Structural analysis of B-cell epitopes in antibody:protein complexes

Kringelum, Jens Vindahl ; Nielsen, Morten ; Padkjær, Søren Berg ; Lund, Ole

in journal: Molecular Immunology (ISSN: 0161-5890) (DOI: http://dx.doi.org/10.1016/j.molimm.2012.06.001), vol: 53, issue: 1-2, pages: 24-34, 2013

Type: Journal article - Journal article

DOI: 10.1016/j.molimm.2012.06.001

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

Zankari, Ea ; Hasman, Henrik ; Kaas, Rolf Sommer ; Seyfarth, Anne Mette ; Agersø, Yvonne ; Lund, Ole ; Larsen, Mette Voldby ; Aarestrup, Frank Møller

in journal: Journal of Antimicrobial Chemotherapy (ISSN: 0305-7453) (DOI: http://dx.doi.org/10.1093/jac/dks496), vol: 68, issue: 4, pages: 771-777, 2013

Type: Journal article - Journal article

DOI: 10.1093/jac/dks496

ChemProt-2.0: visual navigation in a disease chemical biology database

Kjærulff, Sonny Kim ; Wich, Louis ; Kringelum, Jens Vindahl ; Jacobsen, Ulrik Plesner ; Kouskoumvekaki, Irene ; Audouze, Karine Marie Laure ; Lund, Ole ; Brunak, Søren ; Oprea, Tudor ; Taboureau, Olivier

in journal: Nucleic Acids Research (ISSN: 0305-1048) (DOI: http://dx.doi.org/10.1093/nar/gks1166), vol: 41, issue: D1, pages: D464-D469, 2013

Type: Journal article - Journal article

DOI: 10.1093/nar/gks1166

Identification of Y-Chromosomally Encoded Minor Histocompatibility Antigens Using a Reverse Immunology Approach

Mortensen, Bo Kok ; Brændstrup, Peter ; Larsen, Malene Erup ; Larsen, Mette Voldby ; Lund, Ole ; Rasmussen, Michael ; Buus, Søren ; Stryhn, Anette ; Vindeløv, Lars

in journal: Biology of Blood and Marrow Transplantation (ISSN: 1083-8791) (DOI: http://dx.doi.org/10.1016/j.bbmt.2012.11.511), vol: 19, issue: 2, pages: S335, 2013

Type: Conference abstract in journal - Conference abstract in journal

Presented at: 2013 BMT Tandem Meetings, Salt Lake City, Utah

DOI: 10.1016/j.bbmt.2012.11.511

Bioinformatics Identification of Antigenic Peptide: Predicting the Specificity of Major MHC Class I and II Pathway Players.

Lund, Ole ; Karosiene, Edita ; Lundegaard, Claus ; Larsen, Mette Voldby ; Nielsen, Morten

part of: Antigen Processing (ISBN: 978-1-62703-217-9), pages: 247-260, 2013,

Type: Book chapter - Book chapter

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

Karosiene, Edita ; Lundegaard, Claus ; Lund, Ole ; Nielsen, Morten

in journal: Immunogenetics (ISSN: 0093-7711) (DOI: http://dx.doi.org/10.1007/s00251-011-0579-8), vol: 64, issue: 3, pages: 177-186, 2012

Type: Journal article - Journal article

DOI: 10.1007/s00251-011-0579-8

Predictions versus high-throughput experiments in T-cell epitope discovery: competition or synergy?

