Journal Articles
LSSI Group members in bold, *equal contribution
2024
Roy A. Ehling, Mason Minot, Max D. Overath, Daniel J. Sheward, Jiami Han, Beichen Gao, Joseph M.
Taft, Margarita Pertseva, Cédric R. Weber, Lester Frei, Thomas Bikias, Ben Murrell and Sai T. Reddy (2024)
external pageSynthetic coevolution reveals adaptive mutational trajectories of neutralizing antibodies and SARS-CoV-2call_made
bioRxiv
Margarita Pertseva, Oceane Follonier, Daniele Scarcella, Sai T Reddy (2024)
external pageTCR clustering by contrastive learning on antigen specificitycall_made
bioRxiv
Rocio Castellanos-Rueda, Kai-Ling K. Wang, Juliette L. Forster, Alice Driessen, Jessica A. Frank, Maria Rodriguez Martinez, Sai T. Reddy (2024)
external pageDissecting the role of CAR signaling architectures on T cell activation and persistence using pooled screening and single-cell sequencingcall_made
bioRxiv
Edward B Irvine, Sai T. Reddy (2024)
external pageAdvancing Antibody Engineering through Synthetic Evolution and Machine Learningcall_made
The Journal of Immunology
Mason Minot, Sai T. Reddy (2024)
external pageMeta learning addresses noisy and under-labeled data in machine learning-guided antibody engineeringcall_made
Cell Systems
2023
Lester Frei, Beichen Gao, Jiami Han, Joseph M. Taft, Edward B. Irvine, Cédric R. Weber, Rachita K. Kumar, Benedikt N. Eisinger, Sai T. Reddy (2023)
external pageDeep learning-guided selection of antibody therapies with enhanced resistance to current and prospective SARS-CoV-2 Omicron variantscall_made
Preprint available on bioRxiv.
Florian Bieberich, Rodrigo Vazquez-Lombardi, Huixin Jin, Kai-Lin Hong, Petra Herzig, Marcel Trefny, Marta Trüb, Heinz Läubli, Didier Lardinois, Kirsten Mertz, Matthias S. Matter, Alfred Zippelius and Sai T. Reddy (2023)
external pageMultimodal single-cell profiling of T cell specificity and reactivity in lung cancercall_made
Preprint available on bioRxiv.
Tudor-Stefan Cotet, Andreas Agrafiotis, Victor Kreiner, Raphael Kuhn, Danielle Shlesinger, Marcos Manero-Carranza, Keywan Khodaverdi, Evgenios Kladis, Aurora Desideri Perea, Dylan Maassen-Veeters, Wiona Glänzer, Solène Massery, Lorenzo Guerci, Kai-Lin Hong, Jiami Han, Kostas Stiklioraitis, Vittoria Martinolli D’Arcy, Raphael Dizerens, Samuel Kilchenmann, Lucas Stalder, Leon Nissen, Basil Vogelsanger, Stine Anzböck, Daria Laslo, Sophie Bakker, Melinda Kondorosy, Marco Venerito, Alejandro Sanz Garcıa, Isabelle Feller, Annette Oxenius, Sai T. Reddy, Alexander Yermanos (2023)
external pageePlatypus: an ecosystem for computational analysis of immunogenomics datacall_made
Bioinformatics
Aerin Yang, Kevin M. Jude, Ben Lai, Mason Minot, Anna M. Kocyla, Caleb R. Glassman, Daisuke Nishimiya, Yoon Seok Kim, Sai T. Reddy, Aly A. Khan, K. Christopher Garcia (2023)
external pageDeploying synthetic coevolution and machinelearning to engineer protein-protein interactionscall_made
Science
Darya Palianina, Raphaël B. Di Roberto, Rocío Castellanos-Rueda, Fabrice Schlatter,
Sai T. Reddy, Nina Khanna (2023)
external pageA method for polyclonal antigen-specific T cell-targeted genome editing (TarGET) for adoptive cell transfer applicationscall_made
Molecular Therapy: Methods & Clinical Development
Andreas Agrafiotis, Daniel Neumeier, Kai-Lin Hong, Tasnia Chowdhury, Roy Ehling, Raphael Kuhn, Ioana Sandu, Victor Kreiner, Tudor-Stefan Cotet, Danielle Shlesinger, Daria Laslo, Stine Anzböck, Dale Starkie, Daniel J. Lightwood, Annette Oxenius, Sai T. Reddy and Alexander Yermanos (2023)
