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2013 (7) 2012 (6) 2011 (7) 2010 (18) 2009 (5) 2008 (11) 2007 and before (40) Books (1)

2013

    Targeting of conserved gag-epitopes in early HIV infection is associated with lower plasma viral load and slower CD4(+) T cell depletion.
    Perez CL, Milush JM, Buggert M, Eriksson EM, Larsen MV, Liegler T, Hartogensis W, Bacchetti P, Lund O, Hecht FM, Nixon DF, Karlsson AC
    AIDS Res Hum Retroviruses. 2013, 2013
    PubMed
    Rapid whole genome sequencing for the detection and characterization of microorganisms directly from clinical samples.
    Hasman H, Saputra D, Sicheritz-Ponten T, Lund O, Svendsen CA, Frimodt-Møller N, Aarestrup FM
    J Clin Microbiol. 2013, 2013
    PubMed
    Evaluation of peptide selection approaches for epitope-based vaccine design
    Schubert B, Lund O, Nielsen M
    Tissue Antigens, 82: 243–251. doi: 10.1111/tan.12199, 2013
    Relevant URL
    NetMHCIIpan-3.0, a common pan-specific MHC class II prediction method including all three human MHC class II isotypes, HLA-DR, HLA-DP and HLA-DQ
    Karosiene E, Rasmussen M, Blicher T, Lund O, Buus S, Nielsen M
    Immunogenetics. 2013 Jul 31., 2013
    PubMed
    MHCcluster, a method for functional clustering of MHC molecules
    Thomsen M, Lundegaard C, Buus S, Lund O, Nielsen M
    Immunogenetics., 2013
    PubMed
    Relevant URL
    SigniSite: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments
    Jessen L, Hoof I, Lund O, Nielsen M
    Nucleic Acids Research 2013; doi: 10.1093/nar/gkt497, 2013
    Relevant URL
    Bioinformatics Identification of Antigenic Peptide: Predicting the Specificity of Major MHC Class I and II Pathway Players
    Lund O, Karosiene E, Lundegaard C, Larsen MV, Nielsen M
    Methods Mol Biol. 2013, 2013
    PubMed

2012

    Mycobacterium leprae virulence-associated peptides are indicators of exposure to M. leprae in Brazil, Ethiopia and Nepal.
    Bobosha K, Tang ST, van der Ploeg-van Schip JJ, Bekele Y, Martins MV, Lund O, Franken KL, Khadge S, Pontes MA, Gonçalves Hde S, Hussien J, Thapa P, Kunwar CB, Hagge DA, Aseffa A, Pessolani MC, Pereira GM, Ottenhoff TH, Geluk A
    Mem Inst Oswaldo Cruz. 2012 Dec;107 Suppl 1:112-23., 2012
    PubMed
    Identification of acquired antimicrobial resistance genes
    Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O, Aarestrup FM, Larsen MV
    Journal of Antimicrobial Chemotherapy, 2012
    PubMed
    ChemProt-2.0: visual navigation in a disease chemical biology database
    Kim Kjærulff S, Wich L, Kringelum J, Jacobsen UP, Kouskoumvekaki I, Audouze K, Lund O, Brunak S, Oprea TI, Taboureau O
    Nucleic Acids Res. 2012 Nov 26, 2012
    PubMed
    Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach
    Andreatta M, Lund O, Nielsen M
    Bioinformatics. 2012 Oct 24. [Epub ahead of print], 2012
    PubMed
    Relevant URL
    Immune epitope database analysis resource
    Kim Y, Ponomarenko J, Zhu Z, Tamang D, Wang P, Greenbaum J, Lundegaard C, Sette A, Lund O, Bourne PE, Nielsen M, Peters B
    PubMed, 2012
    Relevant URL
    Predictions versus high- throughput experiments in T-cell epitope discovery: competition or synergy?
    Lundegaard C, Lund O, Nielsen M
    Expert Rev. Vaccines 11(1), 43–54 (2012), 2012

