Ole Lund

  1. 2014
  2. Published
  3. Published
  4. Published

    Evaluation of whole genome sequencing for outbreak detection of Salmonella enterica. / Leekitcharoenphon, Pimlapas; Nielsen, Eva M.; Kaas, Rolf Sommer; Lund, Ole; Aarestrup, Frank Møller.

    In: P L o S One, Vol. 9, No. 2, e87991, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  5. E-pub ahead of print

    In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing. / Carattoli, Alessandra; Zankari, Ea; García-Fernández, Aurora; Larsen, Mette Voldby; Lund, Ole; Villa, Laura; Aarestrup, Frank Møller; Hasman, Henrik.

    In: Antimicrobial Agents and Chemotherapy, Vol. 58, No. 7, 2014, p. 3895-3903.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  6. Published

    Multiparametric Bioinformatics Distinguish the CD4/CD8 Ratio as a Suitable Laboratory Predictor of Combined T Cell Pathogenesis in HIV Infection. / Buggert, Marcus; Frederiksen, Juliet Wairimu; Noyan, Kajsa; Svärd, Jenny; Barqasho, Babilonia; Sönnerborg, Anders; Lund, Ole; Nowak, Piotr; Karlsson, Annika C.

    In: Journal of Immunology, Vol. 192, No. 5, 2014, p. 2099-2108.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  7. Published
  8. Published
  9. 2013
  10. Published

    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.

    Antigen Processing : Methods and Protocols. 2013. p. 247-260 (Methods in Molecular Biology, Vol. 960).

    Publication: Research - peer-reviewBook chapter – Annual report year: 2013

  11. Published
  12. Published

    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, Edita; Rasmussen, Michael; Blicher, Thomas; Lund, Ole; Buus, S.; Nielsen, Morten Munch.

    In: Immunogenetics, Vol. 65, No. 10, 2013, p. 711-724.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  13. Published

    Epitope prediction methods. / Karosiene, Edita; Nielsen, Morten (Main supervisor); Lund, Ole (Supervisor).

    Kgs. Lyngby : Technical University of Denmark, 2013. 127 p.

    Publication: ResearchPh.D. thesis – Annual report year: 2013

  14. Published

    Evaluation of peptide selection approaches for epitope‐based vaccine design. / Schubert, B.; Lund, Ole; Nielsen, Morten.

    In: Tissue Antigens, Vol. 82, No. 4, 2013, p. 243–251.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  15. Published
  16. Published

    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: Biology of Blood and Marrow Transplantation, Vol. 19, No. 2, 2013, p. S335.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2013

  17. Published

    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: Scandinavian Journal of Immunology, Vol. 77, No. 4, 2013, p. 317-318.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2013

  18. Published

    Low-Bandwidth and Non-Compute Intensive Remote Identification of Microbes from Raw Sequencing Reads. / Gautier, Laurent; Lund, Ole.

    In: P L o S One, Vol. 8, No. 12, e83784, 2013.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  19. Published

    MHCcluster, a method for functional clustering of MHC molecules. / Thomsen, Martin Christen Frølund; Lundegaard, Claus; Buus, Søren; Lund, Ole; Nielsen, Morten.

    In: Immunogenetics, Vol. 65, No. 9, 2013, p. 655-665.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  20. Published

    NetFCM: A Tool for Automated Flow Cytometric Data Analysis. / Frederiksen, Juliet Wairimu; Lund, Ole; Buggert, M.; Karlsson, A.

    In: Scandinavian Journal of Immunology, Vol. 77, No. 44, 2013, p. 325.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2013

  21. Published

    PathogenFinder - Distinguishing Friend from Foe Using Bacterial Whole Genome Sequence Data.. / Cosentino, Salvatore; Larsen, Mette Voldby; Aarestrup, Frank Møller; Lund, Ole.

    In: PloS one., Vol. 8, No. 10, 2013, p. e77302.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  22. Published

    Real-Time WGS-based Typing of VTEC Isolates for Surveillance and Outbreak Detection. / Joensen, Katrine Grimstrup; Hasman, Henrik; Scheutz, F.; Nielsen, E. M.; Lund, Ole; Aarestrup, Frank Møller.

    10th International Meeting on Microbial Epidemiological Markers (IMMEM-10) - Abstract Book. Paris, France, 2013. p. 209.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2013

  23. Published

    SigniSite: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments. / Jessen, Leon Ivar; Hoof, Ilka; Lund, Ole; Nielsen, Morten.

    In: Nucleic Acids Research, Vol. 41, No. W1, 2013, p. 20W286-W291.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  24. Published

    Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach. / Andreatta, Massimo; Lund, Ole; Nielsen, Morten.

    In: Bioinformatics, Vol. 29, No. 1, 2013, p. 8-14.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  25. Published

    Structural analysis of B-cell epitopes in antibody:protein complexes. / Kringelum, Jens Vindahl; Nielsen, Morten; Padkjær, Søren Berg; Lund, Ole.

