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2021
1 Akbar, Rahmad; Robert, Philippe Paul Auguste; Pavlović, Milena; Jeliazkov, Jeliazko R.; Snapkov, Igor; Slabodkin, Andrei; Weber, Cédric R.; Scheffer, Lonneke; Miho, Enkelejda; Haff, Ingrid Hobæk; Haug, Dag Trygve Truslew; Lund-Johansen, Fridtjof; Safonova, Yana; Sandve, Geir Kjetil Ferkingstad; Greiff, Victor.
A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding. Cell reports 2021 ;Volum 34:108856.(11) s. 1-21
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2 Arnaout, Ramy; Luning Prak, Eline T.; Schwab, Nicholas; Snapkov, Igor; Arora, Rohit; Bashford-Rogers, Rachael; Breden, Felix; Bukhari, Syed Ahmad Chan; Corrie, Brian; Cowell, Lindsay G.; Efroni, Sol; Gooley, Christopher; Greiff, Victor; Heiden, Jason Vander; Koguchi, Yoshinobu; Langerak, Ton; Soon Lim, Thean; Mariotti-Ferrandiz, Encarnita; Marquez, Susanna; Meysman, Pieter; Miho, Enkelejda; Motwani, Keshav; Nouri, Nima; Pavlović, Milena; Sandve, Geir Kjetil Ferkingstad; Soto, Cinque; Stervbo, Ulrik; Truck, Johannes; van den Ham, Henk-Jan; Watson, Corey; Weber, Cédric R.; Rubelt, Florian.
The Future of Blood Testing Is the Immunome. Frontiers in Immunology 2021
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3 Greiff, Victor.
immuneML: an ecosystem for machine learning analysis of adaptive immune receptor repertoires. BioRxiv 2021
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4 Greiff, Victor.
In silico proof of principle of machine learning-based antibody design at unconstrained scale. BioRxiv 2021
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5 Greiff, Victor.
One billion synthetic 3D-antibody-antigen complexes enable unconstrained machine-learning formalized investigation of antibody specificity prediction. BioRxiv 2021
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6 Greiff, Victor.
Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification. BioRxiv 2021
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7 Laustsen, Andreas H.; Greiff, Victor; Karatt-Vellatt, Aneesh; Muyldermans, Serge; Jenkins, Timothy P..
Animal Immunization, in Vitro Display Technologies, and Machine Learning for Antibody Discovery. Trends in Biotechnology 2021 s. 1-11
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8 Mester, Simone; Evers, Mitchell; Meyer, Saskia; Nilsen, Jeannette; Greiff, Victor; Sandlie, Inger; Leusen, Jeanette; Andersen, Jan Terje.
Extended plasma half-life of albumin-binding domain fused human IgA upon pH-dependent albumin engagement of human FcRn in vitro and in vivo. mAbs 2021 ;Volum 13.(1) s. -
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9 Öjlert, Åsa Kristina; Nebdal, Daniel; Snapkov, Igor; Olsen, Vibeke; Kidman, Joel; Greiff, Victor; Chee, Jonathan; Helland, Åslaug.
Dynamic changes in the T cell receptor repertoire during treatment with radiotherapy combined with an immune checkpoint inhibitor. Molecular Oncology 2021 s. 1-11
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10 Snapkov, Igor; Chernigovskaya, Maria; Sinitcyn, Pavel; Lê Quý, Khang; Nyman, Tuula Anneli; Greiff, Victor.
Progress and challenges in mass spectrometry-based analysis of antibody repertoires. Trends in Biotechnology 2021
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2020
11 Amoriello, Roberta; Greiff, Victor; Aldinucci, Alessandra; Bonechi, Elena; Carnasciali, Alberto; Peruzzi, Benedetta; Repice, Anna Maria; Mariottini, Alice; Saccardi, Riccardo; Mazzanti, Benedetta; Massacesi, Luca; Ballerini, Clara.
