Nature Protocols, Published online: 19 December 2025; doi:10.1038/s41596-025-01299-6This protocol combines pooled CRISPR–Cas9 screening with neural organoid and assembloid models and illustrates how it can be applied to map hundreds of disease genes onto cellular pathways and specific aspects of human neural development.

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Nature Protocols, Published online: 04 December 2025; doi:10.1038/s41596-025-01290-1Virus infection real-time imaging visualizes viral RNA translation within cells in real-time, revealing the earliest events of viral infection when viral protein and RNA levels are low, as well as the origins and consequences of cell-to-cell heterogeneity during virus infection.

Nature Protocols, Published online: 04 December 2025; doi:10.1038/s41596-025-01281-2Deformable poly-acrylamide co-acrylic acid microparticles (DAAM-particles) are tunable hydrogel microparticles for quantifying cellular forces. This comprehensive protocol details their synthesis, functionalization and applications.

Nature Protocols, Published online: 03 December 2025; doi:10.1038/s41596-025-01292-zThis protocol integrates state-of-the-art microfabrication, tissue engineering and optogenetic approaches to generate topobiologically complex miniature colons capable of undergoing tumorigenesis in vitro.

Cryo-electron tomography has emerged as powerful technology for in-cell structural biology, and in combination with breakthroughs in protein structure prediction, offers a unique opportunity for illum...

Nature Protocols, Published online: 02 December 2025; doi:10.1038/s41596-025-01289-8Rigorous characterization is important for developing electrocatalytic reactions, for example, nitrate reduction. This workflow integrates bulk and surface techniques with in situ/operando spectroscopies, electrochemical measurements and density functional theory calculations.

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Nature Protocols, Published online: 01 December 2025; doi:10.1038/s41596-025-01291-0The Mant-ATP assay is a simple and accessible means for rapid quantitative assessment of the ratio of super-relaxed myosin to disordered relaxed myosin. This protocol provides a standardized methodology to perform the assay across a range of systems.

Nature Protocols, Published online: 01 December 2025; doi:10.1038/s41596-025-01288-9This Protocol describes XomicsToModel, a semi-automated pipeline that integrates bibliomic, transcriptomic, proteomic and metabolomic data with a generic genome-scale metabolic reconstruction or model.

Nature Protocols, Published online: 28 November 2025; doi:10.1038/s41596-025-01277-yThe authors present a protocol for the use of two advanced DNA-based tension probes, the reversible shearing DNA-based tension probe (RSDTP) and ForceChrono probe, which provide powerful tools for studying mechanotransduction in living cells.

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This protocol for the use and quality control of genetically encoded reporters to label proteins and cells in correlative light and electron microscopy workflows enables the acquisition of molecular, ...

The metric tools that aim to assess greenness, whiteness or related aspects of analytical procedures are gaining in popularity. At the same time, thei…

GreenSOL is the first comprehensive solvent selection guide tailored specifically to analytical chemistry. It employs a life cycle approach to evaluat…

Nature Protocols, Published online: 19 November 2025; doi:10.1038/s41596-025-01272-3This Protocol Extension describes directional conjugation of monoclonal antibodies to nanoparticles via the Fc antibody moiety using metal-free click chemistry, including procedures for synthesis, quality control and evaluation of nanoparticle–antibody conjugates.

Nature Protocols, Published online: 19 November 2025; doi:10.1038/s41596-025-01260-7This protocol for the use and quality control of genetically encoded reporters to label proteins and cells in correlative light and electron microscopy workflows enables the acquisition of molecular, cellular and biochemical information at high resolution.

Nature Protocols, Published online: 19 November 2025; doi:10.1038/s41596-025-01282-1This robust, proteome-wide approach for the exploration of the S-nitrosoproteome in human and mouse tissues uses the SNOTRAP probe and nano-liquid chromatography–tandem mass spectrometry analysis. The protocol enables efficient and high-throughput profiling of S-nitrosylated proteins in complex mixtures of biological material.

Nature Protocols, Published online: 19 November 2025; doi:10.1038/s41596-025-01271-4BreakTag is a scalable next-generation sequencing-based method for the unbiased characterization of programmable nucleases and guide RNAs that allows off-target and nuclease activity assessment, as well as the characterization of scission profiles.

Nature Protocols, Published online: 18 November 2025; doi:10.1038/s41596-025-01273-2Reproducible characterization of materials designed for radiative cooling is important for their development and application. The protocol describes how to acquire optical data and how to build and use outdoor and indoor thermal testing platforms.