Ole Lund

Massimo Bernaschi, Marie-Paule Lefranc, Ole Lund, 2010, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences.

Improved method for predicting linear B-cell epitopes

Morten Nielsen, Ole Lund, Jens Erik Pontoppidan Larsen, 2006, Immunome research.

‘Query‐by Committee’— An Efficient Method to Select Information‐Rich Data for the Development of Peptide—HLA‐Binding Predictors

Morten Nielsen, Ole Lund, Søren Brunak, 2004, Scandinavian Journal of Immunology.

Modeling the adaptive immune system: predictions and simulations

Morten Nielsen, Ole Lund, Søren Brunak, 2007, Bioinform..

Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints

Ole Lund, Søren Brunak, Jan Gorodkin, 1999, ISMB.

Reads2Type: a web application for rapid microbial taxonomy identification

Ole Lund, Frank Aarestrup, Dhany Saputra, 2015, BMC Bioinformatics.

Learning by Joining the Rhythm

Ole Lund, Mette Krogh Christensen, Susanne Ravn, 2012 .

MatrixPlot: visualizing sequence constraints

Ole Lund, Søren Brunak, Jan Gorodkin, 1999, Bioinform..

Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method

Morten Nielsen, Ole Lund, Claus Lundegaard, 2007, BMC Bioinformatics.

The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding

Morten Nielsen, Ole Lund, Hao Zhang, 2009, Bioinform..

O-GLYCBASE version 2 . 0 : a revised database of O-glycosylated proteins

Ole Lund, Søren Brunak, Jan E. Hansen, 1997 .

Coronavirus 3CLpro proteinase cleavage sites: Possible relevance to SARS virus pathology

Ole Lund, Nikolaj Blom, Søren Brunak, 2004, BMC Bioinformatics.

O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins

Ole Lund, Søren Brunak, Jan E. Hansen, 1999, Nucleic Acids Res..

Information Design : Research and Practice

Ole Lund, Alison Black, Sue Walker, 2017 .

Prediction of Protein Secondary Structure at High Accuracy Using a Combination of Many Neural Networks

Morten Nielsen, Ole Lund, Søren Brunak, 2003, Mathematical Methods for Protein Structure Analysis and Design.

RUCS: rapid identification of PCR primers for unique core sequences

Ole Lund, Martin Christen Frølund Thomsen, Henrik Hasman, 2017, Bioinform..

Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach

Morten Nielsen, Ole Lund, Massimo Andreatta, 2013, Bioinform..

Immunological Bioinformatics (Computational Molecular Biology)

Ole Lund, Søren Brunak, Claus Lundegaard, 2005 .

Towards a consensus on datasets and evaluation metrics for developing B‐cell epitope prediction tools

Avner Schlessinger, Jean-Luc Pellequer, Yanay Ofran, 2007, Journal of molecular recognition : JMR.

Mutational spectrum in the cardioauditory syndrome of Jervell and Lange-Nielsen

Ole Lund, Lisbeth Tranebjærg, Maria Bitner-Glindzicz, 2000, Human Genetics.

NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8–11

Morten Nielsen, Ole Lund, Claus Lundegaard, 2008, Nucleic Acids Res..

Peptide binding predictions for HLA DR, DP and DQ molecules

Morten Nielsen, John Sidney, Ole Lund, 2010, BMC Bioinformatics.

Period doubling route to chaos in a model of HIV infection of the immune system: A comment on the Anderson-May model

Ole Lund, Erik Mosekilde, Jan E. Hansen, 1993, Simul. Pract. Theory.

Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers

Morten Nielsen, Ole Lund, Claus Lundegaard, 2008, Bioinform..

Immunological bioinformatics

Morten Nielsen, Ole Lund, Søren Brunak, 2005, Computational molecular biology.

Automated benchmarking of peptide-MHC class I binding predictions

Morten Nielsen, John Sidney, Ole Lund, 2015, Bioinform..

NetFCM: A Tool for Automated Flow Cytometric Data Analysis

Ole Lund, Annika C. Karlsson, Juliet Wairimu Frederiksen, 2013 .

High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum

Morten Nielsen, Ole Lund, Martin Dufva, 2015, Scientific Reports.

In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

Ole Lund, Alessandra Carattoli, Frank Møller Aarestrup, 2014, Antimicrobial Agents and Chemotherapy.

Identification of CD8+ T Cell Epitopes in the West Nile Virus Polyprotein by Reverse-Immunology Using NetCTL

Morten Nielsen, Ole Lund, Søren Buus, 2010, PloS one.

Rapid Whole-Genome Sequencing for Detection and Characterization of Microorganisms Directly from Clinical Samples

Ole Lund, Dhany Saputra, Frank M. Aarestrup, 2013, Journal of Clinical Microbiology.

Morten Nielsen, Ole Lund, Sune Frankild, 2008, PloS one.

PathogenFinder - Distinguishing Friend from Foe Using Bacterial Whole Genome Sequence Data

Ole Lund, Salvatore Cosentino, Frank Møller Aarestrup, 2013, PloS one.

Human Leukocyte Antigen (HLA) Class I Restricted Epitope Discovery in Yellow Fewer and Dengue Viruses: Importance of HLA Binding Strength

Morten Nielsen, Ole Lund, Ernesto T. A. Marques, 2011, PloS one.

An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia

Yong Wang, Ole Lund, Søren Brunak, 2011, Science.

MHC motif viewer

Morten Nielsen, Ole Lund, Nicolas Rapin, 2008, Immunogenetics.

Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing.