    In: Molecular Immunology, Vol. 53, No. 1-2, 2013, p. 24-34.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  26. Published

    Targeting of conserved gag-epitopes in early HIV infection is associated with lower plasma viral load and slower CD4+ T cell depletion.. / Perez, Carina L. ; Milush, Jeffrey M. ; Buggert, Marcus; Eriksson, Emily M. ; Larsen, Mette Voldby; Liegler, Teri; Hartogensis, Wendy; Bacchetti, Peter; Lund, Ole; Hecht, Frederick M. ; Nixon, Douglas F. ; Karlsson, Annika C. .

    In: AIDS Research and Human Retroviruses, Vol. 29, No. 3, 2013, p. 602-612.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  27. Published

    VAR2CSA Epitope Identification - Finding All the Needles in All the Haystacks. / Jessen, L. E.; Ditlev, S. B.; Schafer-Nielsen, C.; Buus, S.; Salanti, A.; Lund, Ole.

    In: Scandinavian Journal of Immunology, Vol. 77, No. 4, 2013, p. 318-319.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2013

  28. 2012
  29. Published

    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: P L o S One, Vol. 7, No. 7, 2012.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  30. Published

    Concepts in Mechanism Based Modeling. / Lund, Ole; Laugesen, Jakob Lund; Mosekilde, Erik.

    Biosimulation in Biomedical Research, Health Care and Drug Development. Springer, 2012. p. 19-41.

    Publication: Research - peer-reviewBook chapter – Annual report year: 2012

  31. Published

    Discovering sequence motifs in quantitative and qualitative pepetide data. / Andreatta, Massimo; Nielsen, Morten (Supervisor); Lund, Ole (Main supervisor).

    Kgs. Lyngby : Technical University of Denmark, 2012. 105 p.

    Publication: ResearchPh.D. thesis – Annual report year: 2012

  32. Published
  33. Published

    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: Scandinavian Journal of Immunology, Vol. 76, No. 2, 2012, p. 141-150.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  34. Published

    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: Nucleic Acids Research, Vol. 40, No. W1, 2012, p. W525-W530.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  35. Published
  36. Published

    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: Instituto Oswaldo Cruz, Rio de Janeiro. Memorias, Vol. 107, 2012, p. 112-123.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  37. Published

    NetMHCcons: a consensus method for the major histocompatibility complex class I predictions. / Karosiene, Edita; Lundegaard, Claus; Lund, Ole; Nielsen, Morten.

    In: Immunogenetics, Vol. 64, No. 3, 2012, p. 177-186.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  38. Published

    Predictions versus high-throughput experiments in T-cell epitope discovery: competition or synergy?. / Lundegaard, Claus; Lund, Ole; Nielsen, Morten.

    In: Expert Review of Vaccines, Vol. 11, No. 1, 2012, p. 43.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  39. Published

    Reliable B cell epitope predictions: impacts of method development and improved benchmarking.. / Kringelum, Jens Vindahl; Lundegaard, Claus; Lund, Ole; Nielsen, Morten.

    In: P L o S Computational Biology, Vol. 8, No. 12, 2012, p. e1002829.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  40. Published
  41. 2011
  42. Published

    An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia. / Rasmussen, Morten; Guo, Xiaosen; Wang, Yong; Lohmueller, Kirk E.; Rasmussen, Simon; Albrechtsen, Anders; Skotte, Line; Lindgreen, Stinus; Metspalu, Mait; Jombart, Thibaut; Kivisild, Toomas; Zhai, Weiwei; Eriksson, Anders; Manica, Andrea; Orlando, Ludovic; De La Vega, Francisco M.; Tridico, Silvana; Metspalu, Ene; Nielsen, Kasper; Ávila-Arcos, María C.; Moreno-Mayar, J. Víctor; Muller, Craig; Dortch, Joe; Gilbert, M. Thomas P.; Lund, Ole; Wesolowska, Agata; Karmin, Monika; Weinert, Lucy A.; Wang, Bo; Li, Jun; Tai, Shuaishuai; Xiao, Fei; Hanihara, Tsunehiko; van Driem, George; Jha, Aashish R.; Ricaut, François-Xavier; de Knijff, Peter; Migliano, Andrea B; Gallego Romero, Irene; Kristiansen, Karsten; Lambert, David M.; Brunak, Søren; Forster, Peter; Brinkmann, Bernd; Nehlich, Olaf; Bunce, Michael; Richards, Michael; Gupta, Ramneek; Bustamante, Carlos D.; Krogh, Anders; Foley, Robert A.; Lahr, Marta M.; Balloux, Francois; Sicheritz-Pontén, Thomas; Villems, Richard; Nielsen, Rasmus; Wang, Jun; Willerslev, Eske.

    In: Science, Vol. 334, No. 6052, 2011, p. 94-98.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  43. Published

    Bistability in autoimmune diseases. / Rapin, Nicolas; Mosekilde, Erik; Lund, Ole.

