Ole Lund

Publication Activity (10 Years)

Years Active: 1992-2021
Publications (10 Years): 7

Top Topics

Genotype Phenotype

Multiple Sequence Alignments

Top Venues

Database J. Biol. Databases Curation

Nucleic Acids Res.

Publications

Rosa L. Allesøe, Camilla K. Lemvigh, My V. T. Phan, Philip T. L. C. Clausen, Alfred F. Florensa, Marion Koopmans, Ole Lund, Matthew Cotten
Automated download and clean-up of family-specific databases for kmer-based virus identification. Bioinform. 37 (5) (2021)
Clara Amid, Nima Pakseresht, Nicole Silvester, Suran Jayathilaka, Ole Lund, Lukasz D. Dynovski, Bálint Á Pataki, Dávid Visontai, Basil Britto Xavier, Blaise T. F. Alako, Ariane Belka, Jose L. B. Cisneros, Matthew Cotten, George B. Haringhuizen, Peter W. Harrison, Dirk Höper, Sam Holt, Camilla Hundahl, Abdulrahman Hussein, Rolf S. Kaas, Xin Liu, Rasko Leinonen, Surbhi Malhotra-Kumar, David F. Nieuwenhuijse, Nadim Rahman, Carolina dos S. Ribeiro, Jeffrey E. Skiby, Dennis Schmitz, József Stéger, János M. Szalai-Gindl, Martin C. F. Thomsen, Simone M. Cacciò, István Csabai, Annelies Kroneman, Marion Koopmans, Frank Aarestrup, Guy Cochrane
The COMPARE Data Hubs. Database J. Biol. Databases Curation 2019 (2019)
Maria Luisa Matey-Hernandez, Lasse Maretty, Jacob Malte Jensen, Bent Petersen, Jonas Andreas Sibbesen, Siyang Liu, Palle Villesen, Laurits Skov, Kirstine Belling, Christian Theil Have, José M. G. Izarzugaza, Marie Grosjean, Jette Bork-Jensen, Jakob Grove, Thomas D. Als, Shujia Huang, Yuqi Chang, Ruiqi Xu, Weijian Ye, Junhua Rao, Xiaosen Guo, Jihua Sun, Hongzhi Cao, Chen Ye, John van Beusekom, Thomas Espeseth, Esben N. Flindt, Rune M. Friborg, Anders E. Halager, Stephanie Le Hellard, Christina M. Hultman, Francesco Lescai, Shengting Li, Ole Lund, Peter Løngreen, Thomas Mailund, Ole Mors, Christian N. S. Pedersen, Thomas Sicheritz-Pontén, Patrick F. Sullivan, Ali Syed, David Westergaard, Rachita Yadav, Ning Li, Xun Xu, Torben Hansen, Anders Krogh, Lars Bolund, Thorkild I. A. Sørensen, Oluf Pedersen, Ramneek Gupta, Simon Rasmussen, Søren Besenbacher, Anders D. Børglum, Jun Wang, Hans Eiberg, Karsten Kristiansen, Mikkel Heide Schierup, Søren Brunak
Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios. BMC Bioinform. 19 (1) (2018)
Philip T. L. C. Clausen, Frank Aarestrup, Ole Lund
Rapid and precise alignment of raw reads against redundant databases with KMA. BMC Bioinform. 19 (1) (2018)
Martin Christen Frølund Thomsen, Henrik Hasman, Henrik Westh, Hülya Kaya, Ole Lund
RUCS: rapid identification of PCR primers for unique core sequences. Bioinform. 33 (24) (2017)
Lasse Maretty, Jacob Malte Jensen, Bent Petersen, Jonas Andreas Sibbesen, Siyang Liu, Palle Villesen, Laurits Skov, Kirstine Belling, Christian Theil Have, José M. G. Izarzugaza, Marie Grosjean, Jette Bork-Jensen, Jakob Grove, Thomas D. Als, Shujia Huang, Yuqi Chang, Ruiqi Xu, Weijian Ye, Junhua Rao, Xiaosen Guo, Jihua Sun, Hongzhi Cao, Chen Ye, John van Beusekom, Thomas Espeseth, Esben N. Flindt, Rune M. Friborg, Anders E. Halager, Stephanie Le Hellard, Christina M. Hultman, Francesco Lescai, Shengting Li, Ole Lund, Peter Løngreen, Thomas Mailund, Maria Luisa Matey-Hernandez, Ole Mors, Christian N. S. Pedersen, Thomas Sicheritz-Pontén, Patrick F. Sullivan, Ali Syed, David Westergaard, Rachita Yadav, Ning Li, Xun Xu, Torben Hansen, Anders Krogh, Lars Bolund, Thorkild I. A. Sørensen, Oluf Pedersen, Ramneek Gupta, Simon Rasmussen, Søren Besenbacher, Anders D. Børglum, Jun Wang, Hans Eiberg, Karsten Kristiansen, Søren Brunak, Mikkel Heide Schierup