external pageGeneration of a single-cell B cell atlas of antibody repertoires and transcriptomes to identify signatures associated with antigen specificitycall_made
iScience
Andreas Agrafiotis, Raphael Dizerens, Ilena Vincenti, Ingrid Wagner, Raphael Kuhn, Danielle Shlesinger, Marcos Manero‑Carranza, Tudor‑Stefan Cotet, Kai‑Lin Hong, Nicolas Page, Nicolas Fonta, Ghazal Shammas, Alexandre Mariotte, Margot Piccinno, Mario Kreutzfeldt, Benedikt Gruntz, Roy Ehling, Alessandro Genovese, Alessandro Pedrioli, Andreas Dounas, Sören Franzenburg, Hayrettin Tumani, Tania Kümpfel, Vladyslav Kavaka, Lisa Ann Gerdes, Klaus Dornmair, Eduardo Beltrán, Annette Oxenius, Sai T. Reddy, Doron Merkler, Alexander Yermanos (2023)
external pagePersistent virus-specific and clonally expanded antibody-secreting cells respond to induced self-antigen in the CNScall_made
Acta Neuropathologica
2022
Mason Minot, Sai T.Reddy (2022)
external pageNucleotide augmentation for machine learning-guided protein engineeringcall_made
Bioinformatics Advances
Rocío Castellanos-Rueda, Raphaël B. Di Roberto, Florian Bieberich, Fabrice S. Schlatter, Darya Palianina, Oanh T. P. Nguyen, Edo Kapetanovic, Heinz Läubli, Andreas Hierlemann, Nina Khanna & Sai T. Reddy (2022)
external pagespeedingCARs: accelerating the engineering of CAR T cells by signaling domain shuffling and single-cell sequencingcall_made
Nature Communications
Luke Vistain, Hoang Van Phan, Bijentimala Keisham, Christian Jordi, Mengjie Chen, Sai T. Reddy & Savaş Tay (2022)
external pageQuantification of extracellular proteins, protein complexes and mRNAs in single cells by proximity sequencingcall_made
Nature Methods
Daniel J Sheward, Changil Kim, Julian Fischbach, Kenta Sato, Sandra Muschiol, Roy A Ehling, Niklas K Björkström, Gunilla B Karlsson Hedestam, Sai T Reddy, Jan Albert, Thomas P Peacock, Ben Murrell (2022)
external pageOmicron sublineage BA.2.75.2 exhibits extensive escape from neutralising antibodiescall_made
The Lancet Infectious Diseases
Rodrigo Vazquez-Lombardi, Johanna S. Jung, Fabrice S. Schlatter, Anna Mei, Natalia Rodrigues Mantuano, Florian Bieberich, Kai-Lin Hong, Jakub Kucharczyk, Edo Kapetanovic, Erik Aznauryan, Cédric R. Weber, Alfred Zippelius, Heinz Läubli, Sai T. Reddy (2022)
external pageHigh-throughput T cell receptor engineering by functional screening identifies candidates with enhanced potency and specificitycall_made
Immunity
Joseph M. Taft, Cédric R. Weber, Beichen Gao, Roy A. Ehling, Jiami Han, Lester Frei, Sean W. Metcalfe, Max Overath, Alexander Yermanos, William Kelton, Sai T. Reddy (2022)
external pageDeep Mutational Learning Predicts ACE2 Binding and Antibody Escape to Combinatorial Mutations in the SARS-CoV-2 Receptor Binding Domaincall_made
Cell
Jiami Han, Solène Masserey, Danielle Shlesinger, Raphael Kuhn, Chrysa Papadopoulou, Andreas Agrafiotis, Victor Kreiner, Raphael Dizerens, Kai-Lin Hong, Cédric Weber, Victor Greiff, Annette Oxenius, Sai T Reddy, Alexander Yermanos (2022)
external pageEchidna: integrated simulations of single-cell immune receptor repertoires and transcriptomescall_made
Bioinformatics Advances
Daniel J Sheward, Changil Kim, Julian Fischbach, Sandra Muschiol, Roy A Ehling, Niklas K Björkström, Gunilla B Karlsson Hedestam, Sai T Reddy, Jan Albert, Thomas P Peacock, Ben Murrell (2022)
external pageEvasion of neutralising antibodies by omicron sublineage BA.2.75call_made
The Lancet Infectious Diseases
