AIMC Topic: Algorithms

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FunlncModel: integrating multi-omic features from upstream and downstream regulatory networks into a machine learning framework to identify functional lncRNAs.

Briefings in bioinformatics
Accumulating evidence indicates that long noncoding RNAs (lncRNAs) play important roles in molecular and cellular biology. Although many algorithms have been developed to reveal their associations with complex diseases by using downstream targets, th...

miCGR: interpretable deep neural network for predicting both site-level and gene-level functional targets of microRNA.

Briefings in bioinformatics
MicroRNAs (miRNAs) are critical regulators in various biological processes to cleave or repress translation of messenger RNAs (mRNAs). Accurately predicting miRNA targets is essential for developing miRNA-based therapies for diseases such as cancer a...

BioDSNN: a dual-stream neural network with hybrid biological knowledge integration for multi-gene perturbation response prediction.

Briefings in bioinformatics
Studying the outcomes of genetic perturbation based on single-cell RNA-seq data is crucial for understanding genetic regulation of cells. However, the high cost of cellular experiments and single-cell sequencing restrict us from measuring the full co...

AutoXAI4Omics: an automated explainable AI tool for omics and tabular data.

Briefings in bioinformatics
Machine learning (ML) methods offer opportunities for gaining insights into the intricate workings of complex biological systems, and their applications are increasingly prominent in the analysis of omics data to facilitate tasks, such as the identif...

AI-Assisted Application for Pediatric Drug Dosing.

Studies in health technology and informatics
Technology in the medical field is continuously advancing due to its numerous subdomains and the ever-growing medical needs of people. Information systems have become integral to doctors' daily routines in patient care, offering flexibility and suppo...

[Deep Learning Reconstruction Algorithm Combined With Smart Metal Artifact Reduction Technique Improves Image Quality of Upper Abdominal CT in Critically Ill Patients].

Sichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition
OBJECTIVE: To evaluate the effect of deep learning reconstruction algorithm combined with smart metal artifact reduction (DLMAR) on the quality of abdominal CT images in critically ill patients who are unable to raise their arms and require electroca...

Sparse-Coding Variational Autoencoders.

Neural computation
The sparse coding model posits that the visual system has evolved to efficiently code natural stimuli using a sparse set of features from an overcomplete dictionary. The original sparse coding model suffered from two key limitations; however: (1) com...

High-dimensional Immune Profiles and Machine Learning May Predict Acute Myeloid Leukemia Relapse Early following Transplant.

Journal of immunology (Baltimore, Md. : 1950)
Identification of early immune signatures associated with acute myeloid leukemia (AML) relapse following hematopoietic stem cell transplant (HSCT) is critical for patient outcomes. We analyzed PBMCs from 58 patients with AML undergoing HSCT, focusing...

Hepatocellular Carcinoma Immune Microenvironment Analysis: A Comprehensive Assessment with Computational and Classical Pathology.

Clinical cancer research : an official journal of the American Association for Cancer Research
PURPOSE: The spatial variability and clinical relevance of the tumor immune microenvironment (TIME) are still poorly understood for hepatocellular carcinoma (HCC). In this study, we aim to develop a deep learning (DL)-based image analysis model for t...

Sub-sampling graph neural networks for genomic prediction of quantitative phenotypes.

G3 (Bethesda, Md.)
In genomics, use of deep learning (DL) is rapidly growing and DL has successfully demonstrated its ability to uncover complex relationships in large biological and biomedical data sets. With the development of high-throughput sequencing techniques, g...