Volume 17 Issue 4, April 2020

Analyzing cleared tissue with a deep-learning pipeline, and why dreaming is good for science.

LARRY unveils transcriptomic changes leading to fate determination in hematopoiesis.

Snake venom gland organoids provide a glimpse into the cell biology of the respective organ and serve as a platform for producing snake toxins.

ChromID identifies proteins associated with various chromatin modifications.

An optogenetic approach allows researchers to probe how mRNA localization affects cellular processes.

Riboregulator-based sensors are designed to differentiate single-nucleotide RNA variants in live cells.

T cells race to the scene in cancer and infection. To tease out what is special in cancer, scientists widen their scope and tool sets.

This Perspective highlights how high-resolution imaging has informed our view and helped overturn the textbook understanding of 4D genome organization.

This Perspective discusses the challenges, progress and future of proteome profiling at specific chromatin loci for elucidating genome biology.

Charge assignment for individual ions unlocks complex mixtures of proteoforms and their assemblies by native mass spectrometry.

An Orbitrap-based method for single-particle charge detection mass spectrometry enables facile, ultrasensitive analysis of protein assemblies.

A set of isobaric labeling reagents called TMTpro enables deep quantitative comparisons of proteome measurements across 16 samples.

The TooManyCells approach to scRNA-seq data facilitates efficient and unbiased identification and visualization of cell clades and rare subpopulations. Application of TooManyCells to drug-resistant leukemia cells identifies a rare resistant-like subpopulation of treatment-naive cells.

Cardelino leverages variant information from single-cell RNA-seq data for inferring clonal tree configuration and mapping cells to their clone of origin.

Light-dependent variants of Cre, Dre and Flp enable targeted sparse or single-cell labeling in mouse and zebrafish.

3D ATAC-PALM integrates ATAC with super-resolution imaging for nanoscale views of the accessible genome. When combined with FISH, protein fluorescence and genetic perturbation, the method enables investigation of accessible chromatin in situ.

DNA-based FluoroCubes are ~6 nm small, monovalent probes that contain six organic dyes, which confer dramatic photostability relative to single dyes and offer more uniform signal compared to quantum dots for extended biological imaging.

VesSAP is a tissue clearing- and deep learning-based pipeline for comprehensively analyzing mouse vasculature, from large vessels to small capillaries.