Danielle Shlesinger, Kai-Lin Hong, Ghazal Shammas, Nicolas Page, Ioana Sandu, Andreas Agrafiotis, Victor Kreiner, Nicolas Fonta, Ilena Vincenti, Ingrid Wagner, Margot Piccinno, Alexandre Mariotte, Bogna Klimek, Raphael Dizerens, Marcos Manero-Carranza, Raphael Kuhn, Roy Ehling, Lester Frei, Keywan Khodaverdi, Camilla Panetti, Nicole Joller, Annette Oxenius, Doron Merkler, Sai T. Reddy and Alexander Yermanos (2022)
external pageSingle-cell immune repertoire sequencing of B and T cells in murine models of infection and autoimmunitycall_made
Genes & Immunity
Cédric R. Weber, Teresa Rubio, Longlong Wang, Wei Zhang, Philippe A. Robert, Rahmad Akbar, Igor Snapkov, Jinghua Wu, Marieke L. Kuijjer, Sonia Tarazona, Ana Conesa, Geir K. Sandve, Xiao Liu, Sai T. Reddy and Victor Greiff (2022)
external pageReference-based comparison of adaptive immune receptor repertoirescall_made
Cell Reports Methods
Ilena Vincenti, Nicolas Page, Karin Steinbach, Alexander Yermanos, Sylvain Lemeille, Nicolas Nunez, Mario Kreutzfeldt, Bogna Klimek, Giovanni Di Liberto, Kristof Egervari, Margot Piccinno, Ghazal Shammas, Alexandre Mariotte, Nicolas Fonta, Nicolas Liaudet, Danielle Shlesinger, Anna Rita Liuzzi, Ingrid Wagner, Cynthia Saadi, Christine Stadelmann, Sai Reddy, Burkhard Becher and Doron Merkler (2022)
external pageTissue-resident memory CD8+ T cells cooperate with CD4+ T cells to drive compartmentalized immunopathology in the CNcall_madeexternal pageScall_made
Science Translational Medicine
Raphael Kuhn, Ioana Sandu, Andreas Agrafiotis, Kai-Lin Hong, Daniel Neumeier, Doron Merkler, Annette Oxenius, Sai T. Reddy, Alexander Yermanos (2021)
external pageClonally expanded virus-specific CD8 T cells acquire diverse transcriptional phenotypes during acute, chronic, and latent infectionscall_made
Frontiers in Immunology
Alexander Yermanos, Kai-Lin Hong, Andreas Agrafiotis, Jiami Han, Sarah Nadeau, Cecilia Valenzuela, Asli Azizoglu, Roy Ehling, Beichen Gao, Michael Spahr, Daniel Neumeier, Ching-Hsiang Chang, Andreas Dounas, Ezequiel Petrillo, Ina Nissen, Elodie Burcklen, Mirjam Feldkamp, Christian Beisel, Annette Oxenius, Miodrag Savic, Tanja Stadler, Fabian Rudolf, Sai T. Reddy (2021)
external pageDeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2call_made
BMC Genomics
Daniel Neumeier, Alexander Yermanos, Andreas Agrafiotis, Lucia Csepregi, Tasnia Chowdhury, Roy A. Ehling, Raphael Kuhn, Tudor-Stefan Cotet, Raphaël Brisset-Di Roberto, Mariangela Di Tacchio, Renan Antonialli, Dale Starkie, Daniel J. Lightwood, Annette Oxenius, and Sai T. Reddy (2022)
external pagePhenotypic determinism and stochasticity in antibody repertoires of clonally expanded plasma cellscall_made
Proceedings of the National Academy of Sciences of the United States of America
Daniel J Sheward, Changil Kim, Roy A Ehling, Alec Pankow, Xaquin Castro Dopico, Robert Dyrdak, Darren P Martin, Sai T Reddy, Joakim Dillner, Gunilla B Karlsson Hedestam, Jan Albert, Ben Murrell (2022)
external pageNeutralisation sensitivity of the SARS-CoV-2 omicron (B.1.1.529) variant: a cross-sectional studycall_made
The Lancet Infectious Diseases
Erik Aznauryan, Alexander Yermanos, Elvira Kinzina, Anna Devaux, Edo Kapetanovic, Denitsa Milanova, George M.Church, Sai T.Reddy (2022)
external pageDiscovery and validation of human genomic safe harbor sites for gene and cell therapiescall_made
Cell Reports Methods
Tom Z. Yuan, Carolina Lucas, Valter S. Monteiro, Akiko Iwasaki, Marisa L. Yang, Hector F. Nepita, Ana G. Lujan Hernandez, Joseph M. Taft, Lester Frei, Sai T. Reddy, Cédric R. Weber, Kevin P. Malobisky, Rodrigo Mesquita, Aaron K. Sato (2022)
external pageA synthetic bispecific antibody capable of neutralizing SARS-CoV-2 Delta and Omicroncall_made
Preprint available on bioRxiv.
