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Platypus: an open-access software for integrating lymphocyte single-cell immune repertoires with transcriptomes.
Yermanos A, Agrafiotis A, Kuhn R, Robbiani D, Yates J, Papadopoulou C, Han J, Sandu I, Weber C, Bieberich F, Vazquez-Lombardi R, Dounas A, Neumeier D, Oxenius A, Reddy ST. Yermanos A, et al. Among authors: han j. NAR Genom Bioinform. 2021 Apr 14;3(2):lqab023. doi: 10.1093/nargab/lqab023. eCollection 2021 Jun. NAR Genom Bioinform. 2021. PMID: 33884369 Free PMC article.
Profiling the specificity of clonally expanded plasma cells during chronic viral infection by single-cell analysis.
Neumeier D, Pedrioli A, Genovese A, Sandu I, Ehling R, Hong KL, Papadopoulou C, Agrafiotis A, Kuhn R, Shlesinger D, Robbiani D, Han J, Hauri L, Csepregi L, Greiff V, Merkler D, Reddy ST, Oxenius A, Yermanos A. Neumeier D, et al. Among authors: han j. Eur J Immunol. 2022 Feb;52(2):297-311. doi: 10.1002/eji.202149331. Epub 2021 Nov 23. Eur J Immunol. 2022. PMID: 34727578 Free PMC article.
DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2.
Yermanos A, Hong KL, Agrafiotis A, Han J, Nadeau S, Valenzuela C, Azizoglu A, Ehling R, Gao B, Spahr M, Neumeier D, Chang CH, Dounas A, Petrillo E, Nissen I, Burcklen E, Feldkamp M, Beisel C, Oxenius A, Savic M, Stadler T, Rudolf F, Reddy ST. Yermanos A, et al. Among authors: han j. BMC Genomics. 2022 Apr 11;23(1):289. doi: 10.1186/s12864-022-08403-0. BMC Genomics. 2022. PMID: 35410128 Free PMC article.
ePlatypus: an ecosystem for computational analysis of immunogenomics data.
Cotet TS, Agrafiotis A, Kreiner V, Kuhn R, Shlesinger D, Manero-Carranza M, Khodaverdi K, Kladis E, Desideri Perea A, Maassen-Veeters D, Glänzer W, Massery S, Guerci L, Hong KL, Han J, Stiklioraitis K, D'Arcy VM, Dizerens R, Kilchenmann S, Stalder L, Nissen L, Vogelsanger B, Anzböck S, Laslo D, Bakker S, Kondorosy M, Venerito M, Sanz García A, Feller I, Oxenius A, Reddy ST, Yermanos A. Cotet TS, et al. Among authors: han j. Bioinformatics. 2023 Sep 2;39(9):btad553. doi: 10.1093/bioinformatics/btad553. Bioinformatics. 2023. PMID: 37682115 Free PMC article.
Learning what not to select for in antibody drug discovery.
Gao B, Han J, Reddy ST. Gao B, et al. Among authors: han j. Cell Rep Methods. 2022 Jul 18;2(7):100258. doi: 10.1016/j.crmeth.2022.100258. eCollection 2022 Jul 18. Cell Rep Methods. 2022. PMID: 35880020 Free PMC article.
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