Volume 18 Issue 6, June 2021

Reaching ground truth in super-res microscopy, powered by a love of cooking and food.

The most commonly used omics databases are a compilation of results from primarily male-only and sex-agnostic studies. The pervasive use of these databases critically hinders progress toward fully accounting for the biology of sex differences.

Immunogenomics studies have been largely limited to individuals of European ancestry, restricting the ability to identify variation in human adaptive immune responses across populations. Inclusion of a greater diversity of individuals in immunogenomics studies will substantially enhance our understanding of human immunology.

Researchers work towards improving the efficiency and specificity of prime editors, as well as their delivery system in plants and animals.

An approach involving barcoded viral tracing provides insights into cell–cell interactions at single-cell resolution.

Composite in situ imaging leverages gene expression patterns to improve the efficiency of highly multiplexed single-molecule FISH measurements by orders of magnitude.

The iNMF algorithm efficiently integrates large-scale, continually arriving single-cell multi-omic datasets.

Human cervical organoids mimic dynamics of cancer and sexually transmitted infections.

There’s an evolving choice of ways to track the temporal dynamic of RNA biographies.

Two new technologies enable the profiling of single cells for RNA transcription as well as modifications to histone proteins. Each takes a similar strategy to capture both properties, but with different methods for cell indexing, and they are applied to two different areas: neuroscience and developmental biology, respectively.

This Perspective describes new single-molecule protein sequencing and identification technologies alongside innovations in mass spectrometry that will eventually enable broad sequence coverage in single-cell proteomics.

Many computational tools for metagenomic profiling have been developed, with different algorithms and features. This analysis shows that, when comparing these tools, the distinction of different types of relative sequence abundance should be taken into consideration.

TRUST4 is a computational tool for reconstructing T-cell and B-cell receptor repertoires using bulk and single-cell RNA-seq data.

L1CAM was presumed to be a marker for neuron-derived extracellular vesicles, but this is now shown not to be the case.

Combining whole-transcriptome preindexing with standard droplet microfluidics, scifi-RNA-seq enables single-cell RNA-seq with massive throughput and built-in sample multiplexing.

Detect-seq, built upon chemical labeling and enrichment of intermediate deoxyuridine, offers an approach to profile different types of off-target mutation induced by cytosine base editors including unexpected edits outside of protospacer and on the target strand.

This paper reports CoTECH, which couples chromatin binding enrichment with RNA sequencing for concurrent measurements of histone modification and transcriptome in single cells, offering a multiomics tool for studying epigenetic regulations.

This work presents NeoLoopFinder, a computational method, for identifying chromatin interactions of structurally rearranged genomes. NeoLoopFinder was applied in 50 cancer datasets and identified genes associated with enhancer-hijacking events.

Distance distribution correction (DDC) eliminates repeat localizations caused by fluorophore blinking without the need for calibrations. Use of DDC yields accurate and quantifiable single-molecule localization microscopy data.

Three-dimensional residual channel attention networks (RCAN) enable improved image denoising and resolution enhancement on volumetric time-lapse fluorescence microscopy data, allowing longitudinal super-resolution imaging of living samples.

The combination of adaptive optics with an improved isoSTED nanoscope allows imaging of cells and tissues with sub-50-nm isotropic resolution.