2021
Roy A. Ehling, Cédric R. Weber, Derek M. Mason, Simon Friedensohn, Bastian Wagner, Florian Bieberich, Edo Kapetanovic, Rodrigo Vazquez-Lombardi, Raphaël B. Di Roberto, Kai-Lin Hong, Camille Wagner, Michele Pataia, Max D. Overath, Daniel J. Sheward, Ben Murrell, Alexander Yermanos, Andreas P. Cuny, Miodrag Savic, Fabian Rudolf, Sai T. Reddy (2021)
external pageSARS-CoV-2 reactive and neutralizing antibodies discovered by single-cell sequencing of plasma cells and mammalian displaycall_made
Cell Reports
Kyrin R. Hanning, Mason Minot, Annmaree K. Warrender, William Kelton, Sai T. Reddy (2021)
external pageDeep mutational scanning for therapeutic antibody engineeringcall_made
Trends in pharmacological sciences
Lucia Csepregi, Kenneth B. Hoehn, Daniel Neumeier, Joseph M. Taft, Simon Friedensohn, Cédric R. Weber, Arkadij Kummer, Fabian Sesterhenn, Bruno E. Correia, Sai T. Reddy (2021)
external pageThe Physiological Landscape and Specificity of Antibody Repertoirescall_made
Preprint available on bioRxiv.
Sailan Shui, Pablo Gainza, Leo Scheller, Che Yang, Yoichi Kurumida, Stéphane Rosset,
Sandrine Georgeon, Raphaël B. Di Roberto, Rocío Castellanos-Rueda, Sai T. Reddy &
Bruno E. Correia
external pageA rational blueprint for the design of chemically-controlled protein switchescall_made
Nature Communications
Florian Bieberich, Rodrigo Vazquez-Lombardi, Alexander Yermanos, Roy A. Ehling, Derek M. Mason, Bastian Wagner, Edo Kapetanovic, Raphael Brisset Di Roberto, Cédric R. Weber, Miodrag Savic, Fabian Rudolf and Sai T. Reddy (2021)
external pageA Single-Cell Atlas of Lymphocyte Adaptive Immune Repertoires and Transcriptomes Reveals Age-Related Differences in Convalescent COVID-19 Patientscall_made
Frontiers in Immunology
Margarita Pertseva, Beichen Gao, Daniel Neumeier, Alexander Yermanos and Sai T. Reddy (2021)
external pageApplications of Machine and Deep Learning in Adaptive Immunitycall_made
Annual Review of Chemical and Biomolecular Engineering
Alexander Yermanos, Andreas Agrafiotis, Raphael Kuhn, Damiano Robbiani, Josephine Yates, Chrysa Papadopoulou, Jiami Han, Ioana Sandu, Cédric Weber, Florian Bieberich, Rodrigo Vazquez-Lombardi, Andreas Dounas, Daniel Neumeier, Annette Oxenius, Sai T Reddy (2021)
external pagePlatypus: an open-access software for integrating lymphocyte single-cell immune repertoires with transcriptomescall_made
NAR Genomics and Bioinformatics
Derek M. Mason, Simon Friedensohn, Cédric R. Weber, Christian Jordi, Bastian Wagner, Simon M. Meng, Roy A. Ehling, Lucia Bonati, Jan Dahinden, Pablo Gainza, Bruno E. Correia & Sai T. Reddy (2021)
external pageOptimization of therapeutic antibodies by predicting antigen specificity from antibody sequence via deep learningcall_made
Nature Biomedical Engineering
RocíoCastellanos-Rueda, Raphaël B.Di Roberto, Fabrice S.Schlatter, Sai T.Reddy (2021)
external pageLeveraging Single-Cell Sequencing for Chimeric Antigen Receptor T Cell Therapiescall_made
Trends in Biotechnology
Daniel Neumeier, Alessandro Pedrioli, Alessandro Genovese, Ioana Sandu, Roy Ehling, Kai-Lin Hong, Chrysa Papadopoulou, Andreas Agrafiotis, Raphael Kuhn, Danielle Shlesinger, Damiano Robbiani, Jiami Han, Laura Hauri, Lucia Csepregi, Victor Greiff, Doron Merkler, Sai T. Reddy, Annette Oxenius, Alexander Yermanos (2021)
