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ANCOM-BC2 is developed to perform multigroup differential abundance analysis and allows modeling of covariates and longitudinal measures while controlling false discovery rate (FDR) or mixed directional FDR.
The thermal-plex method for highly multiplexed imaging uses DNA probes activated when briefly elevated to designated temperatures for rapid, fluidics-free sequential imaging in cells and tissues.
The Cousa objective is an ultra-long working distance air objective optimized for two- and three-photon imaging. Bypassing challenges caused by water immersion and short working distances, the Cousa enables and improves imaging of diverse specimens.
Serial Lift-Out creates a series of lamellae from one lift-out volume for cryo-ET, increasing the ease and throughput of cryo-lift-out and enabling the study of molecular anatomy in multicellular systems including C. elegans larvae.
DeepMainmast is a protein structure modeling protocol for cryo-EM that combines the strengths of a deep-learning-based de novo protein main-chain-tracing approach with AlphaFold2-based structure predictions for improved performance.
Targettrack is a deep-learning-based pipeline for automatic tracking of neurons within freely moving C. elegans. Using targeted augmentation, the pipeline has a reduced need for manually annotated training data.
MAbID offers a multiplexing approach to uncover the genomic distributions of various epigenetic markers, enabling the study of how these markers jointly direct gene expression.
Next-generation red and green G-protein-coupled receptor-based dopamine sensors with improved properties have been developed. Their performance is demonstrated in cell culture, in brain slices and in vivo in the mouse.
An analysis of AlphaFold protein structure predictions shows that while in many cases the predictions are highly accurate, there are also many instances where the predicted structures or parts of predicted structures do not agree with experimentally resolved data. Therefore, care must be taken when using these predictions for informing structural hypotheses.
An integrative framework to simultaneously interrogate the dynamics of the transcriptome and proteome at subcellular resolution that combines two methods, localization of RNA (LoRNA) and a streamlined density-based localization of proteins by isotope tagging (dLOPIT).
Monomeric and tandem dimer derivatives of the bright and photostable green fluorescent protein StayGold offer versatile tools for tagging target proteins and membranes in extended live-cell imaging.
By combining fast lift-over and selective re-mapping, levioSAM2 enables efficient and accurate read mapping and variant calling leveraging complete reference genomes.
Two methods for fluorescence-based actinometry using organic dyes and photoconvertible fluorescent proteins enable rapid and precise measurement of light intensity at the sample in fluorescence microscopes.