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scPROTEIN is a deep graph contrastive learning framework that can estimate the uncertainty of peptide quantification, denoise protein data, remove batch effects and encode single-cell proteomic-specific embeddings under a unified framework.
This analysis provides 108 noncoding CRISPR screens collated by the ENCODE4 consortium and establishes experimental guidelines for future CRISPRi screens characterizing functional cis-regulatory elements.
The exceptionally photostable green fluorescent protein StayGold has been monomerized in different laboratories, which has generated three unique monomeric variants that will enable new imaging applications.
New condenser aperture designs form square or rectangular beams that match the camera dimensions, which efficiently expands the data acquisition area in cryogenic electron microscopy.
MINSTED quantifies tiny movements of individual biomolecules with high spatiotemporal precision to successfully resolve the steps of the molecular motor protein kinesin-1 labeled with a single fluorophore as it switches protofilaments.
Brown seaweeds are multicellular eukaryotes that have been evolving independently of animals and plants for more than a billion years. The filamentous brown alga Ectocarpus has been used as a model to understand the biology of these enigmatic organisms and to shed light on a range of major questions, from the molecular basis of complex developmental patterns to the evolution of sex.
Peer review is at the heart of publishing scientific papers. In this first installment of a two-part Editorial, we explain how we manage the process at Nature Methods.
Diploid assembly is a difficult task that requires several types of genomic sequencing data, including — but not limited to — HiFi reads and parental sequences. Hypo-assembler, an assembly algorithm, uses high quality solid k-mers extracted from Illumina data alongside Nanopore reads to produce a high-quality diploid assembly using only Nanopore and Illumina data.
Square and rectangular beams made with new condenser apertures enable more efficient image capture in low-dose transmission electron microscopy with no compromise to image quality in single-particle cryoelectron microscopy.
This work introduces two polishers for refining the draft genome generated from nanopore long reads, as well as an assembler pipeline for producing telomere-to-telomere diploid genome with low error rate.
An optogenetic system enables the controlled release of soluble and transmembrane proteins for precise exploration of cellular protein function at the single-molecule level and streamlined single-molecule imaging.
Implementation of ultralong transients on an Orbitrap mass spectrometer improves mass resolution, sensitivity and accuracy of charge determination in the analysis of large macromolecular ions.
Deng et al. expand the toolbox of neurotransmitter sensors with high-sensitivity green and red genetically encoded serotonin sensors. These are suitable for in vivo applications, as demonstrated in a variety of applications in mice.
A copper(II)-functionalized Mycobacteriumsmegmatis porin A nanopore enables direct identification of all 20 proteinogenic amino acids, one unnatural amino acid and two post-translational modifications, and shows potential for peptide discrimination and sequencing.