Immunoinformatics and Machine Learning

  • Ørsteds Plads, Building 345C

    DK-2800 Kgs. Lyngby

    Denmark

Research Output 2019 2020

  • 10 Journal article
  • 1 Ph.D. thesis
  • 1 Book chapter
  • 1 Conference abstract in journal
2020
6 Downloads (Pure)

Identification of emulsifier potato peptides by bioinformatics: application to omega-3 delivery emulsions and release from potato industry side streams

García Moreno, P. J., Gregersen, S., Nedamani, E. R., Olsen, T. H., Marcatili, P., Overgaard, M. T., Andersen, M. L., Hansen, E. B. & Jacobsen, C., 2020, In : Scientific Reports. 10, 1, 22 p., 690.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2019
22 Downloads (Pure)

Benchmark datasets of immune receptor-epitope structural complexes

Mahajan, S., Yan, Z., Jespersen, M. C., Jensen, K. K., Marcatili, P., Nielsen, M., Sette, A. & Peters, B., 2019, In : BMC Bioinformatics. 20, 1, 7 p., 490.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
7 Downloads (Pure)

Characterization of Antigenic MHC-Class-I-Restricted T Cell Epitopes in the Glycoprotein of Ebolavirus

Powlson, J., Wright, D., Zeltina, A., Giza, M., Nielsen, M., Rampling, T., Venkatrakaman, N., Bowden, T. A., Hill, A. V. S. & Ewer, K. J., 2019, In : Cell Reports. 29, 9, p. 2537-2545.e3

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File

Dissecting the T cell receptor interactions governing recognition of peptide-MHC complexes

Bentzen, A. K., Such, L., Jensen, K. K., Marquard, A. M., Jessen, L. E., Miller, N. J., Church, C. D., Lyngaa, R. B., Koelle, D. M., Becker, J. C., Linnemann, C., Schumacher, T. N. M., Marcatili, P., Nghiem, P., Nielsen, M. & Hadrup, S. R., 2019, In : European Journal of Immunology. 49, Suppl. 3 SI, p. 1787-1787 O116.

Research output: Contribution to journalConference abstract in journalResearchpeer-review

Enhancing Mass Spectrometry-Based MHC-I Peptide Identification Through a Targeted Database Search Approach

Konda, P., Murphy, J. P., Nielsen, M. & Gujar, S., 2019, Immunoproteomics: Methods and protocols. Fulton, K. M. & Twine, S. M. (eds.). Springer, Vol. 2024. p. 301-307 7 p. (Methods in Molecular Biology).

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

32 Downloads (Pure)

IEDB-AR: immune epitope database-analysis resource in 2019

Dhanda, S. K., Mahajan, S., Paul, S., Yan, Z., Kim, H., Jespersen, M. C., Jurtz, V., Andreatta, M., Greenbaum, J. A., Marcatili, P., Sette, A., Nielsen, M. & Peters, B., 2019, In : Nucleic acids research. 47, 1, p. W502-W506

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
72 Downloads (Pure)

Immunoglobulin G structure and rheumatoid factor epitopes

Maibom-Thomsen, S. L., Trier, N. H., Holm, B. E., Hansen, K. B., Rasmussen, M. I., Chailyan, A., Marcatili, P., Højrup, P. & Houen, G., 2019, In : PLOS ONE. 14, 6, 28 p., e0217624.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File

Improved peptide-MHC class II interaction prediction through integration of eluted ligand and peptide affinity data

Garde, C., Ramarathinam, S. H., Jappe, E. C., Nielsen, M., Kringelum, J. V., Trolle, T. & Purcell, A. W., 2019, In : Immunogenetics. 71, 7, p. 445-454 10 p.

Research output: Contribution to journalJournal articleResearchpeer-review

45 Downloads (Pure)
Open Access
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NetSurfP-2.0: Improved prediction of protein structural features by integrated deep learning

Klausen, M. S., Jespersen, M. C., Nielsen, H., Jensen, K. K., Jurtz, V. I., Sønderby, C. K., Sommer, M. O. A., Winther, O., Nielsen, M., Petersen, B. & Marcatili, P., 2019, In : Proteins: Structure, Function, and Bioinformatics. 87, 6, p. 520-527 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
21 Downloads (Pure)

NNAlign_MA; MHC peptidome Deconvolution for Accurate MHC Binding Motif Characterization and Improved T-cell Epitope Predictions

Alvarez, B., Reynisson, B., Barra, C., Buus, S., Ternette, N., Connelley, T., Andreatta, M. & Nielsen, M., 2019, In : Molecular and Cellular Proteomics. 18, 12, p. 2459-2477

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
16 Downloads (Pure)

TCRpMHCmodels: Structural modelling of TCR-pMHC class I complexes

Jensen, K. K., Rantos, V., Jappe, E. C., Olsen, T. H., Jespersen, M. C., Jurtz, V. I., Jessen, L. E., Lanzarotti, E., Mahajan, S., Peters, B., Nielsen, M. & Marcatili, P., 2019, In : Scientific Reports. 9, 1, 12 p., 14530.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
58 Downloads (Pure)

TRAV1-2+ CD8+ T-cells including oligoconal expansions of MAIT cells are enriched in the airways in human tuberculosis

Wong, E. B., Gold, M. C., Meermeier, E. W., Xulu, B. Z., Khuzwayo, S., Sullivan, Z. A., Mahyari, E., Rogers, Z., Kløverpris, H., Sharma, P. K., Worley, A. H., Lalloo, U., Baijnath, P., Ambaram, A., Naidoo, L., Suleman, M., Madansein, R., McLaren, J. E., Ladell, K., Miners, K. L. & 8 others, Price, D. A., Behar, S. M., Nielsen, M., Kasprowicz, V. O., Leslie, A., Bishai, W. R., Ndung'u, T. & Lewinsohn, D. M., 2019, In : Communications Biology. 2, 13 p., 203.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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