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Tools and Resources
A Tools and Resources article allows authors to publish the details of new experimental techniques, datasets, software tools, and other resources.
Stem Cells and Regenerative Medicine
Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19
Courtney Tindle et al.
An integrated stem cell-based disease modeling and computational approach demonstrates how proximal airway epithelium is critical for SARS-CoV-2 infectivity and distal alveolar cells are critical for simulating the host responses.
A unified platform to manage, share, and archive morphological and functional data in insect neuroscience
Stanley Heinze et al.
The InsectBrain Database is a novel, freely available software tool designed to accelerate research in the field of insect neuroscience and to improve implementation of open data concepts.
DeepEthogram, a machine learning pipeline for supervised behavior classification from raw pixels
James P Bohnslav et al.
DeepEthogram automatically classifies animal behavior videos into researcher-defined behaviors of interest, saving researcher time and enabling more detailed downstream analysis of behavior.
Biochemistry and Chemical Biology
Precise optical control of gene expression in
using improved genetic code expansion and Cre recombinase
Lloyd Davis et al.
A method combining optimised genetic code expansion and optogenetics allows dissection of neural circuits with single-cell precision in freely moving animals.
Computational and Systems Biology
PARROT is a flexible recurrent neural network framework for analysis of large protein datasets
Daniel Griffith, Alex S Holehouse
PARROT makes it easy for anyone to train and use system- or data-specific deep learning models that map between protein sequence and arbitrary sequence annotations.
Immunology and Inflammation
Ascorbic acid supports ex vivo generation of plasmacytoid dendritic cells from circulating hematopoietic stem cells
Anders Laustsen et al.
Probing of various culture conditions leads to fundamental advances in ex vivo production of plasmacytoid dendritic cells for use in immunotherapy.
The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging
Casey Paquola et al.
The BigBrainWarp toolbox facilitates integration of 3D human brain histology with neuroimaging, helping neuroscientists to utilise cytoarchitectural information in conjunction with in vivo imaging.
Classification and genetic targeting of cell types in the primary taste and premotor center of the adult
Gabriella R Sterne et al.
A split-GAL4 collection provides precise genetic targeting of 138 neuronal cell types in the subesophageal zone of adult
Genetics and Genomics
Scaled, high fidelity electrophysiological, morphological, and transcriptomic cell characterization
Brian R Lee et al.
High-quality, multimodal, electrophysiological, morphological, and transcriptomic data collection from a single cell using a refined Patch-seq protocol.
Computational and Systems Biology
Microbiology and Infectious Disease
MiSiC, a general deep learning-based method for the high-throughput cell segmentation of complex bacterial communities
Swapnesh Panigrahi et al.
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