AIMC Topic: Algorithms

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Machine Learning-Based Classification of the Health State of Mice Colon in Cancer Study from Confocal Laser Endomicroscopy.

Scientific reports
In this article, we address the problem of the classification of the health state of the colon's wall of mice, possibly injured by cancer with machine learning approaches. This problem is essential for translational research on cancer and is a priori...

SpliceFinder: ab initio prediction of splice sites using convolutional neural network.

BMC bioinformatics
BACKGROUND: Identifying splice sites is a necessary step to analyze the location and structure of genes. Two dinucleotides, GT and AG, are highly frequent on splice sites, and many other patterns are also on splice sites with important biological fun...

Family history information extraction via deep joint learning.

BMC medical informatics and decision making
Family history (FH) information, including family members, side of family of family members (i.e., maternal or paternal), living status of family members, observations (diseases) of family members, etc., is very important in the decision-making proce...

Family member information extraction via neural sequence labeling models with different tag schemes.

BMC medical informatics and decision making
BACKGROUND: Family history information (FHI) described in unstructured electronic health records (EHRs) is a valuable information source for patient care and scientific researches. Since FHI is usually described in the format of free text, the entire...

A generative model for constructing nucleic acid sequences binding to a protein.

BMC genomics
BACKGROUND: Interactions between protein and nucleic acid molecules are essential to a variety of cellular processes. A large amount of interaction data generated by high-throughput technologies have triggered the development of several computational...

A computational method to predict topologically associating domain boundaries combining histone Marks and sequence information.

BMC genomics
BACKGROUND: The three-dimensional (3D) structure of chromatins plays significant roles during cell differentiation and development. Hi-C and other 3C-based technologies allow us to look deep into the chromatin architectures. Many studies have suggest...

Fast and accurate microRNA search using CNN.

BMC bioinformatics
BACKGROUND: There are many different types of microRNAs (miRNAs) and elucidating their functions is still under intensive research. A fundamental step in functional annotation of a new miRNA is to classify it into characterized miRNA families, such a...

Old drug repositioning and new drug discovery through similarity learning from drug-target joint feature spaces.

BMC bioinformatics
BACKGROUND: Detection of new drug-target interactions by computational algorithms is of crucial value to both old drug repositioning and new drug discovery. Existing machine-learning methods rely only on experimentally validated drug-target interacti...

iProDNA-CapsNet: identifying protein-DNA binding residues using capsule neural networks.

BMC bioinformatics
BACKGROUND: Since protein-DNA interactions are highly essential to diverse biological events, accurately positioning the location of the DNA-binding residues is necessary. This biological issue, however, is currently a challenging task in the age of ...

IILLS: predicting virus-receptor interactions based on similarity and semi-supervised learning.

BMC bioinformatics
BACKGROUND: Viral infectious diseases are the serious threat for human health. The receptor-binding is the first step for the viral infection of hosts. To more effectively treat human viral infectious diseases, the hidden virus-receptor interactions ...