Group publications

 

Publikationer rss feed

2021
 

Improved prediction of HLA antigen presentation hotspots: applications for immunogenicity risk assessment of therapeutic proteins

Attermann, Anders Steenholdt ; Barra, Carolina ; Reynisson, Birkir ; Schultz, Heidi Schiøler ; Leurs, Ulrike ; Lamberth, Kasper ; Nielsen, Morten
in: Immunology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1111/imm.13274

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TCRMatch: Predicting T-Cell Receptor Specificity Based on Sequence Similarity to Previously Characterized Receptors

D. Chronister, William ; Crinklaw, Austin ; Mahajan, Swapnil ; Vita, Randi ; Koşaloğlu-Yalçın, Zeynep ; Yan, Zhen ; A. Greenbaum, Jason ; Jessen, Leon E. ; Nielsen, Morten ; Christley, Scott ; G. Cowell, Lindsay ; Sette, Alessandro ; Peters, Bjoern
in: Frontiers in Immunology, vol: 12

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.3389/fimmu.2021.640725

2020
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A Systematic, Unbiased Mapping of CD8+ and CD4+ T Cell Epitopes in Yellow Fever Vaccinees

Stryhn, Anette ; Kongsgaard, Michael ; Rasmussen, Michael ; Harndahl, Mikkel Nors ; Østerbye, Thomas ; Bassi, Maria Rosaria ; Thybo, Søren ; Gabriel, Mette ; Hansen, Morten Bagge ; Nielsen, Morten ; Christensen, Jan Pravsgaard ; Randrup Thomsen, Allan ; Buus, Søren
in: Frontiers in Immunology, vol: 11

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.3389/fimmu.2020.01836

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Benchmarking predictions of MHC class I restricted T cell epitopes in a comprehensively studied model system

Paul, Sinu ; Croft, Nathan P. ; Purcell, Anthony W. ; Tscharke, David C. ; Sette, Alessandro ; Nielsen, Morten ; Peters, Bjoern
in: PLOS Computational Biology, vol: 16, issue: 5

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1371/journal.pcbi.1007757

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Evaluation of T-Cell Responses Against Shared Melanoma Associated Antigens and Predicted Neoantigens in Cutaneous Melanoma Patients Treated With the CSF-470 Allogeneic Cell Vaccine Plus BCG and GM-CSF

Podaza, Enrique ; Carri, Ibel ; Aris, Mariana ; von Euw, Erika ; Bravo, Alicia Inés ; Blanco, Paula ; Ortiz Wilczyñski, Juan Manuel ; Koile, Daniel ; Yankilevich, Patricio ; Nielsen, Morten ; Mordoh, José ; Barrio, María Marcela
in: Frontiers in Immunology, vol: 11

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.3389/fimmu.2020.01147

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Factors influencing the prevalence of resistance-associated substitutions in NS5A protein in treatment-naive patients with chronic hepatitis C

Kyuregyan, Karen K. ; Kichatova, Vera S. ; Karlsen, Anastasiya A. ; Isaeva, Olga V. ; Solonin, Sergei A. ; Petkov, Stefan ; Nielsen, Morten ; Isaguliants, Maria G. ; Mikhailov, Mikhail I.
in: Biomedicines, vol: 8, issue: 4

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.3390/biomedicines8040080

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HLA Class II Specificity Assessed by High-Density Peptide Microarray Interactions

Osterbye, Thomas ; Nielsen, Morten ; Dudek, Nadine L. ; Ramarathinam, Sri H. ; Purcell, Anthony W. ; Schafer-Nielsen, Claus ; Buus, Søren
in: Journal of Immunology, vol: 205, issue: 1, pages: 290-299

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.4049/jimmunol.2000224

 

Immunoinformatics: Predicting Peptide–MHC Binding

Nielsen, Morten ; Andreatta, Massimo ; Peters, Bjoern ; Buus, Søren
in: Annual Review of Biomedical Data Science, vol: 3, issue: 1, pages: 191-215

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1146/annurev-biodatasci-021920-100259

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Immunopeptidomic Data Integration to Artificial Neural Networks Enhances Protein-Drug Immunogenicity Prediction

Barra, Carolina ; Ackaert, Chloe ; Reynisson, Birkir ; Schockaert, Jana ; Jessen, Leon Eyrich ; Watson, Mark ; Jang, Anne ; Comtois-Marotte, Simon ; Goulet, Jean-Philippe ; Pattijn, Sofie ; Paramithiotis, Eustache ; Nielsen, Morten
in: Frontiers in Immunology, vol: 11

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.3389/fimmu.2020.01304

 

Improved Prediction of MHC II Antigen Presentation through Integration and Motif Deconvolution of Mass Spectrometry MHC Eluted Ligand Data

Reynisson, Birkir ; Barra, Carolina ; Kaabinejadian, Saghar ; Hildebrand, William H. ; Peters, Bjoern ; Nielsen, Morten
in: Journal of Proteome Research, vol: 19, issue: 6, pages: 2304-2315

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1021/acs.jproteome.9b00874