Tuesday, February 9, 2016

Nature Methods Application Notes e-UPDATE: 9 February 2016

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9 February 2016 
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FEATURED APPLICATION NOTE
Diagenode® Premium RRBS technology: cost-effective DNA methylation mapping with superior coverage
www.diagenode.com/categories/rrbs-service >
Reduced representation bisulfite sequencing (RRBS) enables genome-scale DNA methylation analysis in any vertebrate species. The assay benefits from the practical advantages of bisulfite sequencing while avoiding the cost of whole-genome sequencing. The Diagenode Premium RRBS kit makes this technology widely available and provides high coverage (up to 4 million CpGs in human samples). Multiplexing prior to bisulfite conversion allows processing of 96 samples per experiment, enabling studies of large cohorts.
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Nikon's large-format multiphoton system for intravital imaging
www.nikon.com >
Ultrafast resonant scanners; high-sensitivity, low-noise GaAsP detectors; and industry-leading optics have made Nikon's A1R MP multiphoton confocal microscope a system of choice for deep tissue imaging. Recent collaborative efforts between Nikon and the Allen Institute for Brain Science resulted in the design of an open-architecture multiphoton system able to image large specimens. Stimulated by this collaboration, Nikon has developed a commercially available large-format multiphoton system that can be used for the most demanding intravital imaging applications.
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Segmentation & Quantitative Phase Imaging
www.phasics.fr >
Phasics offers a new quantitative phase imaging technique for optical microscopy to observe living cells without marking and to run accurate statistical analysison their evolution (migration, growth, intracellular processes ...). This simple plug-and-play camera relies on a patented technology, the quadri-wave lateral shearing interferometry, which measures directly the phase of the light transmitted through any biological specimen.
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The Airyscan detector from ZEISS: confocal imaging with improved signal-to-noise ratio and super-resolution
www.zeiss.com >
With Airyscan, ZEISS introduced a new detector concept for confocal laser-scanning microscopy (LSM). Whereas traditional LSM designs use a combination of pinhole and single-point detectors, Airyscan is a 32-channel gallium arsenide phosphide photomultiplier tube (GaAsP-PMT) area detector that collects a pinhole-plane image at every scan position. Each detector element functions as a single, very small pinhole. Knowledge about the beam path and the spatial distribution of each detector channel enables very light-efficient imaging with improved resolution and signal-to-noise ratio.
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Reduced-Bias Small RNA Library Preparation with Gel-Free or Low-Input Options
www.biooscientific.com >
Changes in microRNA (miRNA) expression have been shown to be associated with a variety of normal physiological processes, as well as diseases including cancer. Studies have already shown that miRNAs may provide useful markers for the development of disease diagnostic and prognostic assays. Next Generation Sequencing (NGS) of small RNAs has significantly improved our understanding of gene regulation, as small RNAs have been shown to fine tune or modulate the expression of genes important in tissue maintenance and disease. NGS brings sensitivity, specificity, and the ability to maximize data acquisition and minimize costs by using multiplex strategies to allow many samples to be sequenced simultaneously with small RNA analysis. This strategy has enabled researchers to perform genome-wide and high depth sequencing studies that would not be possible using other technologies. The ability to quickly and efficiently measure or profile these transcripts has great importance in research and clinical applications.
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DNA assembly and cloning in an overnight run with the BioXp™ 3200 system
www.syntheticgenomics.com >
The BioXp™ 3200 system is an automated personal genomic workstation that builds and clones DNA fragments in a process that is virtually hands-free. In an overnight run, the instrument generates cloned DNA from custom-designed oligonucleotide pools and reagents engineered from sequence information. Here we discuss highlights and advantages of the BioXp system and the two modules currently available, the assembly module and the assembly-and-cloning module.
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Automated live cell imaging of cell migration across a microfluidic-controlled chemoattractant gradient
www.millipore.com >
The quantification of cell-migration behavior in response to gradients is critical for understanding cellular movement and development. The CellASIC® ONIX microfluidic platform offers a microfluidic gradient plate to enable precision-controlled chemoattractant diffusion across perfusion barriers, enabling a quantitatively defined diffusion gradient stable enough for long-term, live cell analysis. Using the system, we studied the effect of a serum gradient on metastatic breast cancer cell migration distance, velocity and degree of chemotaxis.
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