Approaches for profiling the spatial proteome in tissues are the basis of atlas-scale projects that are delivering on their promise for understanding biological complexity in health and disease.

Hundreds of researchers collaborate on maps of the human body and the subcellular realm. As they scout out their next mapping expeditions, they take stock of atlas-making.

Spatial proteomics is advancing rapidly, transforming physiological and biomedical research by enabling the study of how multicellular structures and intercellular communication shape tissue function in health and disease. Through the analysis of large human tissue collections, spatial proteomics will reveal the complexities of human tissues and uncover multicellular modules that can serve as drug targets and diagnostics, paving the way for precision medicine and revolutionizing histopathology.

Spatial mass spectrometry (MS)-proteomics is a rapidly evolving technology, particularly in the form of Deep Visual Proteomics (DVP), which allows the study of single cells directly in their native environment. We believe that this approach will reshape our understanding of tissue biology and redefine fundamental concepts in cell biology, tissue physiology and ultimately human health and disease.

The 4Pi-SIM microscope combines the benefits of structured illumination microscopy with 4Pi geometry for improved axial resolution, offering isotropic, multicolor super-resolution imaging of dynamic processes in living cells.

iFlpMosaics are a compendium of mouse lines and genetic tools for tissue-agnostic generation and analysis of genetic mosaics.

Moculus is a virtual reality headset for mice that allows realistic display of three-dimensional environments. The system improves performance in visual-learning tasks and can be combined with various microscopes to study neural circuitry.

MouseGoggles is a miniaturized virtual reality (VR) headset for mice that provides an improved immersive experience compared with existing VR equipment. MouseGoggles can also be combined with pupil tracking and has been applied in combination with calcium imaging or electrophysiological recordings.

The peptide-centric local stability assay (PELSA) can be used to determine ligand-binding targets and binding regions on a proteome-wide scale with high sensitivity.

This paper develops two approaches for multiplexing cortical organoids and SCanSNP, a method for deconvolving cell identities, to trace neurodevelopmental trajectories at scale.

Immune–organoid systems will be the next generation of in vitro models.

CRISPR screens are untangling molecular mechanisms that drive biological processes with greater precision and detail.

Algorithms help to capture macromolecular motion and structural heterogeneity in native cellular environments.

New experimental and computational methods illuminate the history of cell differentiation and its molecular underpinnings.

Experimental and computational studies are paving way for a deeper understanding of the dynamic nature of protein–protein interactions.

Detailed biomechanical models of animal bodies can help to tackle questions about how the brain controls movement and bodily interactions with the environment.