344 entries « 7 of 7 »

Reinert, Knut; Kohlbacher, Oliver; Gröpl, Clemens; Lange, Eva; Schulz-Trieglaff, Ole; Sturm, Marc; Pfeifer, Nico

OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics

Huber, Christian G; Kohlbacher, Oliver; Reinert, Knut (Ed.): Computational Proteomics, Internationales Begegnungs- und Forschungszentrum fuer Informatik (IBFI), Schloss Dagstuhl, Germany, 2006.

(Links | BibTeX)

Gröpl, Clemens; Lange, Eva; Reinert, Knut; Kohlbacher, Oliver; Sturm, Marc; Huber, Christian; Mayr, Bettina; Klein, Christoph

Algorithms for the automated absolute quantification of diagnostic markers in complex proteomics samples

Glen, Diederichs Kohlbacher Fischer Berthold K O I M R (Ed.): Proceedings of the 1st Symposium on Computational Life Sciences (CLS 2005), pp. 151–161, Springer LNBI 3695, 2005.

(Links | BibTeX)

Höglund, Annette; Dönnes, Pierre; Blum, Torsten; Adolph, Hans-Werner; Kohlbacher, Oliver

Using N-terminal targeting sequences, amino acid composition, and sequence motifs for predicting protein subcellular localization

Kurtz, Matthias Rarey Andrew Torda Stefan (Ed.): Proceedings of the German Conference on Bioinformatics (GCB 2005), pp. 45–59, GI, 2005.

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Klein, Christoph L; Kohlbacher, Oliver; Huber, Christian; Reinert, Knut

Reference methods and materials in standardisation and quality assurance

FEBS J., 272 (S1), 2005, (in press).


Rausch, Christian; Weber, Tilmann; Kohlbacher, Oliver; Wohlleben, Wolfgang; Huson, Daniel

Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using Transductive Support Vector Machines (TSVM)

Nucl. Acids Res., 33 (18), pp. 5799-5808, 2005.

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Berthold, Michael; Glen, Robert; Diederichs, Kay; Kohlbacher, Oliver; Fischer, Ingrid

Computational Life Sciences

Springer Lecture notes in Bioinformatics, 2005.

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Moll, Andreas; Hildebrandt, Andreas; Kerzmann, Andreas; Lenhof, Hans-Peter; Kohlbacher, Oliver

BALLView - An Open Source Tool for Molecular Modeling and Visualization

Haasis, Klumpp Spath D D K (Ed.): Tagungsband zum doIT Software-Forschungstag 2005, pp. 203–214, MFG Stiftung, Stuttgart, 2005.


Höglund, A; Dönnes, P; Adolph, HW; Kohlbacher, O

From prediction of subcellular localization to functional classification: Discrimination of DNA-packing and other nuclear proteins

Online Journal of Bioinformatics, 6 (1), pp. 51-64, 2005.

(Links | BibTeX)

Supper, Jochen; Dönnes, Pierre; Kohlbacher, Oliver

Analysis of MHC-Peptide Binding Using Amino Acid Property-Based Decision Rules

Springer Lecture Notes in Computer Science (LNCS), 3686 , pp. 446-453, 2005.

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Dönnes, Pierre; Kohlbacher, Oliver

Integrated modelling of the major events in the MHC class I antigen processing pathway

Protein Sci., 14 (8), pp. 2132-2140, 2005.

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Schuler, Mathias M; Dönnes, Pierre; Nastke, Maria-Dorothea; Kohlbacher, Oliver; Rammensee, Hans-Georg; Stevanovic, Stefan

SNEP: SNP-derived Epitope Prediction program for minor H antigens.

Immunogenetics, 57 (11), pp. 816-820, 2005.

(Links | BibTeX)

Schuler, Mathias; Dönnes, Pierre; Nastke, Maria; Kohlbacher, Oliver; Rammensee, H-G; Stevanovic, Stefan

SNEP: SNP-derived Epitope Prediction program for minor H antigens

Kabelitz, Dietrich (Ed.): Joint Annual Meeting of the German and Scandinavian Societies of Immunology, 21-24 September 2005, Kiel, Germany, pp. 361-622, Immunobiology 210(6-8), 2005.


Neumann, Dirk; Lehr, Claus-Michael; Lenhof, Hans-Peter; Kohlbacher, Oliver

Computational modeling of the sugar–lectin interaction

Advanced Drug Delivery Reviews, 56 (4), pp. 437-457, 2004.

(Links | BibTeX)

Kohlbacher, Oliver; Reinert, Knut

Differenzielle Proteomanalyse - Experimentelle Methoden, Algorithmische Herausforderungen

IT - Information Technology, 46 (1), pp. 31-38, 2004, (article in German).

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Höglund, Annette; Kohlbacher, Oliver

From sequence to structure and back again: approaches for predicting protein-DNA binding

Proteome Science, 2 , pp. 3, 2004.

