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The prix fixe strategy and software uses cofunction networks to identify causal genes among candidate genes in disease-associated loci from genome-wide association studies.
Here, the authors present an approach for the simultaneous optogenetic manipulation and recording of neural activity at cellular resolution using two-photon microscopy and apply their strategy in the mouse barrel cortex.
An improved analysis approach for single-wavelength anomalous diffraction (SAD)-based macromolecular X-ray structure determination expands the applicability of this phasing method for macromolecules with weak anomalous signals.
A native-SAD (single-wavelength anomalous diffraction) data collection strategy enables phasing using anomalous signal from a single native crystal, facilitating straightforward macromolecular X-ray structure determination.
Snap-tag reporter mice allow flexible yet efficient targeting of chemical indicators to genetically labeled cells in vivo. With this strategy, cells can either be labeled fluorescently or ablated using the same reporter.
A DNA nanoswitch platform enables inexpensive kinetic and thermodynamic analysis of a range of biomolecular interactions using a simple gel electrophoresis readout.
QTI-seq (quantitative translation initiation sequencing) maps the position of the start codon and thus allows the determination of initiation efficiency in response to various stimuli, such as starvation, in cell culture and in vivo.
Software to model, pack and integrate biological structures at the scale of macromolecular complexes and cellular organelles is described. It is applied in several contexts, including hypothesis generation and testing.
The Archaea metalloproteinase LysargiNase increases proteome coverage, identifies more C-terminal peptides from proteins and improves methylated peptide identification.
A genetically encoded peroxidase with improved sensitivity, APEX2, is reported for electron microscopy and proximity labeling at low expression levels.
Acoustic force spectroscopy applies acoustic forces across a large dynamic range for highly multiplexed single-molecule measurements in a simple, compact setup.
An improved genetically encoded red calcium sensor enables the monitoring of neuronal activity in cell culture and in vivo. R-CaMP2 has fast kinetics and a high affinity to calcium and can follow action potentials up to 40 Hz.
The open-source DIAMOND software provides protein alignment that is 20,000 times faster on short reads than BLASTX at similar sensitivity, for rapid analysis of large metagenomics data sets on a desktop computer.
This paper presents FpClass, a prediction method for physical protein-protein interactions. The method is benchmarked against experimental data and is used to predict, among others, partners of interactome 'orphans'.
Serial femtosecond crystallography experiments with diverse protein microcrystal suspensions are facilitated using a grease matrix as a carrier medium for sample injection.
Results show the minimum sequencing depth required for the discovery of differentially methylated regions at desired sensitivity and specificity and the trade-off between adding more replicates versus increasing sequencing depth.
This paper investigates the stress levels and behavior of wild animals when approached by remote-operated vehicles versus humans for data collection in field research
This paper presents an efficient method for generating nanobodies with high affinity and high specificity. In addition, a collection of nanobodies specific for GFP or mCherry that resulted from this work is described.