2011

    Porcine major histocompatibility complex (MHC) class I molecules and analysis of their peptide-binding specificities.
    Pedersen LE, Golde WT, Lund O, Nielsen M, Buus S
    Immunogenetics, 2011
    Machine learning competition in immunology - Prediction of HLA class I binding peptides
    Zhang GL6, Ansari HR, Bradley P, Cawley GC, Hertz T, Hu X, Jojic N, Kim Y, Kohlbacher O, Lund O, Lundegaard C, Magaret CA, Nielsen M, Papadopoulos H, Raghava GP, Tal VS, Xue LC, Yanover C, Zhu S, Rock MT, Crowe JE Jr, Panayiotou C, Polycarpou MM, Duch W, Brusic V
    J Immunol Methods., 2011
    NNAlign: A Web-Based Prediction Method Allowing Non-Expert End-User Discovery of Sequence Motifs in Quantitative Peptide Data
    Andreatta M, Schafer-Nielsen C, Lund O, Buus S, Nielsen M
    PLoS ONE 6(11): e26781. doi:10.1371/journal.pone.0026781, 2011
    An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia
    Rasmussen M, Guo X, Wang Y, Lohmueller KE, Rasmussen S, Albrechtsen A, Skotte L, Lindgren S, Metspalu M, Jombart T, Kivisild T, Zhai W, Eriksson A, Manica A, Orlando L, De La Vega F, Tridico S, Metspalu E, Nielsen K, Ávila-Arcos MA, Moreno-Mayar JV, Muller C, Dortch J, Gilbert MTP, Lund O, Wesolowska A, Karmin M, Weinert LA, Wang B, Li J, Tai S, Xiao F, Hanihara T, van Driem G, Jha AR, Ricaut FX, de Knijf P, Migliano AB, Gallego-Romero I, Kristiansen K, Lambert DM, Brunak S, Forster P, Brinkmann B, Nehlich O, Bunce M, Richards M, Gupta R, Bustamante CD, Krogh A, Foley RA, Lahr MM, Balloux F, Sichertitz-Pontén T, Villems R, Nielsen R, Jun W, Willerslev E
    Science, 2011
    PubMed
    NetMHCcons: a consensus method for the major histocompatibility complex class I predictions
    Karosiene E, Lundegaard C, Lund O, Nielsen M
    Immunogenetics, 2011
    Relevant URL
    Genome-Based In Silico Identification of New Mycobacterium tuberculosis Antigens Activating Polyfunctional CD8+ T Cells in Human Tuberculosis
    Tang ST, van Meijgaarden KE, Caccamo N, Guggino G, Klein MR, van Weeren P, Kazi F, Stryhn A, Zaigler A, Sahin U, Buus S, Dieli F, Lund O, Ottenhoff TH
    Journal of Immunology, January 15, 2011
    PubMed
    Bistability in autoimmune diseases
    Rapin N, Mosekilde E, Lund O
    Autoimmunity, January 19, 2011
    PubMed