The TCR Repertoire Reconstitution in Multiple Sclerosis: Comparing One-Shot and Continuous Immunosuppressive Therapies. Frontiers in Immunology 2020 ;Volum 11:559. s. 1-19
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12 Fallet, Bénédict; Hao, Yi; Florova, Marianna; Cornille, Karen; de los Aires, Alba Verge; Girelli Zubani, Giulia; Ertuna, Yusuf I.; Greiff, Victor; Menzel, Ulrike; Hammad, Karim; Merkler, Doron; Reddy, Sai T.; Weill, Jean-Claude; Reynaud, Claude-Agnès; Pinschewer, Daniel D..
Chronic viral infection promotes efficient germinal center B cell responses. Cell reports 2020 ;Volum 30.(4) s. 1013-1026
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13 Greiff, Victor; Yaari, Gur; Cowell, Lindsay G..
Mining adaptive immune receptor repertoires for biological and clinical information using machine learning. Current Opinion in Systems Biology 2020 ;Volum 24. s. 109-119
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14 Kräutler, Nike Julia; Yermanos, Alexander; Pedrioli, Alessandro; Welten, Suzanne P.M.; Lorgé, Dominique; Greczmiel, Ute; Bartsch, Ilka; Scheuermann, Jörg; Kiefer, Jonathan D.; Eyer, Klaus; Menzel, Ulrike; Greiff, Victor; Neri, Dario; Stadler, Tanja; Reddy, Sai T.; Oxenius, Annette.
Quantitative and Qualitative Analysis of Humoral Immunity Reveals Continued and Personalized Evolution in Chronic Viral Infection. Cell reports 2020 ;Volum 30.(4) s. 997-1012
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15 Li, Hai; Limenitakis, Julien P.; Greiff, Victor; Yilmaz, Bahtiyar; Schären, Olivier; Urbaniak, Camilla; Zünd, Mirjam; Lawson, Melissa A. E.; Young, Ian D.; Rupp, Sandra; Heikenwalder, Mathias; McCoy, Kathy D.; Hapfelmeier, Siegfried; Ganal-Vonarburg, Stephanie C.; Macpherson, Andrew J..
Mucosal or systemic microbiota exposures shape the B cell repertoire. Nature 2020 ;Volum 584.(7820) s. 274-278
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16 Smakaj, Erand; Babrak, Lmar; Ohlin, Mats; Shugay, Mikhail; Briney, Bryan; Tosoni, Deniz; Galli, Christopher; Grobelsek, Vendi; D'Angelo, Igor; Olson, Branden; Reddy, Sai T.; Greiff, Victor; Truck, Johannes; Marquez, Susanna; Lees, William D.; Miho, Enkelejda.
Benchmarking immunoinformatic tools for the analysis of antibody repertoire sequences. Bioinformatics 2020 ;Volum 36.(6) s. 1731-1739
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17 Weber, Cédric R.; Akbar, Rahmad; Yermanos, Alexander; Pavlovic, Milena; Snapkov, Igor; Sandve, Geir Kjetil; Reddy, Sai T.; Greiff, Victor.
immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking. Bioinformatics 2020 ;Volum 36.(11) s. 3594-3596
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18 Yermanos, Alexander; Dounas, Andreas; Greiff, Victor; Stadler, Tanja; Oxenius, Annette; Reddy, Sai T..
Inter- and intraspecies comparison of phylogenetic fingerprints and sequence diversity of immunoglobulin variable genes. Immunogenetics 2020 ;Volum 72.(5) s. 279-294
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19 Yermanos, Alexander; Kräutler, Nike Julia; Pedrioli, Alessandro; Menzel, Ulrike; Greiff, Victor; Stadler, Tanja; Oxenius, Annette; Reddy, Sai T..