external pageProfiling the specificity of clonally expanded plasma cells during chronic viral infection by single-cell analysiscall_madecall_made
European Journal of Immunology
2020
Lucia Csepregi, Roy Ehling, Bastian Wagner, Sai T.Reddy (2020)
external pageImmune literacy: reading, writing and editing adaptive immunitycall_made
iScience
Charlotte U. Zajc, Benjamin Salzer, Joseph M. Taft, Sai T. Reddy, Manfred Lehner, Michael W. Traxlmayr (2020)
external pageDriving CARs with alternative navigation tools – the potential of engineered binding scaffoldscall_made
The FEBS Journal
Raphaël B. Di Roberto, Rocío Castellanos-Rueda, Samara Frey, David Egli, Rodrigo Vazquez-Lombardi, Edo Kapetanovic, Jakub Kucharczyk, Sai T. Reddy (2020)
external pageA functional screening strategy for engineering chimeric antigen receptors with reduced on-target, off-tumour activationcall_made
Molecular Therapy
Suzanne P. M. Welten, Alexander Yermanos, Nicolas S. Baumann, Franziska Wagen, Nathalie Oetiker, Ioana Sandu, Alessandro Pedrioli, Jennifer D. Oduro, Sai T. Reddy, Luka Cicin-Sain, Werner Held & Annette Oxenius (2020)
external pageTcf1+cells are required to maintain the inflationaryT cell pool upon MCMV infectioncall_made
Nature Communications
Riedel R, Addo R, Ferreira-Gomes M, Heinz GA, Heinrich F, Kummer J, Greiff V, Schulz D, Klaeden C, Cornelis R, Menzel U, Kröger S, Stervbo U, Köhler R, Haftmann C, Kühnel S, Lehmann K, Maschmeyer P, McGrath M, Naundorf S, Hahne S, Sercan-Alp Ö, Siracusa F, Stefanowski J, Weber M, Westendorf K, Zimmermann J, Hauser AE, Reddy ST, Durek P, Chang HD, Mashreghi MF, and Radbruch A (2020)
external pageDiscrete populations of isotype-switched memory B lymphocytes are maintained in murine spleen and bone marrowcall_made
Nature Communications
Yermanos A, Dounas A, Greiff V, Stadler T, Oxenius A, Reddy ST (2020)
external pageInter- and intraspecies comparison of phylogenetic fingerprints and sequence diversity of immunoglobulin variable genescall_made
Immunogenetics
Yermanos A, Sandu I, Pedrioli A, Borsa M, Wagen F, Oetiker N, Welten SPM, Pallmer K, Reddy ST, Oxenius A (2020)
external pageProfiling virus-specific Tcf1+ T cell repertoires during acute and chronic viral infectioncall_made
Frontiers in Immunology
Yermanos A, Kräutler NJ, Pedrioli A, Menzel U, Greiff V, Stadler T, Oxenius A, Reddy ST (2020)
external pageIgM Antibody Repertoire Fingerprints in Mice Are Personalized but Robust to Viral Infection Statuscall_made
Frontiers in Cellular and Infection Microbiology
Yermanos A, Greiff V, Stadler T, Oxenius A, Reddy ST (2020)
external pageThe influence of the phylogenetic inference pipeline on murine antibody repertoire sequencing data following viral infectioncall_made
Preprint available on bioRxiv.
Friedensohn S, Neumeier D, Khan TA, Csepregi L, Parola C, Gorter de Vries A, Erlach L, Mason DM and Reddy ST (2020)
external pageConvergent selection in antibody repertoires is revealed by deep learningcall_made
Preprint available on bioRxiv.