2010

    ImmunoGrid: towards agent-based simulations of the human immune system at a natural scale
    Halling-Brown M, Pappalardo F, Rapin N, Zhang P, Alemani D, Emerson A, Castiglione F, Duroux P, Pennisi M, Miotto O, Churchill D, Rossi E, Moss DS, Sansom CE, Bernaschi M, Lefranc MP, Brunak S, Lund O, Motta S, Lollini PL, Murgo A, Palladini A, Basford KE, Brusic V, Shepherd AJ
    Philos Transact A Math Phys Eng Sci, June 13, 2010
    PubMed
    HLA class I binding 9mer peptides from influenza A virus induce CD4 T cell responses
    Wang M, Larsen MV, Nielsen M, Harndahl M, Justesen S, Dziegiel MH, Buus S, Tang ST, Lund O, Claesson MH
    PLoS One, May 7, 2010
    PubMed
    Plasmodium falciparum population dynamics in a cohort of pregnant women in Senegal
    Guitard J, Andersen P, Ermont C, Gnidehou S, Fievet N, Lund O, Deloron P, Ndam NT
    Malaria Journal, June 16, 2010
    PubMed
    Identification of CD8+ T cell epitopes in the West Nile virus polyprotein by reverse-immunology using NetCTL
    Larsen MV, Lelic A, Parsons R, Nielsen M, Hoof I, Lamberth K, Loeb MB, Buus S, Bramson J, Lund O
    PLoS One, September 14, 2010
    PubMed
    MULTIPRED2: a computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles
    Zhang GL, Deluca DS, Keskin DB, Chitkushev L, Zlateva T, Lund O, Reinherz EL, Brusic V
    Journal of Immunological Methods, October 31, 2010
    PubMed
    In Silico Prediction of Human Pathogenicity in the γ-Proteobacteria
    Andreatta M, Nielsen M, Møller Aarestrup F, Lund O
    PLoS One, October 27, 2010
    PubMed
    Read article
    Peptide binding predictions for HLA DR, DP and DQ molecules
    Wang P, Sidney J, Kim Y, Sette A, Lund O, Nielsen M, Peters B
    BMC Bioinformatics, November 22, 2010
    PubMed
    NetMHCIIpan-2.0 - Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure
    Nielsen M, Justesen S, Lund O, Lundegaard C, Buus S
    Immunome Research, Nov 13, 2010
    PubMed
    State of the art and challenges in sequence based T-cell epitope prediction
    Lundegaard C, Hoof I, Lund O, Nielsen M
    Immunome Research, Nov 3, 2010
    PubMed
    Insight into Antigenic Diversity of VAR2CSA-DBL5å Domain from Multiple Plasmodium falciparum Placental Isolates
    Gnidehou S, Jessen L, Gangnard S, Ermont C, Triqui C, Quiviger M, Guitard J, Lund O, Deloron P, Ndam NT
    PLoS One, 2010
    PubMed
    CPHmodels-3.0--remote homology modeling using structure-guided sequence profiles
    Nielsen M, Lundegaard C, Lund O, Petersen TN
    Nucleic Acids Research, 2010
    PubMed
    Major histocompatibility complex class I binding predictions as a tool in epitope discovery
    Lundegaard C, Lund O, Buus S, Nielsen M
    Immunology, 2010
    PubMed
    MHC Class II epitope predictive algorithms
    Nielsen M, Lund O, Buus S, Lundegaard C
    Immunology, 2010
    PubMed
    Computational Immunology Meets Bioinformatics: The Use of Prediction Tools for Molecular Binding in the Simulation of the Immune System
    Rapin N, Lund O, Bernaschi M, Castiglione F
    PLoS One, April 16, 2010, 2010
    PubMed
    Read article
    The Degree of Predicted Minor Histocompatibility Antigen Mismatch Correlates with Poorer Clinical Outcome of Non-myeloablative Allogeneic Hematopoietic Cell Transplantation
    Larsen ME, Kornblit B, Larsen MV, Masmas TN, Nielsen M, Thiim M, Garred P, Stryhn A, Lund O, Buus S, Vindelov L
    Biol Blood Marrow Transplant, 2010
    PubMed
    Interdisciplinary Analysis of HIV-Specific CD8+ T Cell Responses against Variant Epitopes Reveals Restricted TCR Promiscuity
    Hoof I, Pérez CL, Buggert M, Gustafsson RK, Nielsen M, Lund O, Karlsson AC
    J Immunol, 2010
    PubMed
    Limitations of Ab Initio Predictions of Peptide Binding to MHC Class II Molecules
    Zhang H, Wang P, Papangelopoulos N, Xu Y, Sette A, Bourne PE, Lund O, Ponomarenko J, Nielsen M, Peters B
    PLoS One. 17;5(2):e9272, 2010
    PubMed
    The MHC motif viewer: a visualization tool for MHC binding motifs
    Rapin N, Hoof I, Lund O, Nielsen M
    Curr Protoc Immunol.Chapter 18:Unit18.17, 2010
    PubMed

2009

    The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding
    Zhang H, Lund O, Nielsen M
    Bioinformatics 15;25(10):1293-9, 2009
    PubMed
    Systematic Characterization of Cellular Localization and Expression Profiles of Proteins Containing MHC Ligands
    Juncker AS, Larsen MV, Weinhold N, Nielsen M, Brunak S, Lund O
    /PLoS ONE/ ; 4(10): e7448. doi:10.1371/journal.pone.0007448, 2009
    An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction.
    Nielsen M, Lund O
    BMC bioinformatics, 2009
    High-affinity human leucocyte antigen class I binding variola-derived peptides induce CD4+ T cell responses more than 30 years post-vaccinia virus vaccination
    Wang M, Tang ST, Lund O, Dziegiel MH, Buus S, Claesson MH
    Clinical and Experimental Immunology, 2009 Mar;155(3):441-6., 2009
    PubMed
    NetMHCpan, a method for MHC class I binding prediction beyond humans.
    Hoof I, Peters B, Sidney J, Pedersen LE, Sette A, Lund O, Buus S, Nielsen M
    Immunogenetics 61(1):1-13, 2009
    PubMed

