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Ligand-inducible connection (LInC) combines HCV protease and protease inhibitors to offer an orthogonal chemogenetic approach for controlling protein functions including protein localization, gene expression, and cell–cell communication.
Stabilizable polypeptide linkages (StaPLs) based on hepatitis C virus protease enable robust, reversible, and orthogonal chemogenetic control of protein functions, including CRISPR–Cas9 activity, transcription, and protein dimerization.
The GeNets web platform can identify the most informative network, as well as execute, store and share network-based analyses of RNA-seq or genomic datasets.
Off-targets identified by whole-genome sequencing of CRISPR-treated mouse embryos and their genetic parents are compared to predictions from GUIDE-seq and computational methods.
An automated method coupling tandem mass spectrometry with high-resolution mass spectrometry imaging simultaneously reveals both the molecular structure of lipids and their spatial locations in tissue.
After CRISPR-mediated targeting of the peroxidase APEX2 to a genomic locus of interest, the proteins at that locus are labeled, enriched and identified via quantitative proteomics.
A miniature light-field microscope in combination with a signal-extraction approach enables high-speed volumetric calcium imaging in freely moving mice.
Instant structured illumination and total internal reflection fluorescence microscopy are combined to carry out time-lapse super-resolution TIRF imaging at frame rates up to 100 Hz, enabling observation of fast biological processes.
An open-source, real-time fitter for 3D single-molecule localization microscopy uses experimental point spread functions. This enables accurate 3D super-resolution microscopy on standard microscopes without dedicated 3D optics.
scmap enables the comparison of disparate single-cell RNA-seq data sets by projecting individual cells or clusters from a query sample onto a reference sample or cell atlas.
RT-FDC combines the specificity of fluorescent probes with functional readout of a cell's mechanical properties. The resulting correlation of fluorescence-based cell identity with mechanical measurements in real time allows the development of label-free, mechanical cell sorting.
Optopharmacological manipulation with ‘caged’ glutamate and GABA has enabled the study of these ligands’ cognate receptors, but other ligands such as tertiary amine drugs have not been amenable to caging. A new strategy yields a photoactivatable nicotine, PA-Nic, which allows manipulation of nicotinic acetylcholine receptors.
The integration of quantum chemistry and molecular dynamics programs coupled with a graphical user interface provides a streamlined tool for powerful simulations of biomolecular reaction mechanisms.
trendsceek identifies genes with significant spatial trends in single-cell spatial expression data, as well as in low-dimensional projections of dissociated single-cell RNA-seq data.
SpatialDE identifies genes with significant spatial expression patterns from multiplexed imaging or spatial RNA-sequencing data, and can cluster genes with similar spatial patterns as a form of expression-based tissue histology.