. PLoS Comput. Biol. 4(12) (2008) - [c15]Sebastian J. Schultheiß, Wolfgang Busch, Jan U. Lohmann, Oliver Kohlbacher, Gunnar Rätsch:
KIRMES: Kernel-based Identification of Regulatory Modules in Euchromatic Sequences. German Conference on Bioinformatics 2008: 158-167 - [c14]Nico Pfeifer, Oliver Kohlbacher
:
Multiple Instance Learning Allows MHC Class II Epitope Predictions Across Alleles. WABI 2008: 210-221 - [e5]Christian G. Huber, Oliver Kohlbacher, Michal Linial, Kathrin Marcus, Knut Reinert:
Computational Proteomics, 02.03. - 07.03.2008. Dagstuhl Seminar Proceedings 08101, Internationales Begegnungs- und Forschungszentrum für Informatik (IBFI), Schloss Dagstuhl, Germany 2008 [contents] - [e4]Stephen P. Borgatti, Stephen G. Kobourov, Oliver Kohlbacher, Petra Mutzel:
Graph Drawing with Applications to Bioinformatics and Social Sciences, 04.05. - 09.05.2008. Dagstuhl Seminar Proceedings 08191, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, Germany 2008 [contents] - [i9]Mario Albrecht, Alejandro Estrella-Balderrama, Markus Geyer, Carsten Gutwenger, Karsten Klein, Oliver Kohlbacher, Michael Schulz:
08191 Working Group Summary - Visually Comparing a Set of Graphs. Graph Drawing with Applications to Bioinformatics and Social Sciences 2008 - [i8]Stephen P. Borgatti, Stephen G. Kobourov, Oliver Kohlbacher, Petra Mutzel:
08191 Abstracts Collection - Graph Drawing with Applications to Bioinformatics and Social Sciences. Graph Drawing with Applications to Bioinformatics and Social Sciences 2008 - [i7]Stephen P. Borgatti, Stephen G. Kobourov, Oliver Kohlbacher, Petra Mutzel:
08191 Executive Summary - Graph Drawing with Applications to Bioinformatics and Social Sciences. Graph Drawing with Applications to Bioinformatics and Social Sciences 2008 - [i6]Knut Reinert, Christian G. Huber, Kathrin Marcus, Michal Linial, Oliver Kohlbacher:
08101 Abstracts Collection - Computational Proteomics. Computational Proteomics 2008 - 2007
- [j17]Andreas Hildebrandt
, Ralf Blossey, Sergej Rjasanow, Oliver Kohlbacher
, Hans-Peter Lenhof:
Electrostatic potentials of proteins in water: a structured continuum approach. Bioinform. 23(2): 99-103 (2007) - [j16]