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Cardinal v.3 is an open-source software for reproducible analysis of mass spectrometry imaging experiments, and includes data processing features such as mass recalibration, statistical analyses such as single-ion segmentation and rough annotation-based classification, and analyses of large-scale multitissue experiments.
This manuscript describes a refinement protocol that extends the e2gmm method to optimize both the orientation and conformation estimation of particles to improve the alignment for flexible domains of proteins.
Tension-activated cell tagging (TaCT) is a new method that uses flow cytometry to sort mechanically active cells based on the forces generated by their surface adhesion receptors.
Droplet-based microfluidics enable rapid mixing with millisecond dead times and allow single-molecule measurements of non-equilibrium binding kinetics on even challenging, strongly adsorptive samples, such as intrinsically disordered proteins.
skani achieves fast calculation of average nucleotide identity (ANI) between metagenome-assembled genomes (MAGs), with improved robustness against incomplete and fragmented MAGs.
SABER-IMC combines DNA-based signal amplification by exchange reaction (SABER) with imaging mass cytometry (IMC) to enable simultaneous and highly multiplexed marker detection, even of low-abundance markers not detectable with IMC alone.
This study shows the importance of proper metrics for comparing algorithms for bioimage segmentation and object detection by exploring the impact of metrics on the relative performance of algorithms in three image analysis competitions.
Open-3DSIM is a versatile open-source software for high-fidelity reconstruction of three-dimensional structured illumination microscopy data (with polarization). It is available in three convenient forms for user-friendly and customizable applications.
This study shows, when analyzing multi-sample metagenomic datasets, the multi-coverage binning approach outperforms the single-coverage binning alternative in generating bins with higher quality and less contamination.
Expansion spatial transcriptomics (Ex-ST) combines the power of tissue expansion with an improved RNA capture protocol for carrying out capture array-based spatial transcriptomics at high spatial resolution.
This paper proposes two new anisotropy metrics—the Fourier shell occupancy and the Bingham test—that can be used to understand the quality of cryogenic electron microscopy maps.
For EM-based connectomics applications, a staining protocol for large tissue samples in the range of a centimeter has been developed, which avoids artifacts common with established protocols.
Crowdsourcing condensate database and encyclopedia is a community-editable platform for verified biomolecular condensates and their protein constituents. It also provides an encyclopedia for the scientific terms used in condensate biology and a crowdsourcing web application.
Two mScarlet variants with high brightness and fast maturation times have been evolved. These variants behave favorably as fusion tags and Förster resonance energy transfer acceptors.