Volume 10 Issue 5, May 2013

Editorial

Enhancing reproducibility

New reporting standards for Nature journal authors are intended to improve transparency and reproducibility.

Editorial 29 Apr 2013

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This Month

Nathan Shaner

Engineering a protein from a little-known marine invertebrate brings labs a bright, neon green sheen.

Vivien Marx
This Month 29 Apr 2013
Elements of visual style

Translate the principles of effective writing to the process of figure design.

Martin Krzywinski
This Month 29 Apr 2013

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Correspondence

Does systematic variation improve the reproducibility of animal experiments?

Rudy M Jonker
Anja Guenther
Tim Schmoll
Correspondence 29 Apr 2013
Reanalysis of Richter et al. (2010) on reproducibility

Russell D Wolfinger
Correspondence 29 Apr 2013
Reply to: "Reanalysis of Richter et al. (2010) on reproducibility"

Hanno Würbel
S Helene Richter
Joseph P Garner
Correspondence 29 Apr 2013
Exploring long-range genome interactions using the WashU Epigenome Browser

Xin Zhou
Rebecca F Lowdon
Ting Wang
Correspondence 29 Apr 2013

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Research Highlights

A brief history of nuclear organization

By marking protein-DNA interactions in real time, scientists track chromosomal rearrangements in the nuclei of living cells.

Michael Eisenstein
Research Highlights 29 Apr 2013
Fingerprinting with MRI

A new approach to magnetic resonance imaging data acquisition and analysis promises to improve sensitivity and facilitate quantitative measurements.

Allison Doerr
Research Highlights 29 Apr 2013
CRISPR silencing

An enzymatically dead Cas9 endonuclease permits targeted, RNA-guided transcriptional silencing.

Natalie de Souza
Research Highlights 29 Apr 2013
Shaping cellular niches

Researchers describe a simple way to design cellular culture environments.

Natalie de Souza
Research Highlights 29 Apr 2013

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Methods in Brief

A dilution solution to haplotyping

Methods in Brief 29 Apr 2013
Probing cells with lots of dots

Methods in Brief 29 Apr 2013
Observing a maturing protein

Methods in Brief 29 Apr 2013
Building DNA gridirons

Methods in Brief 29 Apr 2013

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Tools in Brief

Forward genetics in nonmodel species

Tools in Brief 29 Apr 2013
Metabotropic receptors under the spotlight

Tools in Brief 29 Apr 2013
Biological models in Python

Tools in Brief 29 Apr 2013
Profiling ubiquitin-like modifications

Tools in Brief 29 Apr 2013

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Research Highlights

Dispatches from the interior

Fluorescent biosensors that catch their targets at just the right moment reveal an unusual cell signaling mechanism.

Michael Eisenstein
Research Highlights 29 Apr 2013
Bacterial genomes by the droplet

To produce enough raw material for high-quality whole-genome sequencing, researchers capture and grow single, culture-resistant bacteria in gel micro-droplets.

Tal Nawy
Research Highlights 29 Apr 2013
Magnetic signaling control

Molecular assemblies on magnetic nanoparticles enable localized activation of signaling pathways inside cells.

Erika Pastrana
Research Highlights 29 Apr 2013

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Technology Feature

PCR: living life amplified and standardized

With strategies for reproducibility and quality control, scientists seek to cultivate better practices in quantitative PCR experiments.

Vivien Marx
Technology Feature 29 Apr 2013

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News & Views

Scaling up the systematic hunt for mammalian genetic interactions

Three RNA interference–based methods probe genetic interactions in mammalian cells at large scale.

Traver Hart
Jason Moffat
News & Views 29 Apr 2013
Inner-outer beauty: DNA-binding surface tags as cellular barcodes

Zinc-finger DNA-binding domains are expressed on the surface of cells so that the cells can be tagged with fluorescently labeled oligonucleotides, enabling many possible applications in complex cell populations.

Garry Nolan
News & Views 29 Apr 2013

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Brief Communication

Barcoding cells using cell-surface programmable DNA-binding domains

Surface expression of zinc-finger proteins coupled with double-stranded DNA probes permits programmable labeling and capture of subsets of cells in heterogenous populations.

Prashant Mali
John Aach
George M Church
Brief Communication 17 Mar 2013
A bright monomeric green fluorescent protein derived from Branchiostoma lanceolatum

This is a report of mNeonGreen, a very bright and monomeric green fluorescent protein with little sequence identity to existing fluorescent proteins.

Nathan C Shaner
Gerard G Lambert
Jiwu Wang
Brief Communication 24 Mar 2013
Direct transfer of whole genomes from bacteria to yeast

A direct transfer of bacterial genomic DNA to yeast enables genome engineering in genetically intractable bacteria.

Bogumil J Karas
Jelena Jablanovic
Yo Suzuki

Special:

Synthetic Biology
Brief Communication 31 Mar 2013

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Article

Whole-brain functional imaging at cellular resolution using light-sheet microscopy

Whole-brain imaging of neuronal activity with cellular resolution at almost a brain per second is demonstrated using high-speed light-sheet microscopy in the larval zebrafish brain.

Misha B Ahrens
Michael B Orger
Philipp J Keller
Article 18 Mar 2013
Single-molecule imaging of transcription factor binding to DNA in live mammalian cells

Light-sheet microscopy using a laser beam reflected off a mirrored AFM cantilever provides high signal-to-background images suitable for high-speed quantitative single-molecule imaging of transcription factor binding to DNA in the nucleus of living mammalian cells.

J Christof M Gebhardt
David M Suter
X Sunney Xie
Article 24 Mar 2013
Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping

Pairwise siRNA combinations and multiparametric imaging reveal positive and negative genetic interactions of epigenetic regulators in human cancer cells.

Christina Laufer
Bernd Fischer
Michael Boutros
Article 07 Apr 2013
Quantitative genetic-interaction mapping in mammalian cells

Pairwise gene knockdown creates genetic interaction maps for 130 mammalian genes.

Assen Roguev
Dale Talbot
Nevan J Krogan
Article 13 Feb 2013
Adhesion strength–based, label-free isolation of human pluripotent stem cells

Differences in substrate adhesion strength are exploited in a label-free approach to separate human pluripotent stem cells from other cell types. This approach can separate fully and partially reprogrammed human induced pluripotent stem cells.

Ankur Singh
Shalu Suri
Andrés J García

Special:

Reprogramming
Article 07 Apr 2013