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CellPhoneDB infers cell–cell communication by integrating single-cell genomics data with a curated database of ligand–receptor interactions. Now, a Protocol Update describes the latest version of the tool including many new features.
Now a protocol enables simultaneous measurement of gene expression and chromatin state in intact tissues, unlocking the relationship between tissue architecture and gene regulation.
Single-cell CRISPR screening is a powerful method for biological discovery. Such screens genetically perturb many genes in parallel and use single-cell RNA sequencing to assess the transcriptomic effects. Now, an in vivo protocol facilitates screens in mouse brain, using adeno-associated virus with transposon-based delivery of the CRISPR guide RNAs.
A protocol for the preparation of crystals for microcrystal electron diffraction provides X-ray crystallographers and cryo-electron microscopists access to a method that facilitates the determination of molecular structures from submicrometer crystals at atomic resolution.
Poorly performing antibodies contribute to the reproducibility crisis in biomedical research. The market offers millions of antibodies and validating them is a cumbersome process. Now, the non-profit Antibody Characterization through Open Science (YCharOS) organization shares a step-by-step protocol for rigorous antibody validation using genetic (knockout) cell line controls.
A recent protocol for PASTE (programmable addition via site-specific targeting elements) combines prime editing and site-specific integrases to integrate large genetic payloads.
Standardized neuroimaging protocols are essential to advancing comparability and replicability. Now, a comprehensive magnetic resonance imaging acquisition and analysis protocol from the Rhineland Study provides a valuable framework for image acquisition and analysis that is suitable for both large- and small-scale neuroimaging studies.
A consensus statement outlines the best practices to refine animal welfare in rodent models of cancer. Their adoption will allow the standardization of experimental interventions, considering the characteristics of each cancer model, thereby improving the reproducibility and translational value of data obtained in rodents.
