Publications

Deep mining of the Sequence Read Archive reveals major genetic innovations in coronaviruses and other nidoviruses of aquatic vertebrates.
Lauber et al., PubMed 2024, doi: 10.1371/journal.ppat.1012163

Engineered, nucleocytoplasmic shuttling Cas13d enables highly efficient cytosolic RNA targeting.
Gruber et al., Nature 2024, doi: 10.1038/s41421-024-00672-1

Soluble ACE2 correlates with severe COVID-19 and can impair antibody responses.
Lebedin et al., PubMed 2024, doi: 10.1016/j.isci.2024.109330

Ex vivo tissue perturbations coupled to single-cell RNA-seq reveal multilineage cell circuit dynamics in human lung fibrogenesis.
Lang et al., PubMed 2023, doi: 10.1126/scitranslmed.adh0908

Mass spectrometry-based autoimmune profiling reveals predictive autoantigens in idiopathic pulmonary fibrosis.
Leuschner et al., PubMed 2023, doi: 10.1016/j.isci.2023.108345

Probe set selection for targeted spatial transcriptomics.
Kuemmerle et al., bioRxiv 2022, doi: https://doi.org/10.1101/2022.08.16.504115

COVID-19 mRNA booster vaccine induces transient CD8+ T effector cell responses while conserving the memory pool for subsequent reactivation.
Reinscheid et al., PubMed 2022, doi: 10.1038/s41467-022-32324-x

Three exposures to the spike protein of SARS-CoV-2 by either infection or vaccination elicit superior neutralizing immunity to all variants of concern.
Wratil et al., Nature 2022, doi: 10.1038/s41591-022-01715-4

SARS-CoV-2 infection induces a pro-inflammatory cytokine response through cGAS-STING and NF-kB.
Neufeldt et al., Nature 2022, doi: 10.1038/s42003-021-02983-5

Dynamics of spike-and nucleocapsid specific immunity during long-term follow-up and vaccination of SARS-CoV-2 convalescents.
Körber et al., Nature 2022, doi: 10.1038/s41467-021-27649-y

Rapid and stable mobilization of CD8+ T cells by SARS-CoV-2 mRNA vaccine.
Oberhardt et al., Nature 2021, doi: 10.1038/s41586-021-03841-4.

Convergent use of phosphatidic acid for hepatitis C virus and SARS-CoV-2 replication organelle formation.
Tabata et al., Nat Commun. 2021, doi: 10.1038/s41467-021-27511-1.

Mapping single-cell data to reference atlases by transfer learning.
Lotfollahi et al., Nat Biotechnol. 2022, doi: 10.1038/s41587-021-01001-7.

Dynamics of spike-and nucleocapsid specific immunity during long-term follow-up and vaccination of SARS-CoV-2 convalescents.
Koerber et al., Nat Commun. 2022, doi: 10.1038/s41467-021-27649-y.

Temporal omics analysis in Syrian hamsters unravel cellular effector responses to moderate COVID-19.
Nouailles et al., Nat Commun. 2021, doi: 10.1038/s41467-021-25030-7.

Single-cell RNA sequencing reveals ex vivo signatures of SARS-CoV-2-reactive T cells through 'reverse phenotyping'.
Fischer et al., Nat Commun. 2021, doi: 10.1038/s41467-021-24730-4.

SARS-CoV-2 neutralizing human recombinant antibodies selected from pre-pandemic healthy donors binding at RBD-ACE2 interface.
Bertoglio et al., Nat Commun. 2021, doi: 10.1038/s41467-021-21609-2.

Lung emphysema and impaired macrophage elastase clearance in mucolipin 3 deficient mice.
Spix et al., Nat Commun. 2022, doi: 10.1038/s41467-021-27860-x.

Auto-aggressive CXCR6+ CD8 T cells cause liver immune pathology in NASH.
Dudek et al., Nature 2021, doi: 10.1038/s41586-021-03233-8.

Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV.
Stukalov et al., Nature 2021, doi: 10.1038/s41586-021-03493-4.

Characterization of pre-existing and induced SARS-CoV-2-specific CD8+ T cells.
Schulien et al., Nat. Med. 2021, doi: 10.1038/s41591-020-01143-2.

Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Muus et al., Nat. Med. 2021, doi: 10.1038/s41591-020-01227-z.