MOTIVATION: The emergence of abundant biological networks, which benefit from the development of advanced high-throughput techniques, contributes to describing and modeling complex internal interactions among biological entities such as genes and pro...
Microfluidic-based assays have become effective high-throughput approaches to examining replicative aging of budding yeast cells. Deep learning may offer an efficient way to analyze a large number of images collected from microfluidic experiments. He...
IEEE/ACM transactions on computational biology and bioinformatics
Jan 1, 2021
Understanding the ageing process is a very challenging problem for biologists. To help in this task, there has been a growing use of classification methods (from machine learning) to learn models that predict whether a gene influences the process of ...
Adenine auxotrophy is a commonly used non-selective genetic marker in yeast research. It allows investigators to easily visualize and quantify various genetic and epigenetic events by simply reading out colony color. However, manual counting of large...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2020
Genome3D consortium is a collaborative project involving protein structure prediction and annotation resources developed by six world-leading structural bioinformatics groups, based in the United Kingdom (namely Blundell, Murzin, Gough, Sternberg, Or...
IEEE transactions on visualization and computer graphics
Jan 1, 2020
Complex computational models are often designed to simulate real-world physical phenomena in many scientific disciplines. However, these simulation models tend to be computationally very expensive and involve a large number of simulation input parame...
IEEE/ACM transactions on computational biology and bioinformatics
Jan 1, 2020
To describe the cellular functions of proteins and genes, a potential dynamic vocabulary is Gene Ontology (GO), which comprises of three sub-ontologies namely, Biological-process, Cellular-component, and Molecular-function. It has several application...
Cellular microscopy images contain rich insights about biology. To extract this information, researchers use features, or measurements of the patterns of interest in the images. Here, we introduce a convolutional neural network (CNN) to automatically...
IEEE journal of biomedical and health informatics
May 1, 2019
Predicting the protein-protein interactions (PPIs) has played an important role in many applications. Hence, a novel computational method for PPIs prediction is highly desirable. PPIs endow with protein amino acid mutation rate and two physicochemica...
IEEE transactions on pattern analysis and machine intelligence
Oct 1, 2018
Error Correcting Output Codes (ECOC) is a successful technique in multi-class classification, which is a core problem in Pattern Recognition and Machine Learning. A major advantage of ECOC over other methods is that the multi-class problem is decoupl...