Weber CR, Akbar R, Yermanos A, Pavlović M, Snapkov I, Sandve GK, Reddy ST and Greiff V (2020)
external pageimmuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarkingcall_made
Bioinformatics
Kräutler NJ*, Yermanos A*, Pedrioli A, Welten SPM, Lorgé D, Greczmiel U, Bartsch I, Scheuermann J, Kiefer JD, Eyer K, Menzel U, Greiff V, Neri D, Stadler T, Reddy ST and Oxenius A (2020)
external pageQuantitative and Qualitative Analysis of Humoral Immunity Reveals Continued and Personalized Evolution in Chronic Viral Infectioncall_made
Cell Reports
Fallet B, Hao Y, Florova M, Cornille K, Verge de los Aires A, Girelli Zubani G, Ertuna YI, Greiff V, Menzel U, Hammad K, Merkler D, Reddy ST, Weill JC, Reynaud CA, Pinschewer DD (2020)
external pageChronic Viral Infection Promotes Efficient Germinal Center B Cell Responsescall_made
Cell Reports
2019
Smakaj E, Babrak L, Ohlin M, Shugay M, Briney B, Tosoni D, Galli C, Grobelsek V, D’Angelo I, Olson B, Reddy ST, Greiff V, Trück J, Marquez S, Lees W and Miho E (2019)
external pageBenchmarking immunoinformatic tools for the analysis of antibody repertoire sequencescall_made
Bioinformatics
Parola C, Neumeier D, Friedensohn S, Csepregi L, Di Tacchio M, Mason DM and Reddy ST (2019)
external pageAntibody discovery and engineering by enhanced CRISPR-Cas9 integration of variable gene cassette libraries in mammalian cellscall_made
mAbs
Miho E, Roskar R, Greiff V and Reddy ST (2019)
external pageThe fundamental principles of antibody repertoire architecture revealed by large-scale network analysiscall_made
Nature Communications
Sesterhenn F, Galloux M, Vollers SS, Csepregi L, Yang C, Descamps D, Bonet J, Friedensohn S, Gainza P, Corthésy P, Chen M, Rosset S, Rameix-Welti MA, Éléouët JF, Reddy ST, Graham BS, Riffault S and Correia BE (2019)
external pageBoosting subdominant neutralizing antibody responses with a computationally designed epitope-focused immunogencall_made
PLOS Biology
D’Amico L*, Menzel U*, Prummer M, Müller P, Buchi M, Kashyap A, Haessler U, Yermanos AD, Gébleux R, Briendl M, Hell T, Wolter FI, Beerli RR, Truxova I, Radek Š, Vlajnic T, Grawunder U, Reddy ST and Zippelius A (2019)
external pageA novel anti-HER2 anthracycline-based antibody-drug conjugate induces adaptive anti-tumor immunity and potentiates PD-1 blockade in breast cancercall_made
Journal for ImmunoTherapy of Cancer
Pesch T, Bonati L, Kelton WJ, Parola C, Ehling RA, Csepregi L, Kitamura D, Reddy ST (2019)
external pageMolecular design, optimization and genomic integration of chimeric B cell receptors in murine B cellscall_made
Frontiers in Immunology
2018
Yermanos AD, Dounas AK, Stadler T, Oxenius A, Reddy ST (2018)
external pageTracing Antibody Repertoire Evolution by Systems Phylogenycall_made
Frontiers in Immunology
Parola C, Mason DM, Zingg A, Neumeier D, Reddy ST (2018)
external pageGenome Engineering of Hybridomas to Generate Stable Cell Lines for Antibody Expressioncall_made
Methods in Molecular Biology - Springer Book Chapter
Friedensohn S*, Lindner JM*, Cornacchione V, Iazeolla M, Miho E, Zingg A, Meng S, Traggiai E, Reddy ST (2018)
external pageSynthetic standards combined with error and bias correction improves the accuracy and quantitative resolution of antibody repertoire sequencing in human and naive memory B cellscall_made
Frontiers in Immunology
Mason DM, Weber CR, Parola C, Meng SM, Greiff V, Kelton WJ, Reddy ST (2018)
external pageHigh-throughput antibody engineering in mammalian cells by CRISPR/Cas9-mediated homology-directed mutagenesiscall_made
Nucleic Acids Research
Miho E, Yermanos AD, Weber CR, Berger CT, Reddy ST, Greiff V (2018)
external pageComputational strategies for dissecting the high-dimensional complexity of adaptive immune repertoirescall_made
Frontiers in Immunology
2017
Parola C, Neumeier D, Reddy ST (2017)
