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INTRIGUE is a statistical framework based on the directional consistency criterion for quantifying and controlling reproducibility in high-throughput experiments.
Long-read metagenomics offers a valuable approach for profiling bacterial communities. This work presents a long-read assembler, metaFlye, that specifically addresses the challenges of assembling metagenomes.
MSFragger-Glyco allows identification of N- and O-linked glycopeptides using the localization-aware open search strategy of the MSFragger search engine.
CRISPRi activities are measured from dCas9 fusions with 57 KRAB domains, which lead to the identification of ZIM3 KRAB–dCas9 fusion as a superior repressor.
EthoLoop enables real-time tracking and behavioral analysis of animals in naturalistic environments and can be combined with behavioral conditioning, optogenetic stimulation or wireless recording of neural activity. The system is illustrated with freely behaving mice and mouse lemurs.
The current standard approach for estimating error in proteome-scale cross-linking mass spectrometry datasets has severe limitations. A proposed set of data-quality metrics provides a more accurate assessment of error rate.
A genetically encoded acetylcholine sensor with improved sensitivity allows detection of cholinergic neurotransmission in vivo in the Drosophila and mouse brain.
It remains impossible using conventional Hi-C to differentiate interactions between and along sister chromatids. SisterC relies on selective destruction of nascent DNA and in combination with Hi-C offers a means to study intra- and inter-sister interactions independently.
An open-source software platform, Genuage, enables the easy perception of, interaction with and analysis of multidimensional point clouds in virtual reality.
Plasmonic scattering microscopy (PSM) enables the imaging of single proteins on SPR instruments. The method enables measurement of protein size and binding kinetics and is fully compatible with simultaneous traditional SPR measurements.
Tension-PAINT integrates molecular tension probes with DNA-PAINT to enable ~25-nm-resolution mapping of piconewton mechanical events. Tension-PAINT can be used to study dynamic forces, and an irreversible variant integrates force history over time.
Temporal decomposition through manifold fitting (TDM) is an analysis technique that decomposes blood oxygenation level dependent (BOLD) responses in task-based fMRI into different components that likely correspond to microvasculature- and macrovasculature-driven signals.
Red and yellow versions of the genetically encoded dopamine sensor dLight1 have been developed and allow multiplexed imaging of dopamine with neurotransmitter or cell-type-specific calcium combined with green sensors or actuators, as demonstrated ex vivo and in behaving rodents.
ScNT-seq leverages metabolic labeling of nascent RNA and droplet-based sequencing for parallel analysis of newly transcribed and pre-existing mRNAs, which enables time-resolved analysis of dynamic biological processes in single cells.
Feature-based molecular networking allows the generation of molecular networks for mass spectrometry data that can recognize isomers, incorporate relative quantification and integrate ion mobility data.
A systematic evaluation shows that excitation intensity has a dramatic impact on image quality in localization microscopy and reveals the benefits of lower excitation intensity for improved labeling efficiency and localization precision.
Scale-free vertical tracking microscopy based on a ‘hydrodynamic treadmill’ enables measuring long-range movements of freely suspended organisms with high spatiotemporal resolution.