The journal of physical chemistry B
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Array
Must ReadVIDEO: Emma Lundberg on Mapping the Spatiotemporal Proteome Architecture of Human Cells
iScience
Activation of gene expression by detergent-like protein domains
Biophysical journal
metapredict: a fast, accurate, and easy-to-use predictor of consensus disorder and structure
Array
SGnn
Frontiers in molecular biosciences
SGnn: A Web Server for the Prediction of Prion-Like Domains Recruitment to Stress Granules Upon Heat Stress
Nature
Highly accurate protein structure prediction with AlphaFold
Jill Bouchard
Editor in Chief, Condensates.com
This is one of two big papers that came out on the same day and could reshape how we study proteins involved in condensates. See also the Science paper about RoseTTAFold.
Science
Accurate prediction of protein structures and interactions using a three-track neural network
Jill Bouchard
Editor in Chief, Condensates.com
This is one of two big papers that came out on the same day and could reshape how we study proteins involved in condensates. See also the Nature paper about AlphaFold.
BioRxiv
metapredict: a fast, accurate, and easy-to-use cross-platform predictor of consensus disorder
Jill Bouchard
Editor in Chief, Condensates.com
Wanna try a new deep-learning disorder predictor that's been trained on consensus scores? Give this one a shot...
Bioinformatics (Oxford, England)
In-silico prediction of in-vitro protein liquid-liquid phase separation experiments outcomes with multi-head neural attention
Nanoscale
Rapid prediction of drug inhibition under heat stress: single-photon imaging combined with a convolutional neural network
Jill Bouchard
Editor in Chief, Condensates.com
This could be a really useful method for anyone wanting to screen drugs that may modulate stress granules.
bioRxiv
Machine learning models for predicting protein condensate formation from sequence determinants and embeddings
Frontiers in bioengineering and biotechnology
Potential of Microfluidics and Lab-on-Chip Platforms to Improve Understanding of ” prion-like” Protein Assembly and Behavior
Jill Bouchard
Editor in Chief, Condensates.com
Developments in microfluidic methods seem to have exploded this year. This review might spark some ideas for studying aggregation-prone condensates.
Proteins
cnnAlpha: Protein Disordered Regions Prediction by Reduced Amino Acid Alphabets and Convolutional Neural Networks
Jill Bouchard
Editor in Chief, Condensates.com
These authors put machine learning to work for predicting disordered regions. Have you tried it yet? It might turn out to be useful for new proteins found in condensates...
Assistant Professor of Biological Neurochemistry (Tenure Track)
Radboud University | Nijmegen, Netherlands
ApplyScientific reports
The Order-Disorder Continuum: Linking Predictions of Protein Structure and Disorder Through Molecular Simulation
bioRxiv
3D neural network-based particle tracking reveals spatial heterogeneity of the cytosol
Jill Bouchard
Editor in Chief, Condensates.com
Not to be confused with nuclear gems, these GEMs were used to carefully image and map the contents of the cytosol. How clever!
bioRxiv
Deep-learning enables proteome-scale identification of phase-separated protein candidates from immunofluorescence images
Jan
20
Deep Learning for Image Analysis – EMBL Course
Monday, January 20, 2020 | Heidelberg, Germany
Nucleic acids research