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Hildebrandt, Andreas; Blossey, Ralf; Rjasanow, Sergej; Kohlbacher, Oliver; Lenhof, Hans-Peter

Novel formulation of nonlocal electrostatics

Phys. Rev. Lett., 93 , pp. 108104, 2004.

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Istrail, Sorin; Florea, Liliana; Halldorsson, Bjarni V; Kohlbacher, Oliver; Schwartz, Russell S; Yap, Von Bing; Yewdell, Jonathan W; Hoffman, Stephen L

Comparative Immuno-Peptidomics of Humans and their Pathogens

Proc. Natl. Acad. Sci. USA, 101 (36), pp. 13268, 2004.

(Links | BibTeX)

Dönnes, Pierre; Höglund, Annette; Sturm, Marc; Comtesse, Nicole; Backes, Christina; Meese, Eckart; Kohlbacher, Oliver; Lenhof, Hans-Peter

Integrative analysis of cancer-related data using CAP

FASEB Journal, 18 (12), pp. 1465-1467, 2004.

(Links | BibTeX)

Dönnes, Pierre; Höglund, Annette

Predicting Protein Subcellular Localization: Past, Present, and Future

Genomics Proteomics Bioinformatics, 2 (4), pp. 209–215, 2004.

(Abstract | Links | BibTeX)

Kerzmann, Andreas; Neumann, Dirk; Kohlbacher, Oliver

High-Accuracy Prediction of Protein-Carbohydrate Interactions

Trends in Glycoscience and Glycotechnology, 16 , pp. S26, 2004.


Florea, Liliana; Halldórsson, Bjarni; Kohlbacher, Oliver; Schwartz, Russell; Hoffman, Stephen; Istrail, Sorin

Epitope Prediction Algorithms for Peptide based Vaccine Design

Proceedings of the 2nd IEEE Computer Society Conference on Bioinformatics, pp. 17-26, IEEE Computer Society, 2003, (PMID: 16826643).

(Links | BibTeX)

Hildebrandt, Andreas; Kohlbacher, Oliver; Blossey, Ralf; Lenhof, Hans-Peter

Using nonlocal electrostatics for solvation free energy computations: ions and small molecules


(Links | BibTeX)

Sandelin, Albin; Höglund, Annette; Lenhard, Boris; Wasserman, Wyeth

Integrated analysis of yeast regulatory sequences for biologically linked clusters of genes

Funct Integr Genomics, 3 (3), pp. 125-134, 2003.


Althaus, Ernst; Kohlbacher, Oliver; Lenhof, Hans Peter; Müller, Peter

A Combinatorial Approach to Protein Docking with Flexible Side-Chains

J. Comput. Biol., 9 (4), pp. 597-612, 2002.

(Abstract | Links | BibTeX)

Neumann, Dirk; Kohlbacher, Oliver; Lenhof, Hans-Peter; Lehr, Claus-Michael

Protein-sugar interactions: Calculated versus experimental binding energies

Eur. J. Biochem., 269 (5), pp. 1518-1524, 2002.

(Links | BibTeX)

Neumann, Dirk; Kerzmann, Andreas; Kohlbacher, Oliver

Modelling the sugar-lectin interaction by computer simulated docking

Abstracts of the 20th Interlec Meeting, pp. 116, University of Copenhagen, Copenhagen, Denmark, 2002.


Sirava, Marite; Schäfer, Thomas; Eiglsperger, Markus; Kaufmann, Michael; Kohlbacher, Oliver; Bornberg-Bauer, Erich; Lenhof, Hans-Peter

BioMiner - modeling, analysing, and visualizing biochemical pathways and networks

Bioinformatics, 19 (10), pp. S219-230, 2002.

(Links | BibTeX)

Dönnes, Pierre; Elofsson, Arne

Prediction of MHC class I binding peptides, using SVMHC

BMC Bioinformatics, 3 (25), 2002.

(Links | BibTeX)

Kohlbacher, Oliver; Burchardt, Andreas; Moll, Andreas; Hildebrandt, Andreas; Bayer, Peter; Lenhof, Hans-Peter

Structure prediction of protein complexes by a NMR-based protein docking algorithm

J. Biomol. NMR, 20 , pp. 15-21, 2001.

(Abstract | Links | BibTeX)

Turner, Russell J; Chaturvedi, Kabir; Edwards, Nathan J; Fasulo, Daniel; Halpern, Aaron L; Huson, Daniel H; Remington, Karin A; Schwartz, Russell; Walenz, Brian; Yooseph, Shibu; Istrail, Sorin

Visualization Challenges for a New Cyberpharmaceutical Computing Paradigm

Proceedings of the IEEE Symposium on Parallel and Large-Data Visualization and Graphics (PVG2001), pp. 7–18, San Diego, USA,, 2001.


