AIMC Topic: Mice

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A novel retinal ganglion cell quantification tool based on deep learning.

Scientific reports
Glaucoma is a disease associated with the loss of retinal ganglion cells (RGCs), and remains one of the primary causes of blindness worldwide. Major research efforts are presently directed towards the understanding of disease pathogenesis and the dev...

Automated detection of mouse scratching behaviour using convolutional recurrent neural network.

Scientific reports
Scratching is one of the most important behaviours in experimental animals because it can reflect itching and/or psychological stress. Here, we aimed to establish a novel method to detect scratching using deep neural network. Scratching was elicited ...

Machine learning based CRISPR gRNA design for therapeutic exon skipping.

PLoS computational biology
Restoring gene function by the induced skipping of deleterious exons has been shown to be effective for treating genetic disorders. However, many of the clinically successful therapies for exon skipping are transient oligonucleotide-based treatments ...

Optimal tuning of weighted kNN- and diffusion-based methods for denoising single cell genomics data.

PLoS computational biology
The analysis of single-cell genomics data presents several statistical challenges, and extensive efforts have been made to produce methods for the analysis of this data that impute missing values, address sampling issues and quantify and correct for ...

Nonhuman rationality: a predictive coding perspective.

Cognitive processing
How can we rethink 'rationality' in the wake of animal and artificial intelligence studies? Can nonhuman systems be rational in any nontrivial sense? In this paper, we propose that all organisms, under certain circumstances, exhibit rationality to a ...

Multi-task learning for the simultaneous reconstruction of the human and mouse gene regulatory networks.

Scientific reports
The reconstruction of Gene Regulatory Networks (GRNs) from gene expression data, supported by machine learning approaches, has received increasing attention in recent years. The task at hand is to identify regulatory links between genes in a network....

A simple Ca-imaging approach to neural network analyses in cultured neurons.

Journal of neuroscience methods
BACKGROUND: Ca-imaging is a powerful tool to measure neuronal dynamics and network activity. To monitor network-level changes in cultured neurons, neuronal activity is often evoked by electrical or optogenetic stimulation and assessed using multi-ele...

Directed Evolution of a Selective and Sensitive Serotonin Sensor via Machine Learning.

Cell
Serotonin plays a central role in cognition and is the target of most pharmaceuticals for psychiatric disorders. Existing drugs have limited efficacy; creation of improved versions will require better understanding of serotonergic circuitry, which ha...

Graph embeddings on gene ontology annotations for protein-protein interaction prediction.

BMC bioinformatics
BACKGROUND: Protein-protein interaction (PPI) prediction is an important task towards the understanding of many bioinformatics functions and applications, such as predicting protein functions, gene-disease associations and disease-drug associations. ...

Cellpose: a generalist algorithm for cellular segmentation.

Nature methods
Many biological applications require the segmentation of cell bodies, membranes and nuclei from microscopy images. Deep learning has enabled great progress on this problem, but current methods are specialized for images that have large training datas...