2008

    MHC-I-restricted epitopes conserved among variola and other related orthopoxviruses are recognized by T cells 30 years after vaccination
    Tang ST, Wang M, Lamberth K, Harndahl M, Dziegiel MH, Claesson MH, Buus S, Lund O
    Arch Virol. 2008;153(10):1833-44, 2008
    PubMed
    The peptide-binding specificity of HLA-A*3001 demonstrates membership of the HLA-A3 supertype
    Lamberth K, Røder G, Harndahl M, Nielsen M, Lundegaard C, Schafer- Nielsen C, Lund O, Buus S
    Immunogenetics. 2008 Sep 4. [Epub ahead of print], 2008
    PubMed
    MHC motif viewer
    Rapin N, Hoof I, Lund O, Nielsen M
    Immunogenetics. 2008 Sep 3. [Epub ahead of print], 2008
    PubMed
    Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan
    Nielsen M, Lundegaard C, Blicher T, Peters B, Sette A, Justesen S, Buus S, Lund O
    PLoS Comput Biol. 2008 Jul 4;4(7):e1000107, 2008
    PubMed
    Immune epitope database analysis resource (IEDB-AR)
    Zhang Q, Wang P, Kim Y, Haste-Andersen P, Beaver J, Bourne PE, Bui HH, Buus S, Frankild S, Greenbaum J, Lund O, Lundegaard C, Nielsen M, Ponomarenko J, Sette A, Zhu Z, Peters B
    Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W513-8. Epub 2008 May 31., 2008
    PubMed
    NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11
    Lundegaard C, Lamberth K, Harndahl M, Buus S, Lund O, Nielsen M
    Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W509-12. Epub 2008 May 7., 2008
    PubMed
    Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers
    Lundegaard C, Lund O, Nielsen M
    Bioinformatics. 2008 Jun 1;24(11):1397-8. Epub 2008 Apr 14, 2008
    PubMed
    Humans with chimpanzee-like major histocompatibility complex-specificities control HIV-1 infection
    Hoof I, Kesmir C, Lund O, Nielsen M
    AIDS, 11;22(11):1299-303, 2008
    PubMed
    Structural Insight into Epitopes in the Pregnancy-Associated Malaria Protein VAR2CSA
    Andersen P, Nielsen MA, Resende M, Rask TS, Dahlbäck M, Theander T, Lund O, Salanti A
    PLoS Pathog. 2008 Feb 15;4(2):e42, 2008
    PubMed
    Amino acid similarity accounts for T cell cross-reactivity and for \\\'holes\\\' in the T cell repertoire
    Frankild S, de Boer RJ, Lund O, Nielsen M, Kesmir C
    PLoS ONE. 2008 Mar 19;3(3):e1831, 2008
    PubMed
    Broadly Immunogenic HLA Class I Supertype-Restricted Elite CTL Epitopes Recognized in a Diverse Population Infected with Different HIV-1 Subtypes
    Pérez CL, Larsen MV, Gustafsson R, Norström MM, Atlas A, Nixon DF, Nielsen M, Lund O, Karlsson AC
    J Immunol.,2008 Apr 1;180(7):5092-100, 2008
    PubMed

2007

    Modeling the adaptive immune system: predictions and simulations
    Lundegaard C, Lund O, Kesmir C, Brunak S, Nielsen M
    Bioinformatics, 23:3265-75, 2007
    PubMed
    Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction
    Larsen MV, Lundegaard C, Lamberth K, Buus S, Lund O, Nielsen M
    BMC Bioinformatics,31;8:424, 2007
    PubMed
    Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method
    Nielsen M, Lundegaard C, Lund O
    BMC Bioinformatics. Jul 4;8(1):238, 2007
    PubMed
    NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence
    Nielsen M, Lundegaard C, Blicher T, Lamberth K, Harndahl M, Justesen S, Roder G, Peters B, Sette A, Lund O, Buus S
    PLoS ONE. Aug 29;2(8):e796, 2007
    PubMed
    Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools
    Greenbaum JA, Andersen PH, Blythe M, Bui HH, Cachau RE, Crowe J, Davies M, Kolaskar AS, Lund O, Morrison S, Mumey B, Ofran Y, Pellequer JL, Pinilla C, Ponomarenko JV, Raghava GP, van Regenmortel MH, Roggen EL, Sette A, Schlessinger A, Sollner J, Zand M, Peters B
    J. Mol. Recognit. (in press), 2007
    PubMed