Kohlbacher, Oliver; Burchardt, Andreas; Hildebrandt, Andreas; Moll, Andreas; Bayer, Peter; Lenhof, Hans-Peter

A NMR-spectra-based scoring function for protein docking

Sankoff, David; Lengauer, Thomas (Ed.): RECOMB 2001, Proceedings of the Fifth Annual International Conference on Computational Molecular Biology, pp. 169-177, ACM press, 2001.

(Links | BibTeX)

Kohlbacher, Oliver

BALL - A Framework for Rapid Application Development in Molecular Modeling

Beiträge zum Heinz-Billing-Preis 2000, pp. 13-28, Gesellschaft für wissenschaftliche Datenverarbeitung mbH, Göttingen, 2001.

(Links | BibTeX)

Neumann, Dirk; Kohlbacher, Oliver; Haltner, Eleonore; Lenhof, Hans-Peter; Lehr, Claus-Michael

Modeling the Sugar Lectin Interaction by Computational Chemistry Relevant to Drug Design

Proc. 3rd World Meeting on Pharmaceutics, Biopharmaceutics and Pharmaceutical Technology, pp. 233, 2000.


Kohlbacher, Oliver; Lenhof, Hans-Peter

BALL - Rapid Software Prototyping in Computational Molecular Biology

Bioinformatics, 16 (9,), pp. 815–824, 2000.

(Abstract | Links | BibTeX)

Boghossian, N P; Kohlbacher, O; Lenhof, H P

Rapid software prototyping in molecular modeling using the biochemical algorithms library (BALL)

J. Exp. Algorithmics, 5 , pp. 16, 2000.


Althaus, Ernst; Kohlbacher, Oliver; Lenhof, Hans-Peter; Müller, Peter

A Combinatorial Approach to Protein Docking with Flexible Side-Chains

Shamir, Ron; Miyano, Satoru; Istrail, Sorin; Pevzner, Pavel; Waterman, Michael (Ed.): RECOMB 2000 -- Proceedings of the Fourth Annual International Conference on Computational Molecular Biology, pp. 15–24, ACM press, 2000.


Althaus, Ernst; Kohlbacher, Oliver; Lenhof, Hans-Peter; Müller, Peter

A branch and cut algorithm for the optimal solution of the side-chain placement problem

Max-Planck-Institute für Informatik Stuhlsatzenhausweg 85, 66123 Saarbrücken, Germany, (MPI-I-2000-1-001), 2000.

(Links | BibTeX)

Kohlbacher, O; Lenhof, H -P

Rapid Software Prototyping in Computational Molecular Biology

Proceedings of the German Conference on Bioinformatics (GCB'99), 1999.


Boghossian, Nicolas Pascal; Kohlbacher, Oliver; Lenhof, Hans-Peter

BALL: Biochemical Algorithms Library

Vitter, J S; Zaroliagis, C D (Ed.): Algorithm Engineering, 3rd International Workshop, WAE'99, Proceedings, pp. 330-344, Springer, 1999.


Boghossian, Nicolas Pascal; Kohlbacher, Oliver; Lenhof, Hans-Peter

BALL: Biochemical Algorithms Library

Max-Planck-Institut für Informatik Saarbrücken, Germany, (MPI-I-99-1-002), 1999.

(Links | BibTeX)

Neumann, Dirk; Haltner, Elleonore; Lehr, Claus-Michael; Kohlbacher, Oliver; Lenhof, Hans-Peter

Investigating the Sugar-Lectin Interaction by Computational Chemistry: Tunneling the Epithelial Barrier

Abstracts of the 18th Interlec Meeting, pp. 549, 1998.


Immel, Alexander; Perini, Federicia; Rinne, Christoph; Meadows, John; Barquera, Rodrigo; Szolek, Andras; SUsat, Julian; Böhme, Lisa; Dose, Janina; Bonczarowska, Joanna; Drummer, Clara; Fuchs, Katharina; Ellinghaus, David; Kässens, Jan-Christian; Furholt, Martin; Kohlbacher, Oliver; Schade-Lindig, Sabine; Franke, Andre; Schreiber, Stefan; Krause, Johannes; Müller, Johannes; Lenz, Tobias L; Nebel, Almut; Krause-Kyora, Ben

Genome-wide study of a Neolithic Wartberg grave community reveals distinct HLA variation and hunter-gatherer ancestry

Communications Biology, Forthcoming.

(Abstract | BibTeX)

Green, Anna; Elhabashy, Hadeer; Brock, Kelly; Maddamsetti, Rohan; Kohlbacher, Oliver; Marks, Debora S

Large-scale discovery of protein interactions at residue resolution using co-evolution calculated from genomic sequences

Nat. Commun., Forthcoming.


Bandeira, Nuno; Deutsch, Eric W; Kohlbacher, Oliver; Martens, Lennart; Vizcaíno, Juan Antonio

Data management of sensitive human proteomics data: current practices, recommendations and perspectives for the future

Mol. Cell. Prot., 0000.

(Abstract | Links | BibTeX)

344 entries « 7 of 7 »

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