IgM Antibody Repertoire Fingerprints in Mice Are Personalized but Robust to Viral Infection Status. Frontiers in Cellular and Infection Microbiology 2020 ;Volum 10:254. s. 1-13
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2019
20 Bartolomé Casado, Raquel; Landsverk, Ole J. B.; Chauhan, Sudhir Kumar; Richter, Lisa Maria; Phung, Danh; Greiff, Victor; Risnes, Louise Fremgaard; Yao, Ying; Neumann, Ralf Stefan; Yaqub, Sheraz; Øyen, Ole; Horneland, Rune; Aandahl, Einar Martin; Paulsen, Vemund; Sollid, Ludvig Magne; Qiao, Shuo Wang; Bækkevold, Espen Sønderaal; Jahnsen, Frode Lars.
Resident memory CD8 T cells persist for years in human small intestine. Journal of Experimental Medicine (JEM) 2019 ;Volum 216.(10) s. 2412-2426
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21 Brown, Alex; Snapkov, Igor; Akbar, Rahmad; Pavlovic, Milena; Miho, Enkelejda; Sandve, Geir Kjetil; Greiff, Victor.
Augmenting adaptive immunity: progress and challenges in the quantitative engineering and analysis of adaptive immune receptor repertoires. Molecular Systems Design & Engineering 2019 ;Volum 4.(4) s. 701-736
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22 Miho, Enkelejda; Roskar, Rok; Greiff, Victor; Reddy, Sai T..
Large-scale network analysis reveals the sequence space architecture of antibody repertoires. Nature Communications 2019 ;Volum 10.(1)
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23 Ohlin, Mats; Scheepers, Cathrine; Corcoran, Martin; Lees, William D.; Busse, Christian E.; Bagnara, Davide; Thörnqvist, Linnea; Bürckert, Jean-Philippe; Jackson, Katherine J.L.; Ralph, Duncan; Schramm, Chaim A.; Marthandan, Nishanth; Breden, Felix; Scott, Jamie; Matsen, Frederick A.; Greiff, Victor; Yaari, Gur; Kleinstein, Steven H.; Christley, Scott; Sherkow, Jacob S.; Kossida, Sofia; Lefranc, Marie-Paule; van Zelm, Menno C.; Watson, Corey T.; Collins, Andrew M..
Inferred allelic variants of immunoglobulin receptor genes: A system for their evaluation, documentation, and naming. Frontiers in Immunology 2019 ;Volum 10:435. s. 1-13
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24 Tomescu-Baciu, Alina; Johansen, Jorunn; Holmøy, Trygve; Greiff, Victor; Stensland, Maria; De Souza, Gustavo Antonio; Vartdal, Frode; Lossius, Peter Andreas Vold.
Persistence of intrathecal oligoclonal B cells and IgG in multiple sclerosis. Journal of Neuroimmunology 2019 ;Volum 333:576966. s. 1-7
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2018
25 Mason, Derek M; Weber, Cédric R.; Parola, Cristina; Meng, Simon M; Greiff, Victor; Kelton, William; Reddy, Sai T..
High-throughput antibody engineering in mammalian cells by CRISPR/Cas9-mediated homology-directed mutagenesis. Nucleic Acids Research (NAR) 2018 ;Volum 46.(14) s. 7436-7449
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26 Miho, Enkelejda; Yermanos, Alexander; Weber, Cédric R.; Berger, Christoph T; Reddy, Sai T.; Greiff, Victor.
Computational Strategies for Dissecting the High-Dimensional Complexity of Adaptive Immune Repertoires. Frontiers in Immunology 2018 ;Volum 9: 224. s. 1-15
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2017
27 Yermanos, Alexander; Greiff, Victor; Krautler, Nike Julia; Menzel, Ulrike; Dounas, Andreas; Miho, Enkelejda; Oxenius, Annette; Stadler, Tanja; Reddy, Sai T..
Comparison of methods for phylogenetic B-cell lineage inference using time-resolved antibody repertoire simulations (AbSim). Bioinformatics 2017
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