2006

    TAP-Independent MHC Class I Presentation
    Larsen MV, Nielsen M, Weinzierl A, Lund O
    Curr Immunol Rev, 2, 233-245, 2006
    A community resource benchmarking predictions of peptide binding to MHC-I molecules
    Peters B, Bui HH, Frankild S, Nielson M, Lundegaard C, Kostem E, Basch D, Lamberth K, Harndahl M, Fleri W, Wilson SS, Sidney J, Lund O, Buus S, Sette A
    PLoS Comput Biol., 2 (6):e65, 2006
    PubMed
    The validity of predicted T-cell epitopes
    Lundegaard C, Nielsen M, Lund O
    Trends Biotechnol., 24 (12), 537-8, 2006
    PubMed
    CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening
    Wang M, Lamberth K, Harndahl M, Roder G, Stryhn A, Larsen MV, Nielsen M, Lundegaard C, Tang ST, Dziegiel MH, Rosenkvist J, Pedersen AE, Buus S, Claesson MH, Lund O
    Vaccine (in press), 2006
    PubMed
    Prediction of residues in discontinuous B-cell epitopes using protein 3D structures
    Andersen PH, Nielsen M, Lund O
    Protein Sci., 15 (11), 2558-67, 2006
    PubMed
    Epitope mapping and topographic analysis of VAR2CSA DBL3X involved in P. falciparum placental sequestration
    Dahlbäck M, Rask TS, Andersen PH, Nielsen MA, Ndam NT, Resende M, Turner L, Deloron P, Lund O, Pedersen AG, Hviid L, Theander TG, Salanti A
    PLoS Pathogens, 2 (11):e124, 2006
    PubMed
    PDF
    Improved method for predicting linear B-cell epitopes
    Larsen JE, Lund O, Nielsen M
    Immunome Res, 2: 2, 2006
    PubMed
    Ten years of bacterial genome sequencing: comparative-genomics-based discoveries
    Binnewies TT, Motro Y, Hallin PF, Lund O, Dunn D, La T, Hampson DJ, Bellgard M, Wassenaar TM, Ussery DW
    Functional and Integrative Genomics, 6, [Epub ahead of print], 2006
    PubMed

2005

    Selection of proteins for human MHC class II presentation
    Jiang L, Lund O, Tan JQ
    Cell Mol Immunol, 2, 49-56, 2005
    PubMed
    The design and implementation of the immune epitope database and analysis resource
    Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger SP, Stewart S, Surko P, Way S, Wilson S, Sette A
    Immunogenetics, 57, 326-36, 2005
    PubMed
    An integrative approach to CTL epitope prediction: A combined algorithm integrating MHC class I binding, TAP transport
    Larsen MV, Lundegaard C, Lamberth K, Buus S, Brunak S, Lund O, Nielsen M
    Eur J Immunol,35, 2295-2303, 2005
    PubMed
    The role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage
    Nielsen M, Lundegaard C, Lund O, Kesmir C
    Immunogenetics, 57, 33-41, 2005
    PubMed
    The Immune Epitope Database and Analysis Resource: From Vision to Blueprint
    Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger S, Stewart S, Surko P, Way S, Wilson S, Sette A
    PLoS Biol, 3, 91, 2005
    PubMed

2004

    Definition of supertypes for HLA molecules using clustering of specificity matrices
    Lund O, Nielsen M, Kesmir C, Pedersen AG, Lundegaard C, Worning P, Sylvester-Hvid C, Lamberth K, Roder G, Justesen S, Buus S, Brunak S
    Immunogenetics, 55, 797-810, 2004
    PubMed
    MHC Class I Epitope Binding Prediction Trained on Small Data Sets
    Lundegaard C, Nielsen M, Lamberth K, Worning P, Sylvester-Hvid C, Søren Buus, Brunak S, Lund O
    Lecture Notes in Computer Science, vol 3239, proceeding of ICARIS 2004, 217-225, 2004
    Abstract from Springer-Verlag
    Coronavirus 3CLpro proteinase cleavage sites: possible relevance to SARS virus pathology
    Kiemer L, Lund O, Brunak S, Blom N
    BMC Bioinformatics, 6;5, 72, 2004
    PubMed
    SARS CTL vaccine candidates; HLA supertype-, genome-wide scanning and biochemical validation
    Sylvester-Hvid C, Nielsen M, Lamberth K, Roder G, Justesen S, Lundegaard C, Worning P, Thomadsen H, Lund O, Brunak S, Buus S
    Tissue Antigens, 63, 395-400, 2004
    PubMed
    Improved prediction of MHC class I and II epitopes using a novel Gibbs sampling approach
    Nielsen M, Lundegaard C, Worning P, Sylvester-Hvid C, Lamberth K, Buus S, Brunak S, Lund O
    Bioinformatics, 12;20, 1388-97, 2004
    PubMed

