Nature Methods
A scientific journal publishing cutting-edge methods, tools, analyses, resources, reviews, news and commentary, supporting life sciences research. Posts by the editors.
- Not all scientific conferences offer childcare, but when they do, parents are happy. @vivienm.bsky.social asked conference attendees who are also mothers - and their children - about conference daycare. www.nature.com/articles/s41... and rdcu.be/e1y16
- Researchers are exploring new ways to harness the versatility of nanobodies, which are smaller camelid antibodies. @vivienm.bsky.social asked scientists about some of their current and future nanobody work. www.nature.com/articles/s41... and rdcu.be/e1yTd
- HumanBase: an interactive AI platform for human biology www.nature.com/articles/s41...
- A Comment discusses how commands, data, and metadata currently discarded by scientific instruments could be used to train AI systems to learn to conduct experiments. @henrypinkard.bsky.social @nilsnorlin.bsky.social www.nature.com/articles/s41...
- Our latest Creature Column features the jellyfish Clytia hemisphaerica, a model for studying embryogenesis and gametogenesis. www.nature.com/articles/s41...
- For a quick summary, read the Research Briefing here: www.nature.com/articles/s41...
- SpatialZ generates virtual single-cell transcriptomics slices between experimentally measured sections, enabling accurate and efficient building of 3D cell atlases of different tissues. www.nature.com/articles/s41...
- MaAsLin 3: a comprehensive, flexible framework for microbiome association studies. @hutlab.bsky.social www.nature.com/articles/s41...
- DBiTplus: a workflow unifying sequencing-based and imaging-based spatial omics on the same tissue section. www.nature.com/articles/s41...
- In this month's Editorial, we highlight some of the Nature Methods editorial team members' favorite papers we published in 2025! www.nature.com/articles/s41...
- SpatialZ generates virtual single-cell transcriptomics slices between experimentally measured sections, enabling accurate and efficient building of 3D cell atlases of different tissues. www.nature.com/articles/s41...
- Pertpy: a one-stop and performant framework for single-cell perturbation analysis. @lukasheumos.bsky.social @fabiantheis.bsky.social www.nature.com/articles/s41...
- Our January issue is now live! 🥳 nature.com/nmeth/volume... On the cover, a network of illuminated grids forms a cell-like shape representing Squidiff’s ability to predict continuous cell-state transitions under differentiation and perturbations. Paper: doi.org/10.1038/s415...
- For a quick summary, read the Research Briefing on this work: www.nature.com/articles/s41...
- SmartEM: a smart machine learning-based pipeline for electron microscopy-based data acquisition for connectomics. www.nature.com/articles/s41...
- For a quick summary, read the Research Briefing on this work: www.nature.com/articles/s41...
- TransBrain translates brain phenotypes between mouse and human via homology mapping. www.nature.com/articles/s41...
- cellSTAAR advances noncoding rare variant association analysis by integrating single-cell genomics data. www.nature.com/articles/s41...
- SmartEM: a smart machine learning-based pipeline for electron microscopy-based data acquisition for connectomics. www.nature.com/articles/s41...
- TransBrain translates brain phenotypes between mouse and human via homology mapping. www.nature.com/articles/s41...
- DynamicAtlas: a morphodynamic atlas of Drosophila development. www.nature.com/articles/s41...
- iGluSnFR4f and iGluSnFR4s are the latest generation of genetically encoded glutamate sensors, for tracking rapid dynamics and for recording from large populations of synapses. www.nature.com/articles/s41...
- A scalable, open source-framework can be used as a benchmarking suite for comparing macromolecular complex structure, interfaces and ligand interactions against experimental data. www.nature.com/articles/s41...
- CELTIC: a context-dependent deep learning model for in silico organelle localization in label-free microscopy images. www.nature.com/articles/s41...
- A new Review covers how machine learning and computer vision methods have empowered super-resolution microscopy. www.nature.com/articles/s41...
- A Perspective on 3D traction force microscopy provides practical experimental and computational guidance for users. @barrasa-fano.bsky.social www.nature.com/articles/s41...
- Two recent Reviews describe how to select optimal cell migration assays and how to analyze this data. www.nature.com/articles/s41... www.nature.com/articles/s41...
- SpaceBar: a cellular barcoding approach for simultaneous analysis of cell clonal and spatial identities. www.nature.com/articles/s41...
- The SpatialEx(+) framework uses histology to generate and integrate complementary spatial multi-omics data across samples. www.nature.com/articles/s41...
- Two distinct RNA-regulated destabilization domains support 3-color, live-cell imaging of single mRNAs. www.nature.com/articles/s41...
- Metient: a statistical framework for inferring patterns of metastatic spread and reconstructing cancer migration history. www.nature.com/articles/s41...
- Multicell: a deep learning method to capture complex cell dynamics in multicellular development. www.nature.com/articles/s41...
- A Resource paper provides a detailed atlas of morphogen-induced responses in human neural organoids. www.nature.com/articles/s41...
- Self-supervised reconstruction structured illumination microscopy allows long-term imaging of cellular processes. www.nature.com/articles/s41...
- An Analysis compares the performance of 27 single-cell perturbation response prediction methods under comprehensive test conditions. www.nature.com/articles/s41...
- In this month's Creature Column, we feature the ascidian tunicate Ciona, a model for marine systems life sciences. www.nature.com/articles/s41...
- Scikit-bio: a Python library for biological omic data analysis. www.nature.com/articles/s41...
- A Perspective reviews computational methods for cross-species knowledge transfer. www.nature.com/articles/s41...
- A Perspective reviews recent and emerging developments in building multimodal foundation transformer models in genomics. www.nature.com/articles/s41...
- An Analysis from benchmarks computational tools for RNA modification detection using nanopore direct RNA sequencing. www.nature.com/articles/s41...
- Novae: a graph-based foundation model for spatial transcriptomics modeling and analysis tasks. www.nature.com/articles/s41...
- Carta leverages lineage tracing data to infer the optimal trajectory of cell differentiation. www.nature.com/articles/s41...
- FACED 2.0: a method for high-speed, large FOV, volumetric 2-photon voltage and calcium imaging in the mouse and zebrafish brain. www.nature.com/articles/s41...
- CellSAM uses an object detector, CellFinder, to detect cells and prompt the Segment Anything Model to generate segmentations with human-level performance across a range of bioimage data. www.nature.com/articles/s41...
- A Method to Watch: Artificial intelligence agents for biology www.nature.com/articles/s41...
- A Method to Watch: Protein editing www.nature.com/articles/s41...
