March 2009 Volume 6 Number 3, pp 183 - 235
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EDITORIAL
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Lines of communication p181
The increasing impact of science on society calls for improved
communication between scientists and the public via dedicated
science media centers as well as nontraditional personal blogs.
doi:10.1038/nmeth0309-181
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CORRESPONDENCE
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Uncoupling diffusion and binding in FRAP experiments p183
Nevin A Lambert
doi:10.1038/nmeth0309-183a
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Reply to "Uncoupling diffusion and binding in FRAP
experiments" pp183 - 184
Mario Brameshuber et al.
doi:10.1038/nmeth0309-183b
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A computational approach to correct arginine-to-proline conversion
in quantitative proteomics pp184 - 185
Sung Kyu Park, Lujian Liao, Jin Young Kim and John R Yates, III
doi:10.1038/nmeth0309-184
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RESEARCH HIGHLIGHTS
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Reverse ChIP p187
The combination of a DNA probe and mass spectrometric analysis
allows the unbiased identification of chromatin-associated proteins.
Nicole Rusk
doi:10.1038/nmeth0309-187
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Mimicking a pore pp188 - 189
A functionalized polycarbonate nanosorter mimics fundamental
properties of the nuclear pore complex.
Amy Donner
doi:10.1038/nmeth0309-188a
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The many ages of a protein pp188 - 189
Monomeric fluorescent timers determine protein age within the cell.
Natalie de Souza
doi:10.1038/nmeth0309-188b
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News in brief p189
doi:10.1038/nmeth0309-189
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Setting a nanoparticle trap p190
Researchers developed a hybrid microfluidic-optical trapping device
to trap and transport very small nanoparticles and DNA molecules.
Allison Doerr
doi:10.1038/nmeth0309-190
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Good vibrations p192
A microscopy platform that brings magnetic resonance imaging to
the nanometer scale offers a promising new tool for three-dimensional
molecular visualization.
Michael Eisenstein
doi:10.1038/nmeth0309-192
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Microfluidics for the people p194
A simple approach for making multilayer microfluidic devices should
make this technology more accessible to biologists.
Allison Doerr
doi:10.1038/nmeth0309-194
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NEWS AND VIEWS
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Faster is better: improving the sensitivity of solid-state
NMR pp197 - 198
A method to improve the sensitivity of solid-state nuclear magnetic
resonance spectroscopy promises to extend this technology to larger
and more biologically interesting systems than previously feasible.
Stanley J Opella
doi:10.1038/nmeth0309-197
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BRIEF COMMUNICATIONS
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Direct determination of haplotypes from single DNA
molecules pp199 - 201
A map of single nucleotide polymorphisms (SNPs), also called a
haplotype map, is very informative for mapping complex trait loci,
but obtaining haplotypes over long genomic distances is very
challenging. The combination of dye-labeling each SNP on PCR
fragments with total internal reflection microscopy will allow the
reading of long-range haplotypes with relative ease.
Ming Xiao et al.
doi:10.1038/nmeth.1301
Abstract: http://links.ealert.nature.com/ctt?kn=37&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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Quantitative interaction proteomics using mass
spectrometry pp203 - 205
Absolute quantitative information about the stoichiometry of protein
complex components can be obtained with a modified affinity
purification-mass spectrometry method, as demonstrated for the human
protein phosphatase 2A network.
Alexander Wepf et al.
doi:10.1038/nmeth.1302
Abstract: http://links.ealert.nature.com/ctt?kn=78&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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High-efficiency labeling of sialylated glycoproteins on living
cells pp207 - 209
Sialic acid-containing cell-surface glycoproteins can be chemically
labeled with a biotin tag under mild conditions. The method is highly
efficient and uses commercially available reagents; it should be
useful for studying glycoprotein trafficking as well as in
glycoproteomics applications.
Ying Zeng et al.
doi:10.1038/nmeth.1305
Abstract: http://links.ealert.nature.com/ctt?kn=66&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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Programmed subcellular release for studying the dynamics of cell
detachment pp211 - 213
As cells move over a substrate, they need to first sever their
contact with the matrix by detaching focal adhesions. A setup
that allows spatially and temporally controlled release of focal
adhesions now facilitates the quantitative measurement of cell
movement across a substrate.
Bridget Wildt, Denis Wirtz and Peter C Searson
doi:10.1038/nmeth.1299
Abstract: http://links.ealert.nature.com/ctt?kn=85&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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Nanomole-scale protein solid-state NMR by breaking intrinsic 1H T1
boundaries pp215 - 218
Solid-state NMR spectroscopy is used to elucidate structural details
about proteins that cannot be easily studied by X-ray
crystallography, but because the technique is not very sensitive,
large sample amounts are required, limiting its biological
application. A combination of optimizations now increases the
sensitivity of solid-state NMR spectroscopy by up to 5-fold.
Nalinda P Wickramasinghe et al.
doi:10.1038/nmeth.1300
Abstract: http://links.ealert.nature.com/ctt?kn=98&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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ARTICLES
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Automated light-based mapping of motor cortex by photoactivation
of channelrhodopsin-2 transgenic mice pp219 - 224
Optical stimulation of channelrhodopsin-2 expressed in neurons of
the motor cortex is combined with electromyogram recordings or
motion-sensing of limb muscles to achieve fast motor mapping in
the mouse.
Oliver G S Ayling et al.
doi:10.1038/nmeth.1303
Abstract: http://links.ealert.nature.com/ctt?kn=3&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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Analysis of receptor oligomerization by FRAP microscopy pp225 - 230
Dual-color fluorescence recovery after photobleaching (FRAP) is used
to investigate dimerization and higher-order complex formation of
receptors at the surface of live cells. A defined fraction of
receptors is immobilized with antibodies, and the mobility of the
nonimmobilized fraction is measured by FRAP.
Sandra Dorsch et al.
doi:10.1038/nmeth.1304
Abstract: http://links.ealert.nature.com/ctt?kn=15&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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TECHNOLOGY FEATURE
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Small RNAs: biology's brave new world pp231 - 235
Small RNA discovery and profiling efforts are dramatically reshaping
fundamental concepts of how genes are regulated and are leading to
new tools for studying gene function.
Nathan Blow
doi:10.1038/nmeth0309-231
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APPLICATION NOTE
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Antibody signatures defined by high-content peptide microarray
analysis
Mike Schutkowski, Johannes Zerweck, Antonia Masch and Holger Wenschuh
Abstract: http://links.ealert.nature.com/ctt?kn=32&m=31730031&r=MTc2NjExMzUwMAS2&b=2&j=NDYxNDg0MDQS1&mt=1&rt=0
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