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- 1From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedWe present a method to identify and characterize interactions between a fluorophore-labeled protein ('prey') and a membrane protein ('bait') in live mammalian cells. Cells are plated on micropatterned surfaces...
- 2From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedThe ability to directly visualize nanoscopic cellular structures and their spatial relationship in all three dimensions will greatly enhance our understanding of molecular processes in cells. Here we demonstrated...
- 3From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedA year ago we designated as Method of the Year the now rather inaptly named next-generation sequencing--the set of faster and cheaper sequencing technologies that make it possible to obtain genomic sequence information...
- 4From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedSylamer is a method for detecting microRNA target and small interfering RNA off-target signals in 3' untranslated regions from a ranked gene list, sorted from upregulated to downregulated, after a microRNA perturbation...
- 5From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedKnowledge of the orientation of molecules within biological structures is crucial to understanding the mechanisms of cell function. We present a method to image simultaneously the positions and fluorescence anisotropies...
- 6From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedChemical-genetic manipulation of enzyme activity allows specific memory erasure in the mouse. To study the role of a gene in a complex phenomenon such as memory processing, in particular when that gene belongs to a...
- 7From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedOver the past year, Jessie Ni, director of the stem cell department at R&D Systems in Minneapolis, has been attending a variety of scientific conferences, giving tutorial presentations on stem cell culture and use....
- 8From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedAn algorithm for identifying allosteric mechanisms allows researchers to assemble a functional multidomain protein and may offer new evolutionary insights. The principle of allosteric regulation, in which...
- 9From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedComprehensive sets of clones and improved high-throughput methods for production of functional proteins now allow proteome-scale in vitro experiments on nearly 15,000 human genes. Facile access to robust systems for...
- 10From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedResearchers describe a method for protein identification and quantification based on electron-vibration-vibration two-dimensional infrared spectroscopy. Before mass spectrometry-based protein identification became...
- 11From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedEfficient methods to characterize the binding properties of affinity reagents are required. A combination of bacterial surface display, flow cytometry and pyrosequencing is now used for high-speed mapping of the epitopes...
- 12From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedA diamond impurity holds great promise for nanoscale magneto-optical resonance imaging. A common, yellowish diamond impurity called a nitrogen-vacancy center decreases diamonds' value as jewels, but the groups of Fedor...
- 13From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedAppropriate resources and expression technology necessary for human proteomics on a whole-proteome scale are being developed. We prepared a foundation for simple and efficient production of human proteins using the...
- 14From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedWe report a technique to evaluate the same tumor microenvironment over multiple intravital imaging sessions in living mice. We optically marked individual tumor cells expressing photoswitchable proteins in an orthotopic...
- 15From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedWe describe a method for mapping the epitopes recognized by antibodies, based on bacterial surface expression of antigen protein fragments followed by antibody-based flow-cytometric sorting. We analyzed the binding sites...
- 16From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedThe Wellcome Trust Sanger Institute is one of the world's largest genome centers, and a substantial amount of our sequencing is performed with 'next-generation' massively parallel sequencing technologies: in June 2008...
- 17From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedTo scale up the production and complexity of DNA nanostructures, researchers enlist the help of Escherichia coli to replicate and assemble them in vivo. "Let the cell do the work" was the mantra behind recent efforts...
- 18From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedTo the Editor: Nature Methods' editorial (1) of March 2008 asserts that the deposition of supporting raw microarray datasets is "routine." However, our retrospective study shows this not to be the case. We surveyed...
- 19From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedThe nonrandom positioning of genes inside eukaryotic cell nuclei is implicated in central nuclear functions. However, the spatial organization of the genome remains largely uncharted, owing to limited resolution of...
- 20From: Nature Methods. (Vol. 5, Issue 12) Peer-ReviewedSomething as basic as temperature is actually quite difficult to determine in vivo. Existing magnetic resonance imaging-based methods are subject to inaccuracies caused by inhomogeneous magnetic fields in tissues....