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Reference-based comparison of adaptive immune receptor repertoires.
Weber CR, Rubio T, Wang L, Zhang W, Robert PA, Akbar R, Snapkov I, Wu J, Kuijjer ML, Tarazona S, Conesa A, Sandve GK, Liu X, Reddy ST, Greiff V. Weber CR, et al. Among authors: robert pa. Cell Rep Methods. 2022 Aug 22;2(8):100269. doi: 10.1016/j.crmeth.2022.100269. eCollection 2022 Aug 22. Cell Rep Methods. 2022. PMID: 36046619 Free PMC article.
Individualized VDJ recombination predisposes the available Ig sequence space.
Slabodkin A, Chernigovskaya M, Mikocziova I, Akbar R, Scheffer L, Pavlović M, Bashour H, Snapkov I, Mehta BB, Weber CR, Gutierrez-Marcos J, Sollid LM, Haff IH, Sandve GK, Robert PA, Greiff V. Slabodkin A, et al. Among authors: robert pa. Genome Res. 2021 Dec;31(12):2209-2224. doi: 10.1101/gr.275373.121. Epub 2021 Nov 23. Genome Res. 2021. PMID: 34815307 Free PMC article.
In silico proof of principle of machine learning-based antibody design at unconstrained scale.
Akbar R, Robert PA, Weber CR, Widrich M, Frank R, Pavlović M, Scheffer L, Chernigovskaya M, Snapkov I, Slabodkin A, Mehta BB, Miho E, Lund-Johansen F, Andersen JT, Hochreiter S, Hobæk Haff I, Klambauer G, Sandve GK, Greiff V. Akbar R, et al. Among authors: robert pa. MAbs. 2022 Jan-Dec;14(1):2031482. doi: 10.1080/19420862.2022.2031482. MAbs. 2022. PMID: 35377271 Free PMC article.
Toward real-world automated antibody design with combinatorial Bayesian optimization.
Khan A, Cowen-Rivers AI, Grosnit A, Deik DG, Robert PA, Greiff V, Smorodina E, Rawat P, Akbar R, Dreczkowski K, Tutunov R, Bou-Ammar D, Wang J, Storkey A, Bou-Ammar H. Khan A, et al. Among authors: robert pa. Cell Rep Methods. 2023 Jan 3;3(1):100374. doi: 10.1016/j.crmeth.2022.100374. eCollection 2023 Jan 23. Cell Rep Methods. 2023. PMID: 36814835 Free PMC article.
The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires.
Pavlović M, Scheffer L, Motwani K, Kanduri C, Kompova R, Vazov N, Waagan K, Bernal FLM, Costa AA, Corrie B, Akbar R, Al Hajj GS, Balaban G, Brusko TM, Chernigovskaya M, Christley S, Cowell LG, Frank R, Grytten I, Gundersen S, Haff IH, Hovig E, Hsieh PH, Klambauer G, Kuijjer ML, Lund-Andersen C, Martini A, Minotto T, Pensar J, Rand K, Riccardi E, Robert PA, Rocha A, Slabodkin A, Snapkov I, Sollid LM, Titov D, Weber CR, Widrich M, Yaari G, Greiff V, Sandve GK. Pavlović M, et al. Among authors: robert pa. Nat Mach Intell. 2021 Nov;3(11):936-944. doi: 10.1038/s42256-021-00413-z. Epub 2021 Nov 16. Nat Mach Intell. 2021. PMID: 37396030 Free PMC article.
Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for antibody specificity prediction.
Robert PA, Akbar R, Frank R, Pavlović M, Widrich M, Snapkov I, Slabodkin A, Chernigovskaya M, Scheffer L, Smorodina E, Rawat P, Mehta BB, Vu MH, Mathisen IF, Prósz A, Abram K, Olar A, Miho E, Haug DTT, Lund-Johansen F, Hochreiter S, Haff IH, Klambauer G, Sandve GK, Greiff V. Robert PA, et al. Nat Comput Sci. 2022 Dec;2(12):845-865. doi: 10.1038/s43588-022-00372-4. Epub 2022 Dec 19. Nat Comput Sci. 2022. PMID: 38177393
F-Actin-Driven CD28-CD80 Localization in the Immune Synapse.
Siokis A, Robert PA, Demetriou P, Dustin ML, Meyer-Hermann M. Siokis A, et al. Among authors: robert pa. Cell Rep. 2018 Jul 31;24(5):1151-1162. doi: 10.1016/j.celrep.2018.06.114. Cell Rep. 2018. PMID: 30067972 Free article.
43 results