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- 1From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedTo the Editor: Although conventional microscopes have a resolution limited by diffraction to about half the wavelength of light, several recent advances have led to microscopy methods that achieve roughly tenfold...
- 2From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedWe describe a method to accurately quantify human tumor proteomes by combining a mixture of five stable-isotope labeling by amino acids in cell culture (SILAC)-labeled cell lines with human carcinoma tissue. This...
- 3From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedSurface-enhanced Raman scattering (SERS) is a useful approach for enhancing Raman signals by distributing metal nanoparticles over a surface, but the nanoparticles often stick to each other and to the material being...
- 4From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedWe used a suspended microchannel resonator (SMR) combined with picoliter-scale microfluidic control to measure buoyant mass and determine the 'instantaneous' growth rates of individual cells. The SMR measures mass with...
- 5From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedWhen grown in culture, human embryonic stem cells accrue mutations. Many of these changes are similar to those observed in cancer cells and may affect the cells' suitability for use in therapies or even for studying...
- 6From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedSequencing machines are faster than ever, but they are ill-equipped to 'illuminate' regions referred to as dark matter: common insertions not reflected in the reference genome, certain repetitive sequences and 'tough...
- 7From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedTo the Editor: Scientists commonly form histograms of counted events from their data, and extract parameters by fitting to a known model. Anytime a scientist counts photons, molecules, cells or data for individuals in...
- 8From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedWe describe a method for conditional regulation of gene expression based on the processing of an intron cassette. The RNA processing factor MEC-8 is necessary for the function of the Caenorhabditis elegans touch...
- 9From: Nature Methods. (Vol. 7, Issue 5) Peer-Reviewed"Where PCR is really going," says Olivier Harismendy at the University of California, San Diego, "is parallelization and miniaturization." Indeed, researchers are making use of a wide variety of materials and...
- 10From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedIncreasing knowledge about the heterogeneity of mRNA expression within cell populations highlights the need to study transcripts at the level of single cells. We present a method for detection and genotyping of...
- 11From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedComputer-generated three-dimensional (3D) images are finding ever wider use in entertainment, and even scientists are increasingly using 3D images generated from image stacks acquired during serial section imaging of...
- 12From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedThe specification of cell and tissue types--a question at the heart of biology--depends on patterns of gene expression controlled in part by the activity of transcription factors. It is by now fairly clear that...
- 13From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedThe super-SILAC approach facilitates the quantitative analysis of human tumor tissue proteomes. Over the past decade, advances in technology have enabled protein mass spectrometry to evolve from enabling simple...
- 14From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedThe extent of human genomic structural variation suggests that there must be portions of the genome yet to be discovered, annotated and characterized at the sequence level. We present a resource and analysis of 2,363...
- 15From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedUnderstanding how the activity of specific sets of neurons in the brain drives particular actions requires monitoring neuronal activity while the animals are free to move. Neural recordings in freely behaving animals...
- 16From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedThe human genome is ten years old. We acknowledge its reference assembly as an invaluable resource essential for many purposes such as the assembly of short reads from high-throughput sequencing platforms into...
- 17From: Nature Methods. (Vol. 7, Issue 5) Peer-Reviewed
High-speed in vivo calcium imaging reveals neuronal network activity with near-millisecond precision
Two-photon calcium imaging of neuronal populations enables optical recording of spiking activity in living animals, but standard laser scanners are too slow to accurately determine spike times. Here we report in vivo... - 18From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedThe titanium-sapphire lasers used in two-photon microscopy have low power output in the excitation wavelength range for red fluorescent proteins, limiting their application. Piatkevich et al. introduce two new monomeric...
- 19From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedWe describe an iterative algorithm that converges to the maximum likelihood estimate of the position and intensity of a single fluorophore. Our technique efficiently computes and achieves the Cramer-Rao lower bound, an...
- 20From: Nature Methods. (Vol. 7, Issue 5) Peer-ReviewedSouza et al. describe a method for three-dimensional tissue culture by magnetic cell levitation. The cells are incubated with a hydrogel made up of gold, magnetic iron oxide nanoparticles and bacteriophages. By...