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Nature Protocols is an interactive online resource for all laboratory protocols relevant to biological and biomedical research. Nature Protocols includes a free-to-access community site, 'Protocols Network', containing protocols that are posted direc

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Quantification of SARS-CoV-2 neutralizing antibody by a pseudotyped virus-based assay

Reference-free deconvolution, visualization and interpretation of complex DNA methylation data using DecompPipeline, MeDeCom and FactorViz

Quantification of SARS-CoV-2 neutralizing antibody by a pseudotyped virus-based assay

Nature Protocols, Published online: 25 September 2020; doi:10.1038/s41596-020-0394-5The production and titration of the SARS-CoV-2 S pseudotyped virus using a VSV-based pseudovirus production system in this protocol enable its use under biosafety level 2 conditions as well as in a neutralization assay to assess the level of neutralizing antibodies or...

Reference-free deconvolution, visualization and interpretation of complex DNA methylation data using DecompPipeline, MeDeCom and FactorViz

Nature Protocols, Published online: 25 September 2020; doi:10.1038/s41596-020-0369-6This protocol describes a comprehensive computational pipeline for reference-free deconvolution of bulk DNA methylation data, including data preprocessing, confounder adjustment, feature selection, and visualization and interpretation of the results.

Solid-state <sup>31</sup>P NMR mapping of active centers and relevant spatial correlations in solid acid catalysts

Nature Protocols, Published online: 23 September 2020; doi:10.1038/s41596-020-0385-6Solid acid catalysts are used in a wide variety of industrial catalytic processes for production of chemicals and petrochemicals. This protocol uses 31P NMR of phosphorous probes to characterize acidity in detail for both Br√łnsted and Lewis acid sites.

Preparation of robust fluorescent probes for tracking endogenous formaldehyde in living cells and mouse tissue slices

Nature Protocols, Published online: 23 September 2020; doi:10.1038/s41596-020-0384-7This protocol describes the synthesis of two fluorescent probes for (sub-)cellular detection of endogenous formaldehyde, including procedures for probe characterization and example applications in living cells and mouse tissue slices.

CRISPR-based engineering of gene knockout cells by homology-directed insertion in polyploid <i>Drosophila</i> S2R+ cells

Nature Protocols, Published online: 21 September 2020; doi:10.1038/s41596-020-0383-8This homology-directed insertion-based CRISPR gene-editing protocol enables knockout of all alleles of a target gene in the polyploid Drosophila S2R+ cell line, using either two sequential rounds of homology-directed insertion or a single round with a donor vector containing...

Establishment of patient-derived cancer organoids for drug-screening applications

Nature Protocols, Published online: 14 September 2020; doi:10.1038/s41596-020-0379-4This protocol summarizes the various approaches available to derive organoids from cancer patients and use these for screening of possible treatments. An optimized protocol for using head and neck cancer organoids is also described.

Establishment of patient-derived cancer organoids for drug-screening applications

Efficient low-cost chromatin profiling with CUT&Tag

Nature Protocols, Published online: 10 September 2020; doi:10.1038/s41596-020-0373-xThe authors describe a streamlined epigenomic profiling protocol based on cut-and-paste tagmentation by the Tn5 transposase targeted to a chromatin protein of interest.

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