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University Imaging Centers - Where the University sees the future

Journal Articles

Seeing red

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 637 (2017). doi:10.1038/nmeth.4363

The growing advantages of red to near-infrared fluorescent probes should move them beyond being a 'second color' in biological imaging.

Categories: Journal Articles

The Author File: Alexis Battle

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 639 (2017). doi:10.1038/nmeth.4345

Author: Vivien Marx

Calculating gene–environment interactions, and the role of a 'why' machine.

Categories: Journal Articles

Points of Significance: Principal component analysis

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 641 (2017). doi:10.1038/nmeth.4346

Authors: Jake Lever, Martin Krzywinski & Naomi Altman

PCA helps you interpret your data, but it will not always find the important patterns.

Categories: Journal Articles

Mass spectrometrists should search for all peptides, but assess only the ones they care about

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 643 (2017). doi:10.1038/nmeth.4338

Authors: Adriaan Sticker, Lennart Martens & Lieven Clement

Categories: Journal Articles

Response to “Mass spectrometrists should search for all peptides, but assess only the ones they care about”

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 644 (2017). doi:10.1038/nmeth.4339

Authors: William Stafford Noble & Uri Keich

Categories: Journal Articles

ProHits-viz: a suite of web tools for visualizing interaction proteomics data

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 645 (2017). doi:10.1038/nmeth.4330

Authors: James D R Knight, Hyungwon Choi, Gagan D Gupta, Laurence Pelletier, Brian Raught, Alexey I Nesvizhskii & Anne-Claude Gingras

Categories: Journal Articles

PIQED: automated identification and quantification of protein modifications from DIA-MS data

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 646 (2017). doi:10.1038/nmeth.4334

Authors: Jesse G Meyer, Sushanth Mukkamalla, Hanno Steen, Alexey I Nesvizhskii, Bradford W Gibson & Birgit Schilling

Categories: Journal Articles

Microbiology: Better tools for Bacteroides

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 649 (2017). doi:10.1038/nmeth.4358

Author: Tal Nawy

Two sets of complementary tools extend our capacity to manipulate the gut microbiome.

Categories: Journal Articles

Proteomics: Charting the subcellular proteome

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 650 (2017). doi:10.1038/nmeth.4359

Author: Allison Doerr

Human protein subcellular locations light up in the Cell Atlas resource.

Categories: Journal Articles

Biochemistry: CRISPR kinetics

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 650 (2017). doi:10.1038/nmeth.4360

Author: Nicole Rusk

In vitro Cas9-binding assays show the effects of mutations in the target sequence on binding kinetics.

Categories: Journal Articles

Neuroscience: Zooming into the larval zebrafish brain

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 652 (2017). doi:10.1038/nmeth.4361

Author: Nina Vogt

A serial-section electron microscopy data set of larval zebrafish brain—imaged at several scales—provides a resource for structure–function analyses of the animals' neural circuitry.

Categories: Journal Articles

Microbiology: Buckets of bacterial genomes

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 653 (2017). doi:10.1038/nmeth.4348

Categories: Journal Articles

Nanobiotechnology: Ultrafast thermal cycling

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 653 (2017). doi:10.1038/nmeth.4350

Categories: Journal Articles

Imaging: Single-protein detection by cryo-EM

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 653 (2017). doi:10.1038/nmeth.4351

Categories: Journal Articles

Genomics: Self-limiting Cas9

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 654 (2017). doi:10.1038/nmeth.4352

Categories: Journal Articles

Systems biology: The BioPlex network, 2.0

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 654 (2017). doi:10.1038/nmeth.4354

Categories: Journal Articles

Stem cells: Organoid variability examined

Nature Methods - 29 June 2017 - 12:00am

Nature Methods 14, 655 (2017). doi:10.1038/nmeth.4362

Author: Natalie de Souza

Single-cell transcriptomics is used to determine what cell types are present in brain organoids and how much these cell types vary across organoids.

Categories: Journal Articles

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