AIMC Topic: Mice

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Efficient implementation of convolutional neural networks in the data processing of two-photon in vivo imaging.

Bioinformatics (Oxford, England)
MOTIVATION: Functional imaging at single-neuron resolution offers a highly efficient tool for studying the functional connectomics in the brain. However, mainstream neuron-detection methods focus on either the morphologies or activities of neurons, w...

Uncovering the mouse olfactory long non-coding transcriptome with a novel machine-learning model.

DNA research : an international journal for rapid publication of reports on genes and genomes
Very little is known about long non-coding RNAs (lncRNAs) in the mammalian olfactory sensory epithelia. Deciphering the non-coding transcriptome in olfaction is relevant because these RNAs have been shown to play a role in chromatin modification and ...

DeepIsoFun: a deep domain adaptation approach to predict isoform functions.

Bioinformatics (Oxford, England)
MOTIVATION: Isoforms are mRNAs produced from the same gene locus by alternative splicing and may have different functions. Although gene functions have been studied extensively, little is known about the specific functions of isoforms. Recently, some...

Multi-omics integration-a comparison of unsupervised clustering methodologies.

Briefings in bioinformatics
With the recent developments in the field of multi-omics integration, the interest in factors such as data preprocessing, choice of the integration method and the number of different omics considered had increased. In this work, the impact of these f...

DeeReCT-PolyA: a robust and generic deep learning method for PAS identification.

Bioinformatics (Oxford, England)
MOTIVATION: Polyadenylation is a critical step for gene expression regulation during the maturation of mRNA. An accurate and robust method for poly(A) signals (PASs) identification is not only desired for the purpose of better transcripts' end annota...

DeepMRMP: A new predictor for multiple types of RNA modification sites using deep learning.

Mathematical biosciences and engineering : MBE
RNA modification plays an indispensable role in the regulation of organisms. RNA modification site prediction offers an insight into diverse cellular processing. Regarding different types of RNA modification site prediction, it is difficult to tell t...

Assessment of Laboratory Mouse Activity in Video Recordings Using Deep Learning Methods.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Analysis of laboratory animal behavior allows assessment of animal wellbeing. We present a method for the classification of different activities of laboratory mice by analyzing video clips using three deep learning methods. Animals placed in observat...

An End-to-end System for Automatic Characterization of Iba1 Immunopositive Microglia in Whole Slide Imaging.

Neuroinformatics
Traumatic brain injury (TBI) is one of the leading causes of death and disability worldwide. Detailed studies of the microglial response after TBI require high throughput quantification of changes in microglial count and morphology in histological se...

Cocaine-Induced Preference Conditioning: a Machine Vision Perspective.

Neuroinformatics
Existing work on drug-induced synaptic changes has shown that the expression of perineuronal nets (PNNs) at the cerebellar cortex can be regulated by cocaine-related memory. However, these studies on animals have mostly relied on limited manually-dri...

OPA2Vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction.

Bioinformatics (Oxford, England)
MOTIVATION: Ontologies are widely used in biology for data annotation, integration and analysis. In addition to formally structured axioms, ontologies contain meta-data in the form of annotation axioms which provide valuable pieces of information tha...