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The use of selected ion flow tube mass spectrometry for noninvasive on- or offline analysis of volatile organic compounds within breath is described. This standardized protocol should facilitate noninvasive disease detection and monitoring.
This protocol for detecting low-copy-number proteins from single cells using plasmonic immunosandwich assays covers fabrication of the plasmonic materials, data collection by Raman scattering and instructions for determining protein concentrations.
This protocol describes how to set up and use Raman spectroscopy for monitoring the course of solid-state reactions in vibratory ball mills, which will help increase our understanding of the mechanisms and kinetics of mechanochemical reactions.
This protocol describes how to perform long-term wide-field imaging of neuronal activity in behaving mice. The procedure discusses how to assemble and calibrate the macroscope, surgical preparation, imaging and data analysis.
This protocol describes strategies for in situ chemical derivatization and simultaneous quantitative imaging of multiple neurotransmitters and their precursors and metabolites in brain tissue sections using MALDI and desorption electrospray ionization mass spectrometry imaging.
The authors describe a step-by-step workflow for generating genome-wide chromatin interaction maps with nucleosome resolution using proximity ligation and deep sequencing followed by modeling optimal nucleosome position and orientation.
To design new multiprotein systems, the authors describe how to combine natural metal-coordinating motifs and hydroxamic acid groups to direct metal-mediated assembly of polyhedral protein architectures and 3D crystalline protein frameworks.
This protocol describes the surgical procedures for implantation of a wireless, battery-free optogenetic implant (NeuroLux spinal optogenetic device) for optogenetic control of spinal cord circuits in mice.
In this protocol, barcodes are introduced into cells via homology-directed targeted integration, and clones are tracked in xenotransplanted hosts by high-throughput sequencing. The results can be analyzed using a freely available online program.
A new protocol describes the synthesis and application of single-walled carbon nanotube-based catecholamine nanosensors, which can be used for near-IR imaging of dopamine signaling in acute brain slices at high spatiotemporal resolution.
This protocol describes the experimental and bioinformatics analysis steps for global profiling of protein-mediated RNA-RNA interactions in mammalian cells by in situ proximity ligation and deep sequencing.
This protocol assembles ordered libraries of transposon insertion mutants, even for strict anaerobes. It uses cell sorting to order the library and tracks transposon insertions using barcode sequencing to locate individual mutant strains in the ordered library.
Chemiresistors based on monolayer-capped metal nanoparticles (MCNPs) can be used for many diagnostic applications. The protocol describes how to prepare gold MCNPs on appropriate electrodes to analyze volatile organic compounds.
This protocol describes sample-preparation strategies for correlative 3D cryo-structured illumination microscopy and cryo-soft X-ray tomography. The authors also provide a direct comparison and recommendations regarding the selection and use of fiducials for 3D correlation.
In this protocol, the authors describe two automated versions of the Smart-seq2 method for full-length single-cell RNA sequencing: a medium-throughput variant using off-the-shelf reagents and a high-throughput version using a commercially available kit.
This protocol describes techniques for single-bouton stimulation and simultaneous pre- and postsynaptic recording at hippocampal mossy fiber–CA3 pyramidal neuron synapses in rat or mouse brain slices.
This protocol explains how to treat cancer cells in culture directly with cold atmospheric plasma or indirectly with plasma-conditioned medium. Quantification of the reactive oxygen species present following treatment is described. Upscaling of the treatments to allow molecular biology assays is also described.
The authors describe an optimized workflow for isolating single nuclei from archived postmortem tissues that does not require sorting or ultracentrifugation and can be used in snRNA and ATAC sequencing pipelines.