Ole Lund, Rolf Sommer Kaas, Mette Voldby Larsen, 2013, The Journal of antimicrobial chemotherapy.

Novel variation and de novo mutation rates in population-wide de novo assembled Danish trios

Jakob Grove, Anders D. Børglum, Xun Xu, 2015, Nature Communications.

Meeting abstractPrediction of protein secondary structure at 80% accuracy using a combination of many neural networks

Ole Lund, Søren Brunak, Henrik Bohr, 2000 .

Computational Immunology Meets Bioinformatics: The Use of Prediction Tools for Molecular Binding in the Simulation of the Immune System

Massimo Bernaschi, Ole Lund, Filippo Castiglione, 2010, PloS one.

Structural Insight into Epitopes in the Pregnancy-Associated Malaria Protein VAR2CSA

Ole Lund, Thomas S. Rask, O. Lund, 2008, PLoS pathogens.

Benchmarking of methods for identification of antimicrobial resistance genes in bacterial whole genome data.

Ole Lund, Philip T L C Clausen, O. Lund, 2016, The Journal of antimicrobial chemotherapy.

Benchmarking of Methods for Genomic Taxonomy

Ole Lund, Dhany Saputra, Simon Rasmussen, 2014, Journal of Clinical Microbiology.

CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening.

Morten Nielsen, Ole Lund, Claus Lundegaard, 2007, Vaccine.

Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli

Ole Lund, Frank M. Aarestrup, Henrik Hasman, 2014, Journal of Clinical Microbiology.

State of the art and challenges in sequence based T-cell epitope prediction

Morten Nielsen, Ole Lund, Claus Lundegaard, 2010, Immunome research.

A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance

Ole Lund, Frank Møller Aarestrup, Martin Christen Frølund Thomsen, 2016, PloS one.

The peptide-binding specificity of HLA-A*3001 demonstrates membership of the HLA-A3 supertype

Morten Nielsen, Ole Lund, Claus Lundegaard, 2008, Immunogenetics.

The validity of predicted T-cell epitopes.

Morten Nielsen, Ole Lund, Claus Lundegaard, 2006, Trends in biotechnology.

Prediction of epitopes using neural network based methods.

Morten Nielsen, Ole Lund, Claus Lundegaard, 2011, Journal of immunological methods.

Selection of proteins for human MHC class II presentation.

Ole Lund, O. Lund, Li Jiang, 2005, Cellular & molecular immunology.

Limitations of Ab Initio Predictions of Peptide Binding to MHC Class II Molecules

Ying Xu, Philip E. Bourne, Morten Nielsen, 2010, PloS one.

Epitope Mapping and Topographic Analysis of VAR2CSA DBL3X Involved in P. falciparum Placental Sequestration

Ole Lund, Thomas S. Rask, Anders Gorm Pedersen, 2006, PLoS pathogens.

Propionibacterium acnes: Disease-Causing Agent or Common Contaminant? Detection in Diverse Patient Samples by Next-Generation Sequencing

Ole Lund, Søren Brunak, Jose M. G. Izarzugaza, 2016, Journal of Clinical Microbiology.

HostPhinder: A Phage Host Prediction Tool

Morten Nielsen, Ole Lund, Vanessa Isabell Jurtz, 2016, Viruses.

MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads

Ole Lund, Oksana Lukjancenko, Thomas Nordahl Petersen, 2017, PloS one.

In Silico Prediction of Human Pathogenicity in the γ-Proteobacteria

Morten Nielsen, Ole Lund, Massimo Andreatta, 2010, PloS one.

Genome-Based In Silico Identification of New Mycobacterium tuberculosis Antigens Activating Polyfunctional CD8+ T Cells in Human Tuberculosis

Ole Lund, Ugur Sahin, Søren Buus, 2011, The Journal of Immunology.

Broadly Immunogenic HLA Class I Supertype-Restricted Elite CTL Epitopes Recognized in a Diverse Population Infected with Different HIV-1 Subtypes1

Morten Nielsen, Ole Lund, Rasmus Gustafsson, 2008, The Journal of Immunology.

NNAlign: A Web-Based Prediction Method Allowing Non-Expert End-User Discovery of Sequence Motifs in Quantitative Peptide Data

Morten Nielsen, Ole Lund, Massimo Andreatta, 2011, PloS one.

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

Ole Lund, Simon Rasmussen, Frank M. Aarestrup, 2012, Journal of Clinical Microbiology.

The Cancer Exome Generated by Alternative mRNA Splicing Dilutes Predicted HLA Class I Epitope Density

Morten Nielsen, Ole Lund, Thomas Stranzl, 2012, PloS one.

Major histocompatibility complex class I binding predictions as a tool in epitope discovery

Morten Nielsen, Ole Lund, Claus Lundegaard, 2010, Immunology.

MHC Class II epitope predictive algorithms

Morten Nielsen, Ole Lund, Claus Lundegaard, 2010, Immunology.

ArrayPitope: Automated Analysis of Amino Acid Substitutions for Peptide Microarray-Based Antibody Epitope Mapping

Morten Nielsen, Ole Lund, Paolo Marcatili, 2017, PloS one.

NetMHCcons: a consensus method for the major histocompatibility complex class I predictions

Morten Nielsen, Ole Lund, Claus Lundegaard, 2011, Immunogenetics.

Porcine major histocompatibility complex (MHC) class I molecules and analysis of their peptide-binding specificities

Morten Nielsen, Ole Lund, Kasper Lamberth, 2011, Immunogenetics.

Global Microbial Identifier

Ole Lund, Frank Møller Aarestrup, Marion Koopmans, 2017, Applied Genomics of Foodborne Pathogens.