external pageIntegrating high-throughput screening and sequencing for monoclonal antibody discovery and engineeringcall_made
Immunology
Greiff V*, Weber CR*, Palme J, Bodenhofer U, Miho E, Menzel U, Reddy ST (2017)
external pageLearning The High-Dimensional Immunogenomic Features That Predict Public And Private Antibody Repertoirescall_made
The Journal of Immunology
Yermanos A, Greiff V, Krautler NJ, Menzel U, Dounas A, Miho E, Oxenius A, Stadler T, Reddy ST (2017)
external pageComparison of methods for phylogenetic B-cell lineage inference using time-resolved antibody repertoire simulations (AbSim)call_made
Bioinformatics
Reddy ST (2017)
external pageThe patterns of T-cell target recognitioncall_made
Nature
Greiff V*, Menzel U*, Miho E, Weber CR, Riedel R, Cook S, Valai A, Lopes T, Radbruch A, Winkler TH, Reddy ST (2017)
external pageSystems analysis reveals high genetic and antigen-driven predetermination of antibody repertoires throughout B-cell developmentcall_made
Cell Reports
Kelton W, Waindok A, Pogson M, Parola C, Reddy ST (2017)
external pageReprogramming MHC specificity by CRISPR-Cas9-assisted cassette exchangecall_made
Scientific Reports
2016
Friedensohn S, Khan TA, Reddy ST (2016)
external pageAdvanced Methodologies in High-Throughput Sequencing of Immune Repertoirescall_made
Trends in Biotechnology.
Pogson M*, Parola C*, Kelton WJ, Heuberger P, Reddy ST (2016)
external pageImmunogenomic engineering of a plug-and-(dis)play hybridoma platformcall_made
Nature Communications .
Kelton WJ, Pesch T, Matile S, Reddy ST (2016)
external pageSurveying the delivery methods of CRISPR/Cas9 for ex vivo mammalian cell engineeringcall_made
Chimia.
Waldmeier L, Hellmann I, Gutknecht CK, Wolter FI, Cook SC, Reddy ST, Grawunder U, Beerli R (2016)
external pageTranspo-mAb display: Transposition-mediated B cell display and functional screening of full-length IgG antibody librariescall_made
mAbs.
Khan TA, Friedensohn S, Gorter de Vries AR, Straszewski J, Ruscheweyh H-J, Reddy ST (2016)
external pageAccurate and predictive antibody repertoire profiling by molecular amplification fingerprintingcall_made
Science Advances
2015
Müller P, Kreuzaler M, Khan TA, Thomsen DS, Martin K, Glatz K, Savic S, Harbeck N, Nitz U, Gluz O, Bergwelt-Baildon M, Kreipe H, Reddy ST, Christgen M, Zippelius A (2015)
external pageTrastuzumab emtansine (T-DM1) renders HER2+ breast cancer highly susceptible to CTLA-4/PD-1 blockadecall_made
Science Translational Medicine
Also see commentary: external pageIs all cancer therapy immunotherapy?call_made
Glanville J, D’Angelo S, Khan TA, Reddy ST, Naranjo L, Ferrara F, Bradbury ARM (2015)
external pageDeep sequencing in library selection projects: what insight does it bring?call_made
Current Opinion in Structural Biology
Greiff V, Miho E, Menzel U, Reddy ST (2015)
external pageBioinformatic and statistical analysis of adaptive immune repertoirescall_made
Trends in Immunology
Pogson M, Kelton W, Reddy ST (2015)
external pageMicroscale technologies for high-throughput analysis of immune cellscall_made
Microscale Technologies for Cell Engineering - Springer Book Chapter
Greiff V, Bhat P, Cook S, Menzel U, Kang W, Reddy ST (2015)
external pageA bioinformatic framework for immune repertoire diversityprofiling enables detection of immunological statuscall_made
Genome Medicine
Berger CT*, Greiff V*, Mehling M, Fritz S, Meier MA, Hoenger G, Conen A, Recher M, Battegay, Reddy ST, Hess C (2015)
external pageInfluenza vaccine response profiles are affected by vaccine preparation and preexisting immunity, but not HIV infectioncall_made
Human Vaccines and Immunotherapeutics
2014
Schanz M, Liechti T, Zagordi O, Miho E, Reddy ST, Günthard HF, Trkola A, Huber M (2014)
external pageHigh-throughput sequencing of human immunoglobulin variable regions with subtype identificationcall_made
PLOS ONE