Lundegaard, Claus ; Lund, Ole ; Nielsen, Morten

in journal: Expert Review of Vaccines (ISSN: 1476-0584) (DOI: http://dx.doi.org/10.1586/erv.11.160), vol: 11, issue: 1, pages: 43, 2012

Type: Journal article - Journal article

DOI: 10.1586/erv.11.160

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

Larsen, Mette Voldby ; Cosentino, Salvatore ; Rasmussen, Simon ; Rundsten, Carsten Friis ; Hasman, Henrik ; Marvig, Rasmus Lykke ; Jelsbak, Lars ; Sicheritz-Pontén, Thomas ; Ussery, David ; Aarestrup, Frank Møller ; Lund, Ole

in journal: Journal of Clinical Microbiology (ISSN: 0095-1137) (DOI: http://dx.doi.org/10.1128/JCM.06094-11), vol: 50, issue: 4, pages: 1355-1361, 2012

Type: Journal article - Journal article

DOI: 10.1128/JCM.06094-11

Identification of a Novel UTY‐Encoded Minor Histocompatibility Antigen

Mortensen, B. K. ; Rasmussen, A. H. ; Larsen, Malene Erup ; Larsen, Mette Voldby ; Lund, Ole ; Braendstrup, P. ; Harndahl, Mikkel Nors ; Rasmussen, M. ; Buus, S. ; Stryhn, A. ; Vindeløv, Lars

in journal: Scandinavian Journal of Immunology (ISSN: 0300-9475) (DOI: http://dx.doi.org/10.1111/j.1365-3083.2012.02708.x), vol: 76, issue: 2, pages: 141-150, 2012

Type: Journal article - Journal article

DOI: 10.1111/j.1365-3083.2012.02708.x

Characterization of HIV-Specific CD4+T Cell Responses against Peptides Selected with Broad Population and Pathogen Coverage

Buggert, Marcus ; Norstrom, Melissa M. ; Czarnecki, Chris ; Tupin, Emmanuel ; Luo, Ma ; Gyllensten, Katarina ; Sonnerborg, Anders ; Lundegaard, Claus ; Lund, Ole ; Nielsen, Morten ; Karlsson, Annika C.

in journal: P L o S One (ISSN: 1932-6203) (DOI: http://dx.doi.org/10.1371/journal.pone.0039874), vol: 7, issue: 7, 2012

Type: Journal article - Journal article

DOI: 10.1371/journal.pone.0039874

Identification of acquired antimicrobial resistance genes

Zankari, Ea ; Hasman, Henrik ; Cosentino, Salvatore ; Vestergaard, Martin ; Rasmussen, Simon ; Lund, Ole ; Aarestrup, Frank Møller ; Larsen, Mette Voldby

in journal: Journal of Antimicrobial Chemotherapy (ISSN: 0305-7453) (DOI: http://dx.doi.org/10.1093/jac/dks261), vol: 67, issue: 11, pages: 2640-2644, 2012

Type: Journal article - Journal article

DOI: 10.1093/jac/dks261

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

Stranzl, Thomas ; Larsen, Mette Voldby ; Lund, Ole ; Nielsen, Morten ; Brunak, Søren

in journal: P L o S One (ISSN: 1932-6203), vol: 7, issue: 9, pages: e38670, 2012

Type: Journal article - Journal article

Targeting of conserved Gag-epitopes in early HIV infection is associated with lower plasma viral load and slower CD4+ T cell depletion

Pérez, Carina L, Dr. ; Milush, Jeffrey M, Dr. ; Buggert, Marcus, Dr. ; Eriksson, Emily, Dr. ; Larsen, Mette Voldby ; Liegler, Teri ; Hartogensis, Wendy, Dr. ; Bacchetti, Peter, Dr. ; Lund, Ole ; Hecht, Frederick, Dr. ; Nixon, Douglas, Dr. ; Karlsson, Annika C, Dr.

in journal: AIDS Research and Human Retroviruses (ISSN: 0889-2229) (DOI: http://dx.doi.org/10.1089/AID.2012.0171), issue: ja, pages: 1-38, 2012

Type: Journal article - Journal article

DOI: 10.1089/AID.2012.0171

Immune epitope database analysis resource

Kim, Yohan ; Ponomarenko, Julia ; Zhu, Zhanyang ; Tamang, Dorjee ; Wang, Peng ; Greenbaum, Jason ; Lundegaard, Claus ; Sette, Alessandro ; Lund, Ole ; Bourne, Philip E. ; Nielsen, Morten ; Peters, Bjoern

in journal: Nucleic Acids Research (ISSN: 0305-1048) (DOI: http://dx.doi.org/10.1093/nar/gks438), vol: 40, issue: W1, pages: W525-W530, 2012

