Nature Methods offers a unique interdisciplinary forum for the publication of novel methods. Nature Methods focuses on the life sciences, combining practical, technique-driven subject matter with rigorous peer-review standards to ensure that readers are consistently presented with only the most valuable and highest quality methodological research. The journal offers its readers primary research papers as well as an array of opinions, reviews and short journalistic pieces to provide busy researchers with a broad, yet easily absorbed perspective of important methodological developments in the life sciences. http://feeds.nature.com/nmeth/rss/current Nature Publishing Group en © 2026 Macmillan Publishers Limited, part of Springer Nature. All rights reserved. Nature Methods © 2026 Macmillan Publishers Limited, part of Springer Nature. All rights reserved. permissions@nature.com https://www.nature.com/uploads/product/nmeth/rss.gif http://feeds.nature.com/nmeth/rss/current https://www.nature.com/articles/s41592-026-03112-y Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03112-y

A correlative workflow combining cryo-electron microscopy and cryo-electron tomography with secondary ion mass spectrometry generates spatially registered chemical maps from the same vitrified sample, directly linking ultrastructural information with molecular composition. This advance opens new avenues for identifying where drugs, pollutants and signaling molecules reside within cells at nanoscale resolution.]]> Julia Peukes doi:10.1038/s41592-026-03112-y Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03112-y 2026-05-25 Nature Methods 10.1038/s41592-026-03112-y https://www.nature.com/articles/s41592-026-03112-y https://www.nature.com/articles/s41592-026-03101-1 Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03101-1

Support for colleagues can take many forms. However and whenever it arrives, it is welcome.]]> Vivien Marx doi:10.1038/s41592-026-03101-1 Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03101-1 2026-05-25 Nature Methods 10.1038/s41592-026-03101-1 https://www.nature.com/articles/s41592-026-03101-1 https://www.nature.com/articles/s41592-026-03113-x Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03113-x

Two new methods show that bulk-trained sequence models can be efficiently adapted to predict gene regulation and variant effects at single-cell resolution.]]> Johannes LinderDavid R. Kelley doi:10.1038/s41592-026-03113-x Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03113-x 2026-05-25 Nature Methods 10.1038/s41592-026-03113-x https://www.nature.com/articles/s41592-026-03113-x https://www.nature.com/articles/s41592-026-03109-7 Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03109-7

A correlative workflow combining cryo-EM and focused ion beam secondary ion mass spectrometry (FIB-SIMS) facilitates subcellular chemical analysis with high spatial resolution.]]> Hannah OchnerBuse IsbilirSonja BlascheDavid ScheidweilerYuexuan ZhangZhexin WangTom SmithCatarina FrancoRob BradleyKiran R. PatilTanmay A. M. Bharat doi:10.1038/s41592-026-03109-7 Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03109-7 2026-05-25 Nature Methods 10.1038/s41592-026-03109-7 https://www.nature.com/articles/s41592-026-03109-7 https://www.nature.com/articles/s41592-026-03095-w Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03095-w

This paper shows that high MOI sgRNA multiplexing maintains CRISPRi screen performance while enabling reduced cell numbers, challenging conventional reliance on low-MOI infections.]]> Stefan OberlinNeil Q. TayAlbert XueRuzbeh MosadeghiHarold PimentelMichael T. McManus doi:10.1038/s41592-026-03095-w Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03095-w 2026-05-25 Nature Methods 10.1038/s41592-026-03095-w https://www.nature.com/articles/s41592-026-03095-w https://www.nature.com/articles/s41592-026-03102-0 Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03102-0

Decima learns to predict cell-type-specific gene expression based on DNA sequences, contributing to the analysis of gene regulation and design of context-specific regulatory elements.]]> Avantika LalAlexander KarollusLaura GunsalusDavid GarfieldSurag NairAlex M. TsengM. Grace GordonJohn BlischakBryce Van De GeijnTushar BhangaleJenna L. CollierNathaniel DiamantTommaso BiancalaniHector Corrada BravoGabriele ScaliaGokcen Eraslan doi:10.1038/s41592-026-03102-0 Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03102-0 2026-05-25 Nature Methods 10.1038/s41592-026-03102-0 https://www.nature.com/articles/s41592-026-03102-0 https://www.nature.com/articles/s41592-026-03093-y Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03093-y

AreTomoLive is an accelerated preprocessing pipeline for cryo-electron tomography that streamlines tomographic alignment, reconstruction and contrast enhancement. This pipeline prioritizes automation and throughput to deliver comprehensively corrected and denoised tomograms, including during data collection at scale.]]> Ariana PeckYue YuMohammadreza ParaanDari KimaniusUtz H. ErmelJoshua HutchingsJonathan SchwartzDaniel SerwasHannah SiemsNorbert S. HillMallak AliJulia PeukesGarrett A. GreenanShu-Hsien SheuElizabeth A. MontabanaBridget CarragherClinton S. PotterDavid A. AgardShawn Zheng doi:10.1038/s41592-026-03093-y Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03093-y 2026-05-25 Nature Methods 10.1038/s41592-026-03093-y https://www.nature.com/articles/s41592-026-03093-y https://www.nature.com/articles/s41592-026-03105-x Nature Methods, Published online: 25 May 2026; doi:10.1038/s41592-026-03105-x

ENCORI is a comprehensive analysis platform and resource for exploring RNA–protein and RNA–RNA interactomes.]]> Keren ZhouJunhong HuangShurong LiuWujian ZhengShun LiuYinghao XingYinan CaoYibo ChenXinping HuLi CaiJie ZhouPenghui LinJiajia XuanFangzhou XieLahong XuJunhao LiLingling ZhengLianghu QuJianjun ChenBin LiJianhua Yang doi:10.1038/s41592-026-03105-x Nature Methods, Published online: 2026-05-25; | doi:10.1038/s41592-026-03105-x 2026-05-25 Nature Methods 10.1038/s41592-026-03105-x https://www.nature.com/articles/s41592-026-03105-x