    In: Autoimmunity, Vol. 44, No. 4, 2011, p. 256-260.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  44. Published

    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 of Immunology, Vol. 186, No. 2, 2011, p. 1068-1080.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  45. Published

    Human Leukocyte Antigen (HLA) Class I Restricted Epitope Discovery in Yellow Fewer and Dengue Viruses: Importance of HLA Binding Strength.. / Lund, Ole; Nascimento, Eduardo J. M.; Maciel, Milton, Jr; Nielsen, Morten; Larsen, Mette Voldby; Lundegaard, Claus; Harndahl, Mikkel; Lamberth, Kasper; Buus, Søren; Salmon, Jérôme; August, Thomas J.; Marques, Ernesto T A, Jr.

    In: P L o S One, Vol. 6, No. 10, 2011, p. e26494.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  46. Published

    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: Immunology, Vol. 132, No. 4, 2011, p. 482-491.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  47. Published

    Immune system simulation online. / Rapin, Nicolas; Lund, Ole; Castiglione, Filippo.

    In: Bioinformatics, Vol. 27, No. 14, 2011, p. 2013-2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  48. Published

    Interdisciplinary Evaluation of Broadly-Reactive HLA Class II Restricted Epitopes Eliciting HIV-Specific CD4+T Cell Responses : Abstract of poster presentation. / Buggert, M.; Norström, M.; Lundegaard, Claus; Lund, Ole; Nielsen, Morten; Karlsson, A. C.

    In: AIDS RESEARCH AND HUMAN RETROVIRUSES, Vol. 27, No. 10, 2011, p. A88-A88.

    Publication: Research - peer-reviewConference article – Annual report year: 2011

  49. Published

    Machine learning competition in immunology – Prediction of HLA class I binding peptides. / Zhang, Guang Lan; Ansari, Hifzur Rahman; Bradley, Phil; Cawley, Gavin C.; Hertz, Tomer; Hu, Xihao; Jojic, Nebojsa; Kim, Yohan; Kohlbacher, Oliver; Lund, Ole; Lundegaard, Claus; Magaret, Craig A.; Nielsen, Morten; Papadopoulos, Harris; Raghava, G.P.S.; Tal, Vider-Shalit; Xue, Li C.; Yanover, Chen; Zhu, Shanfeng; Rock, Michael T.; Crowe, James E.; Panayiotou, Christos; Polycarpou, Marios M.; Duch, Włodzisław; Brusic, Vladimir.

    In: Journal of Immunological Methods, Vol. 374, No. 1-2, 2011, p. 1-4.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  50. Published

    MULTIPRED2: A computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles. / Zhang, Guang Lan; DeLuca, David S.; Keskin, Derin B.; Chitkushev, Lou; Zlateva, Tanya; Lund, Ole; Reinherz, Ellis L.; Brusic, Vladimir.

    In: Journal of Immunological Methods, Vol. 374, No. 1-2, 2011, p. 53-61.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  51. Published

    NNAlign: A Web-Based Prediction Method Allowing Non-Expert End-User Discovery of Sequence Motifs in Quantitative Peptide Data. / Andreatta, Massimo; Schafer-Nielsen, Claus; Lund, Ole; Buus, Søren; Nielsen, Morten.

    In: P L o S One, Vol. 6, No. 11, 2011, p. e26781.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  52. Published

    Porcine major histocompatibility complex (MHC) class I molecules and analysis of their peptide-binding specificities. / Pedersen, Lasse Eggers; Harndahl, Mikkel; Rasmussen, Michael; Lamberth, Kasper; Golde, William T.; Lund, Ole; Nielsen, Morten; Buus, Soren.

    In: Immunogenetics, Vol. 63, No. 12, 2011, p. 821-834.

    Publication: Research - peer-reviewJournal article – Annual report year: 2011

  53. Published

    Prediction of epitopes using neural network based methods. / Lundegaard, Claus; Lund, Ole; Nielsen, Morten.

    In: Journal of Immunological Methods, Vol. 374, No. 1-2, 2011, p. 26-34.

    Publication: Research - peer-reviewJournal article – Annual report year: 2010

  54. 2010
  55. Published

    Computational Immunology Meets Bioinformatics: The Use of Prediction Tools for Molecular Binding in the Simulation of the Immune System. / Rapin, N.; Lund, Ole; Bernaschi, M.; Castiglione, F.

    In: P L o S One, Vol. 5, No. 4, 2010.

    Publication: Research - peer-reviewJournal article – Annual report year: 2010

Previous 1 2 3 Next
Download list:
Download as PDF
Select render style:
APAAuthorCBEHarvardMLAStandardVancouverShortLong
PDF
Download as HTML
Select render style:
APAAuthorCBEHarvardMLAStandardVancouverShortLong
HTML
Download as Word
Select render style:
APAAuthorCBEHarvardMLAStandardVancouverShortLong
Word