Type: Journal article - Journal article

DOI: 10.1093/nar/gks438

Concepts in Mechanism Based Modeling

Lund, Ole ; Laugesen, Jakob Lund ; Mosekilde, Erik

part of: Biosimulation in Biomedical Research, Health Care and Drug Development (ISBN: 978-3-7091-0418-7), pages: 19-41, 2012, Springer-Verlag/Wien,

Type: Book chapter - Book chapter

DOI: 10.1007/978-3-7091-0418-7_2

Reliable B cell epitope predictions: impacts of method development and improved benchmarking.

Kringelum, Jens Vindahl ; Lundegaard, Claus ; Lund, Ole ; Nielsen, Morten

in journal: P L o S Computational Biology (ISSN: 1553-734X), vol: 8, issue: 12, pages: e1002829, 2012

Type: Journal article - Journal article

Mycobacterium leprae virulence-associated peptides are indicators of exposure to M. leprae in Brazil, Ethiopia and Nepal

Bobosha, Kidist ; Tang, Sheila Tuyet ; van der Ploeg-van Schip, Jolien J. ; Bekele, Yonas ; Martins, Marcia V. S. B. ; Lund, Ole ; Franken, Kees L. M. C. ; Khadge, Saraswoti ; de Andrade Pontes, Maria Araci ; Goncalves, Heitor de Sa ; Hussien, Jemal ; Thapa, Pratibha ; Kunwar, Chhatra B. ; Hagge, Deanna A. ; Aseffa, Abraham ; Vidal Pessolani, Maria Cristina ; Pereira, Geraldo M. B. ; Ottenhoff, Tom H. M. ; Geluk, Annemieke

in journal: Instituto Oswaldo Cruz, Rio de Janeiro. Memorias (ISSN: 0074-0276), vol: 107, pages: 112-123, 2012

Type: Journal article - Journal article

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

Tang, Sheila Tuyet ; van Meijgaarden, Krista E. ; Caccamo, Nadia ; Guggino, Giuliana ; Klein, Michel R. ; van Weeren, Pascale ; Kazi, Fatima ; Stryhn, Anette ; Zaigler, Alexander ; Sahin, Ugur ; Buus, Søren ; Dieli, Francesco ; Lund, Ole ; Ottenhoff, Tom H. M.

in journal: Journal of Immunology (ISSN: 0022-1767) (DOI: http://dx.doi.org/10.4049/jimmunol.1002212), vol: 186, issue: 2, pages: 1068-1080, 2011

Type: Journal article - Journal article

DOI: 10.4049/jimmunol.1002212

Bistability in autoimmune diseases

Rapin, Nicolas ; Mosekilde, Erik ; Lund, Ole

in journal: Autoimmunity (ISSN: 0891-6934) (DOI: http://dx.doi.org/10.3109/08916934.2010.523233), vol: 44, issue: 4, pages: 256-260, 2011

Type: Journal article - Journal article

DOI: 10.3109/08916934.2010.523233

Identification of MHC class II restricted T‐cell‐mediated reactivity against MHC class I binding Mycobacterium tuberculosis peptides

Wang, Mingjun ; Tang, Sheila Tuyet ; Stryhn, Anette ; Justesen, Sune ; Larsen, Mette Voldby ; Dziegiel, Morten H. ; Lewinsohn, David M. ; Buus, Søren ; Lund, Ole ; Claesson, Mogens H.

in journal: Immunology (ISSN: 0019-2805) (DOI: http://dx.doi.org/10.1111/j.1365-2567.2010.03383.x), vol: 132, issue: 4, pages: 482-491, 2011

Type: Journal article - Journal article

DOI: 10.1111/j.1365-2567.2010.03383.x