AIMC Topic: Algorithms

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Cell segmentation and tracking using CNN-based distance predictions and a graph-based matching strategy.

PloS one
The accurate segmentation and tracking of cells in microscopy image sequences is an important task in biomedical research, e.g., for studying the development of tissues, organs or entire organisms. However, the segmentation of touching cells in image...

Predicting MicroRNA Sequence Using CNN and LSTM Stacked in Seq2Seq Architecture.

IEEE/ACM transactions on computational biology and bioinformatics
CNN and LSTM have proven their ability in feature extraction and natural language processing, respectively. So, we tried to use their ability to process the language of RNAs, i.e., predicting sequence of microRNAs using the sequence of mRNA. The idea...

Bioimage-Based Prediction of Protein Subcellular Location in Human Tissue with Ensemble Features and Deep Networks.

IEEE/ACM transactions on computational biology and bioinformatics
Prediction of protein subcellular location has currently become a hot topic because it has been proven to be useful for understanding both the disease mechanisms and novel drug design. With the rapid development of automated microscopic imaging techn...

XGBoost Model for Chronic Kidney Disease Diagnosis.

IEEE/ACM transactions on computational biology and bioinformatics
Chronic Kidney Disease (CKD) is a menace that is affecting 10 percent of the world population and 15 percent of the South African population. The early and cheap diagnosis of this disease with accuracy and reliability will save 20,000 lives in South ...

Deep Learning Benchmarks on L1000 Gene Expression Data.

IEEE/ACM transactions on computational biology and bioinformatics
Gene expression data can offer deep, physiological insights beyond the static coding of the genome alone. We believe that realizing this potential requires specialized, high-capacity machine learning methods capable of using underlying biological str...

nnU-Net: a self-configuring method for deep learning-based biomedical image segmentation.

Nature methods
Biomedical imaging is a driver of scientific discovery and a core component of medical care and is being stimulated by the field of deep learning. While semantic segmentation algorithms enable image analysis and quantification in many applications, t...

Strong inhibitory signaling underlies stable temporal dynamics and working memory in spiking neural networks.

Nature neuroscience
Cortical neurons process information on multiple timescales, and areas important for working memory (WM) contain neurons capable of integrating information over a long timescale. However, the underlying mechanisms for the emergence of neuronal timesc...

Real-time biomechanics using the finite element method and machine learning: Review and perspective.

Medical physics
PURPOSE: The finite element method (FEM) is the preferred method to simulate phenomena in anatomical structures. However, purely FEM-based mechanical simulations require considerable time, limiting their use in clinical applications that require real...

A Robust Feature Extraction Model for Human Activity Characterization Using 3-Axis Accelerometer and Gyroscope Data.

Sensors (Basel, Switzerland)
Human Activity Recognition (HAR) using embedded sensors in smartphones and smartwatch has gained popularity in extensive applications in health care monitoring of elderly people, security purpose, robotics, monitoring employees in the industry, and o...

Nondestructive Classification of Soybean Seed Varieties by Hyperspectral Imaging and Ensemble Machine Learning Algorithms.

Sensors (Basel, Switzerland)
During the processing and planting of soybeans, it is greatly significant that a reliable, rapid, and accurate technique is used to detect soybean varieties. Traditional chemical analysis methods of soybean variety sampling (e.g., mass spectrometry a...