Highly resolved spatial transcriptomics for detection of rare events in cells

Single-cell spatial transcriptomics technologies leveraged the potential to transcriptionally landscape sophisticated reactions in cells. Current methods to delineate such complex interplay lack the flexibility in rapid target adaptation and are particularly restricted in detecting rare transcripts....

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Bibliographic Details
Published in:bioRxiv 2021-10
Main Authors: Groiss, Silvia, Pabst, Daniela, Faber, Cynthia, Meier, Andreas, Bogdoll, Annette, Unger, Conny, Nilges, Benedikt, Strauss, Sascha, Foederl-Hoebenreich, Esther, Hardt, Melina, Geipel, Andreas, Reinecke, Frank, Korfhage, Christian, Zatloukal, Kurt
Format: Article
Language:English
Subjects:
Host-pathogen interactions
Hybridization
Severe acute respiratory syndrome coronavirus 2
Transcription
Transcriptomics
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Summary:Single-cell spatial transcriptomics technologies leveraged the potential to transcriptionally landscape sophisticated reactions in cells. Current methods to delineate such complex interplay lack the flexibility in rapid target adaptation and are particularly restricted in detecting rare transcripts. We developed a multiplex single-cell RNA In-situ hybridization technique called 'Molecular Cartography' (MC) that can be easily tailored to specific applications and, by providing unprecedented sensitivity, specificity and resolution, is particularly suitable in tracing rare events at a subcellular level. Using a SARS-CoV-2 infection model, MC allows the discernment of single events in host-pathogen interactions, dissects primary from secondary responses, and illustrates differences in antiviral signaling pathways affected by SARS-CoV-2, simultaneously in various cell types. Competing Interest Statement S.G., D.P., E.F.-H., M.H. and K.Z. declare no competing financial interests. C.F., A.M., A.B., C.U., B.N., S.S., A.G., F.R. and C.K. are Resolve BioSciences employees.
DOI:10.1101/2021.10.11.463936