Highly multiplexed tissue imaging continues to show its power for biomedical discovery. In this issue, we publish tools and guidance for implementing this class of methods and reporting subsequent results.
Volume 19 Issue 3, March 2022
News & Views
A droplet microfluidic system enables deterministic capture and subsequent sequencing and analysis of single-cell transcriptomes from organoids and other small, individual tissue samples.
Global profiling of changes in the reactivity of cysteine residues in response to phosphorylation during mitosis identifies cysteine residues as potential regulatory and drug binding sites on proteins.
Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imaging
This Perspective offers guidance for robust and reproducible antibody-based highly multiplexed tissue imaging.
A pan-tissue DNA methylation atlas enables in silico decomposition of human tissue methylomes at cell-type resolution
This resource presents an in silico generated DNA methylation atlas that can be used for cell-type deconvolution of human tissues.
The Splicing Z Score (SpliZ) provides single-cell-level quantification of alternative splicing with improved statistical power.
MCMICRO is a modular and open-source computational pipeline for transforming highly multiplexed whole-slide images of tissues into single-cell data. MCMICRO is versatile and can be used with CODEX, mxIF, CyCIF, mIHC and H&E staining data.
Alevin-fry accurately quantifies single-cell and single-nucleus RNA-seq data with high speed and memory efficiency.
DisCo is a deterministic droplet microfluidics tool for single-cell analysis on low cell input samples, which is demonstrated to profile individual intestinal organoids and in vivo-derived small tissues.
GRAND editing employs a pair of prime editing guide RNAs to enable efficient DNA insertion up to 250 bp without the need of a DNA donor.
This article describes a chemical proteomic approach to quantitatively relate serine/threonine phosphorylation to changes in the reactivity of cysteine residues, thereby affecting their potential to be post-translationally modified and/or targeted by electrophilic small molecules.
Rational design was used to develop a suite of red-shifted, bioconjugatable heptamethine cyanine dyes for multiplexed in vivo imaging in the shortwave-infrared/near-infrared-II region.
Isotropic super-resolution light-sheet microscopy of dynamic intracellular structures at subsecond timescales
Combining a double-ring modulated SPIM with reduced side lobes and a sectionalized deep-learning based super-resolution algorithm enables fast, high-resolution, volumetric imaging of organelle interactions and dynamics in live cells.