assembly of 150 genomes from Denmark as a population reference. Nat. 548 (7665) (2017)
Jens Kringelum, Sonny Kim Kjærulff, Søren Brunak, Ole Lund, Tudor I. Oprea, Olivier Taboureau
ChemProt-3.0: a global chemical biology diseases mapping. Database J. Biol. Databases Curation 2016 (2016)
Dhany Saputra, Simon Rasmussen, Mette V. Larsen, Nizar Haddad, Maria Sperotto, Frank Aarestrup, Ole Lund, Thomas Sicheritz-Pontén
Reads2Type: a web application for rapid microbial taxonomy identification. BMC Bioinform. 16 (2015)
Thomas Trolle, Imir G. Metushi, Jason A. Greenbaum, Yohan Kim, John Sidney, Ole Lund, Alessandro Sette, Bjoern Peters, Morten Nielsen
Automated benchmarking of peptide-MHC class I binding predictions. Bioinform. 31 (13) (2015)
Sonny Kim Kjærulff, Louis Wich, Jens Kringelum, Ulrik Plesner Jacobsen, Irene Kouskoumvekaki, Karine Audouze, Ole Lund, Søren Brunak, Tudor I. Oprea, Olivier Taboureau
ChemProt-2.0: visual navigation in a disease chemical biology database. Nucleic Acids Res. 41 (Database-Issue) (2013)
Massimo Andreatta, Ole Lund, Morten Nielsen
Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach. Bioinform. 29 (1) (2013)
Leon Eyrich Jessen, Ilka Hoof, Ole Lund, Morten Nielsen
: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments. Nucleic Acids Res. 41 (Webserver-Issue) (2013)
Jens Vindahl Kringelum, Claus Lundegaard, Ole Lund, Morten Nielsen
Reliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking. PLoS Comput. Biol. 8 (12) (2012)
Yohan Kim, Julia V. Ponomarenko, Zhanyang Zhu, Dorjee Tamang, Peng Wang, Jason Greenbaum, Claus Lundegaard, Alessandro Sette, Ole Lund, Philip E. Bourne, Morten Nielsen, Bjoern Peters
Immune epitope database analysis resource. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Nicolas Rapin, Ole Lund, Filippo Castiglione
Immune system simulation online. Bioinform. 27 (14) (2011)
Morten Nielsen, Claus Lundegaard, Ole Lund, Thomas Nordahl Petersen
CPHmodels-3.0 - remote homology modeling using structure-guided sequence profiles. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Claus Lundegaard, M. Buggert, A. C. Karlsson, Ole Lund, Carina Perez, Morten Nielsen
PopCover: a method for selecting of peptides with optimal population and pathogen coverage. BCB (2010)
Peng Wang, John Sidney, Yohan Kim, Alessandro Sette, Ole Lund, Morten Nielsen, Björn Peters
Peptide binding predictions for HLA DR, DP and DQ molecules. BMC Bioinform. 11 (2010)
Hao Zhang, Ole Lund, Morten Nielsen
The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding. Bioinform. 25 (10) (2009)
Morten Nielsen, Ole Lund
. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction. BMC Bioinform. 10 (2009)
Claus Lundegaard, Ole Lund, Morten Nielsen
Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers. Bioinform. 24 (11) (2008)
Claus Lundegaard, Kasper Lamberth, Mikkel Harndahl, Søren Buus, Ole Lund, Morten Nielsen
NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11. Nucleic Acids Res. 36 (Web-Server-Issue) (2008)
Qing Zhang, Peng Wang, Yohan Kim, Pernille Haste-Andersen, John E. Beaver, Philip E. Bourne, Huynh-Hoa Bui, Søren Buus, Sune Frankild, Jason Greenbaum, Ole Lund, Claus Lundegaard, Morten Nielsen, Julia V. Ponomarenko, Alessandro Sette, Zhanyang Zhu, Björn Peters
Immune epitope database analysis resource (IEDB-AR). Nucleic Acids Res. 36 (Web-Server-Issue) (2008)
Morten Nielsen, Claus Lundegaard, Thomas Blicher, Bjoern Peters, Alessandro Sette, Sune Justesen, Søren Buus, Ole Lund