Greiff V*, Menzel U*, Haessler U, Cook SC, Friedensohn S, Khan TA, Pogson M, Hellmann I, Reddy ST (2014)
external pageQuantitative assessment of the robustness of next-generation sequencing of antibody variable repertoires from immunized micecall_made
BMC Immunology
Lavinder JJ, Hoi KH, Reddy ST, Wine Y, Georgiou G (2014)
external pageSystematic Characterization and Comparative Analysis of the Rabbit Immunoglobulin Repertoirecall_made
PLOS ONE
Menzel U*, Greiff V*, Khan TA, Haessler U, Hellmann I, Friedensohn S, Cook SC, Pogson M, Reddy ST (2014)
external pageComprehensive Evaluation and Optimization of Amplicon Library Preparation Methods for High-Throughput Antibody Sequencingcall_made
PLOS ONE
Khan TA, Reddy ST (2014)
external pageImmunological principles regulating immunomodulation with biomaterialscall_made
Acta Biomaterials
Haessler U, Reddy ST (2014)
external pageUsing Next-Generation Sequencing for Discovery of High-Frequency Monoclonal Antibodies in the Variable Gene Repertoires from Immunized Micecall_made
Methods in Molecular Biology
Publications before ETH Zurich
Ippolito GC, Hoi KH, Reddy ST, Carroll SM, Ge X, Rogosch T, Zemlin M, Shultz LD, Ellington AD, VandenBerg CL, Georgoiu G (2012)
external pageAntibody repertoires in humanized NOD-scid-IL2Gnull mice and humab B cells reveals human-like diversification and tolerance checkpoints in micecall_made
PLOS ONE
Reddy ST, Georgiou G (2011)
external pageSystems analysis of adaptive immunity by utilization of high-throughput technologiescall_made
Current Opinion in Biotechnology
Thomas SN, van der Vlies AJ, O’neil CP, Reddy ST, Yu SS, Giorgio TD, Swartz MA, Hubbell JA (2010)
external pageEngineering complement activation on polypropylene sulfide nanoparticlescall_made
Biomaterials
Reddy ST, Ge X, Miklos A, Hughes R, Kang SH, Hoi KH, Chrysostomou C, Smith SH, Iverson BL, Tucker PW, Ellington AD, Georgiou G (2010)
external pageMonoclonal antibodies isolated without screening by analyzing the variable gene repertoire of plasma cellscall_made
Nature Biotechnology
Jung ST, Reddy ST, Kang TH, Borrok MJ, Sandie I, Tucker PW, Georgiou G (2010)
external pageAglycosylated IgG variants expressed in E. coli that selectively bind FcγR1 potentiate tumor cell killing by monocyte-dendritic cellscall_made
Proceedings of National Academy of Sciences of the United States of America
Mercanzini A, Reddy ST, Velluto D, Colin P, Maillard A, Bensadoun JC, Hubbell JA, Renaud P (2010)
external pageControlled release nanoparticle embedded coatings reduce the tissue reaction to neuroprosthesescall_made
Journal of Controlled Release
Lim HY, Rutkowski JM, Helft J, Reddy ST, Swartz MA, Randolph GJ, Angeli V (2009)
external pageHypercholesterolemic mice exhibit lymphatic vessel dysfunction and degenerationcall_made
The American Journal of Pathology
Swartz MA, Hubbell JA, Reddy ST (2008)
external pageLymphatic drainage function and its immunological implications: From dendritic cell homing to vaccine designcall_made
Seminars in Immunology
Reddy ST, van der Vlies AJ, Simeoni E, Angeli V, Randolph GJ, L.K. Lee LK, Swartz MA, Hubbell JA (2007)
external pageExploiting lymphatic transport and complement activation in nanoparticle vaccinescall_made
Nature Biotechnology
Reddy ST, Swartz MA, Hubbell JA (2006)
external pageTargeting dendritic cells with biomaterials: developing the next generation of vaccinescall_made
Trends in Immunology
Reddy ST, Rehor A, Schmoekel HG, Hubbell JA, Swartz MA (2006)
external pageIn vivo targeting of dendritic cells in lymph nodes with poly(propylene sulfide) nanoparticlescall_made
Journal of Controlled Release
Reddy ST, Berk DA, Jain RK, Swartz MA (2006)
external pageA sensitive in vivo model for quantifying interstitial convective transport of injected macromolecules and nanoparticlescall_made
Journal of Applied Physiology