This protocol integrates genome-wide CRISPR knockout screening of toxins with in silico drug profiling for a new approach to targeted antidote development.

This protocol presents ProBac sequencing, a bacterial single-cell RNA sequencing methodology using droplet microfluidics and large oligonucleotide probe sets.

Untargeted mass spectrometry (MS) produces complex, multidimensional data. The MZmine open-source project enables processing of spectral data from various MS platforms, e.g., liquid chromatography–MS, gas chromatography–MS, MS–imaging and ion mobility spectrometry–MS, and is specialized for metabolomics.

Community-generated online templates for harmonized data reporting ensure that data and metadata associated with experiments are findable, accessible, interoperable, reusable and compiled for consistency in experimental design and test performance.

This protocol describes a CRISPR prime editing-based method for the sequential and unidirectional tracing of insertional events in mammalian cells, generating a dynamic recording of such information within living cells.

Scanorama is an effective tool for combining multiple single-cell RNA sequencing datasets, addressing technical variation introduced by differences in sample preparation, sequencing depth and experimental batches that can confound the analysis of diverse datasets.

Voltage-Seq is a method for all-optical voltage imaging-guided postsynaptic single-cell transcriptomics. It combines the use of the Voltron voltage indicator with the analysis tool VoltView to select specific neuronal somas to collect for single-cell RNA sequencing.

Conjugation of self-labeling enzymatic tags to axonal membrane proteins enables studying the dynamics of their trafficking, cellular localization and fate.

This protocol integrates genome-wide CRISPR knockout screening of toxins with in silico drug profiling for a new approach to targeted antidote development.

The morphological and molecular preservation of fresh-frozen tissues is difficult. Embedding with an hydroxypropyl methylcellulose/polyvinylpyrrolidone-rich hydrogel results in a material compatible with spatial biochemical analysis (e.g., mass spectrometry imaging), enabling multimodal data integration.

Untargeted mass spectrometry (MS) produces complex, multidimensional data. The MZmine open-source project enables processing of spectral data from various MS platforms, e.g., liquid chromatography–MS, gas chromatography–MS, MS–imaging and ion mobility spectrometry–MS, and is specialized for metabolomics.

This protocol presents ProBac sequencing, a bacterial single-cell RNA sequencing methodology using droplet microfluidics and large oligonucleotide probe sets.

MSstats is used for the statistical analysis of proteomics data from DIA mass spectrometry experiments. This protocol describes workflows using (i) the MSstatsShiny graphical user interface and (ii) the R packages MSstats or MSstatsBig (for larger datasets).