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Preview: Nature Protocols

Nature Protocols

Nature Protocols is an interactive online resource for laboratory protocols for bench researchers. The core content is high quality, peer-reviewed protocols that are presented in a 'recipe' style, providing step-by-step descriptions of procedures that use


Murine chronic lymph node window for longitudinal intravital lymph node imaging


This protocol describes the surgical preparation for implantation of a chronic lymph node window in mice. This preparation allows for stable longitudinal intravital imaging of the inguinal lymph node without the need for serial surgeries while preserving lymph node blood and lymph flow.

Shear-thinning and self-healing hydrogels as injectable therapeutics and for 3D-printing


Hydrogels, networks of water-swollen polymers, are being exploited for the local delivery of cells and biologically relevant molecules. Loebel et al. describe the preparation of supramolecular hydrogels and their characterization.

Use of luciferase probes to measure ATP in living cells and animals


This protocol describes how to construct luciferase probes that are targeted to the mitochondrial matrix or the outer surface of the plasma membrane. These probes can be used to measure ATP concentrations in different cellular compartments.

Capturing suboptical dynamic structures in lipid bilayer patches formed from free-standing giant unilamellar vesicles


Bhatia et al. describe how to prepare giant unilamellar vesicles by using complex lipid mixtures and proteins (Na+/K+-ATPase) at physiological conditions; the protocol includes subsequent imaging of lateral nanoscale structures of the membrane.

A fluorescence-based imaging method to measure in vitro and in vivo mitophagy using mt-Keima


Sun et al. describe how to image and quantify mitophagy in both living cells and tissues, using the pH-sensitive fluorescent reporter mt-Keima. This protocol provides information for analysis by both confocal and super-resolution microscopy.

Preparation of a Trp-BODIPY fluorogenic amino acid to label peptides for enhanced live-cell fluorescence imaging


Fluorescent peptides with excellent target specificity are useful imaging probes. This protocol describes the synthesis of a tryptophan-based fluorogenic amino acid (Fmoc-Trp(C2-BODIPY)-OH) and its incorporation into peptides for live-cell imaging.

O2-controllable hydrogels for studying cellular responses to hypoxic gradients in three dimensions in vitro and in vivo


This protocol describes how to make and use a gelatin-based hypoxia-inducible hydrogel to inject or embed tissue or cells. This enables the cellular responses to controllable hypoxic gradients to be assessed in vitro and in vivo, e.g., in mice.

Patch-clamp technique to characterize ion channels in enlarged individual endolysosomes


Chen, Cang and colleagues describe how to characterize intracellular ion channels using a manual patch-clamp technique on enlarged organelles such as endolysosomes.

Mapping genome-wide transcription-factor binding sites using DAP-seq


This protocol describes DAP-seq, a transcription-factor binding site discovery assay that can be used to produce cistrome and epicistrome maps for any organism.