Quantitative Predictions of Peptide Binding to Any HLA-DR Molecule of Known Sequence: NetMHCIIpan. PLoS Comput. Biol. 4 (7) (2008)
Claus Lundegaard, Ole Lund, Can Kesmir, Søren Brunak, Morten Nielsen
Modeling the adaptive immune system: predictions and simulations. Bioinform. 23 (24) (2007)
Morten Nielsen, Claus Lundegaard, Ole Lund
Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method. BMC Bioinform. 8 (2007)
Mette V. Larsen, Claus Lundegaard, Kasper Lamberth, Søren Buus, Ole Lund, Morten Nielsen
Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction. BMC Bioinform. 8 (2007)
Bjoern Peters, Huynh-Hoa Bui, Sune Frankild, Morten Nielsen, Claus Lundegaard, Emrah Kostem, Derek Basch, Kasper Lamberth, Mikkel Harndahl, Ward Fleri, Stephen S. Wilson, John Sidney, Ole Lund, Søren Buus, Alessandro Sette
A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules. PLoS Comput. Biol. 2 (6) (2006)
Alessandro Sette, Huynh-Hoa Bui, John Sidney, Philip E. Bourne, Søren Buus, Ward Fleri, R. Kubo, Ole Lund, D. Nemazee, Julia V. Ponomarenko, Muthu Sathiamurthy, Scott Stewart, Scott Way, Stephen S. Wilson, Björn Peters
The Immune Epitope Database and Analysis Resource. PRIB (2006)
Lars Kiemer, Ole Lund, Søren Brunak, Nikolaj Blom
proteinase cleavage sites: Possible relevance to SARS virus pathology. BMC Bioinform. 5 (2004)
Claus Lundegaard, Morten Nielsen, Kasper Lamberth, Peder Worning, Christina Sylvester-Hvid, Søren Buus, Søren Brunak, Ole Lund
MHC Class I Epitope Binding Prediction Trained on Small Data Sets. ICARIS (2004)
Morten Nielsen, Claus Lundegaard, Peder Worning, Christina Sylvester-Hvid, Kasper Lamberth, Søren Buus, Søren Brunak, Ole Lund
Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach. Bioinform. 20 (9) (2004)
Claus Lundegaard, Thomas Nordahl Petersen, Morten Nielsen, Henrik Bohr, Jakob Bohr, Søren Brunak, Garry Gippert, Ole Lund
Prediction of Protein Secondary Structure at High Accuracy Using a Combination of Many Neural Networks. Mathematical Methods for Protein Structure Analysis and Design (2003)
Jens Kaae Christensen, Kasper Lamberth, Morten Nielsen, Claus Lundegaard, Peder Worning, Sanne Lise Lauemøller, Søren Buus, Søren Brunak, Ole Lund
Selecting Informative Data for Developing Peptide-MHC Binding Predictors Using a Query by Committee Approach. Neural Comput. 15 (12) (2003)
Jan Gorodkin, Hans Henrik Stærfeldt, Ole Lund, Søren Brunak
MatrixPlot: visualizing sequence constraints. Bioinform. 15 (9) (1999)
Jan Gorodkin, Ole Lund, Claus A. F. Andersen, Søren Brunak
Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints. ISMB (1999)
Jan E. Hansen, Ole Lund, Jette Nilsson, Kristoffer Rapacki, Søren Brunak
O-GLYCBASE Version 3.0: a revised database of O-glycosylated proteins. Nucleic Acids Res. 26 (1) (1998)
Jan E. Hansen, Ole Lund, Kristoffer Rapacki, Søren Brunak
O-GLYCBASE version 2.0: a revised database of O-glycosylated proteins. Nucleic Acids Res. 25 (1) (1997)
Jan E. Hansen, Ole Lund, Jens O. Nielsen, John-E. S. Hansen, Søren Brunak
O-GLYCBASE: a revised database of O-glycosylated proteins. Nucleic Acids Res. 24 (1) (1996)
Ole Lund, Erik Mosekilde, Jan E. Hansen
Period doubling route to chaos in a model of HIV infection of the immune system: A comment on the Anderson-May model. Simul. Pract. Theory 1 (2) (1993)
Ole Lund, Erik Mosekilde, Jan E. Hansen
Period Doubling Route to Chaos in a Model of HIV infection of the Immune System. EUROSIM (1992)