2003

    Selecting Informative Data for Developing Peptide-MHC Binding Predictors Using a Query by Committee Approach
    Christensen JK, Lamberth K, Nielsen M, Lundegaard C, Worning P, Lauemøller SL, Buus S, Brunak S, Lund O
    Neural Computation, 15, 2931-42, 2003
    PubMed
    Reliable prediction of T-cell epitopes using neural networks with novel sequence representations
    Nielsen M, Lundegaard C, Worning P, Lauemøller SL, Lamberth K, Buus S, Brunak S, Lund O
    Protein Science, 12, 1007-17, 2003
    PubMed

2002

    Web-based Tools for Vaccine Design
    Lund O, Nielsen M, Kesmir C, Christensen JK, Lundegaard C, Worning P, Brunak S
    HIV Molecular Immunology, pp. 45-51, 2002

2000

    Prediction of protein secondary structure at 80% accuracy
    Petersen TN, Lundegaard C, Nielsen M, Bohr H, Brunak S, Gippert GP, Lund O
    Proteins, 41, 17-20, 2000
    PubMed

1999

    MatrixPlot: visualizing sequence constraints
    Gorodkin J, Stærfeldt HH, Lund O, Brunak S
    Bioinformatics, 15 769-770, 1999
    PubMed
    Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints
    Gorodkin J, Lund O, Andersen CA, Brunak S
    Proceedings of the seventh international conference on Intelligent Systems for Molecular Biology (ISMB \'99), AAAI Press, 95-105, 1999
    PubMed

1998

    O-GLYCBASE Version 3.0 - A revised database of O-glycosylated proteins
    Hansen JE, Lund O, Nilsson J, Rapacki K, Brunak S
    Nucleic Acids Res., 26, 387-389, 1998
    PubMed
    NetOglyc: Prediction of mucin type O-glycosylation sites based on sequence context and surface accessibility
    Hansen JE, Lund O, Tolstrup N, Gooley AA, Williams KL, Brunak S
    Glycocon. J., 15, 115-130, 1998
    PubMed

1997

    Protein distance constraints predicted by neural networks and probability density functions
    Lund O, Frimand K, Gorodkin J, Bohr H, Bohr J, Hansen J, Brunak S
    Protein Eng., 10, 1241-1248, 1997
    PubMed
    O-glycbase version 2.0 - A revised database of O-glycosylated proteins
    Hansen JE, Lund O, Rapacki K, Brunak S
    Nucl. Acids Res., 25, 278-282, 1997
    PubMed

1996

    Relationship between protein structure and geometrical constraints
    Lund O, Hansen J, Brunak S, Bohr J
    Protein Sci., 5, 2217-2225, 1996
    PubMed
    Distance distributions in proteins: A six parameter representation
    Reese MG, Lund O, Bohr J, Bohr H, Hansen JE, Brunak S
    Protein Eng., 9, 733-740, 1996
    PubMed
    Prediction of the secondary structure of HIV-1 gp120
    Hansen JE, Lund O, Nielsen JO, Brunak S, Hansen J-ES
    Proteins, 25, 1-11, 1996
    PubMed
    O-glycbase - A revised database of O-glycosylated proteins
    Hansen JE, Lund O, Nielsen JO, Hansen J-ES, Brunak S
    Nucleic Acids Res.24, 248-252, 1996

1995

    Increased adhesion as a mechanism of antibody-dependent and antibody-independent complement-mediated enhancement of human immunodeficiency virus infection
    Lund O, Hansen J, Sørensen AM, Mosekilde E, Nielsen JO, Hansen J-ES
    J. Virol., 69, 1995
    PubMed
    Prediction of O-glycosylation of mammalian proteins: Specificity patterns of UDP-GalNAc:-polypeptide N-acetylgalactosaminyltransferase
    Hansen JE, Lund O, Engelbrecht J, Bohr H, Nielsen JO, Hansen JES, Brunak S
    Biochem. J., 308, 801-813, 1995
    PubMed

1994

    Glycosylation and protein conformation
    Clausen H, Hansen JE, Lund O, Rapacki K, Clausen H, Mosekilde E, Nielsen JO, Hansen JES
    in Protein structure by distance analysis, H. Bohr and S. Brunak (eds.), 247-254, IOS Press & Ohmsha, 1994


Books

    Immunological Bioinformatics
    Lund O, Nielsen M, Lundegaard C, Kesmir C, Brunak S
    MIT Press, 312 pages, 2005
    Details

2013 (7) 2012 (6) 2011 (7) 2010 (18) 2009 (5) 2008 (11) 2007 and before (40) Books (1)