AIMC Topic: Algorithms

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Automatic extraction of protein-protein interactions using grammatical relationship graph.

BMC medical informatics and decision making
BACKGROUND: Relationships between bio-entities (genes, proteins, diseases, etc.) constitute a significant part of our knowledge. Most of this information is documented as unstructured text in different forms, such as books, articles and on-line pages...

Machine learning approaches infer vitamin D signaling: Critical impact of vitamin D receptor binding within topologically associated domains.

The Journal of steroid biochemistry and molecular biology
The vitamin D-modulated transcriptome of highly responsive human cells, such as THP-1 monocytes, comprises more than 500 genes, half of which are primary targets. Recently, we proposed a chromatin model of vitamin D signaling demonstrating that nearl...

A new mechanical approach to handle generalized Hopfield neural networks.

Neural networks : the official journal of the International Neural Network Society
We propose a modification of the cost function of the Hopfield model whose salient features shine in its Taylor expansion and result in more than pairwise interactions with alternate signs, suggesting a unified framework for handling both with deep l...

A Supervised Ensemble Approach for Sensitive microRNA Target Prediction.

IEEE/ACM transactions on computational biology and bioinformatics
MicroRNAs, a class of small non-coding RNAs, regulate important biological functions via post-transcriptional regulation of messenger RNAs (mRNAs). Despite rapid development in miRNA research, precise experimental methods to determine miRNA target in...

Ensemble Learning Approach via Kalman Filtering for a Passive Wearable Respiratory Monitor.

IEEE journal of biomedical and health informatics
OBJECTIVE: Utilizing passive radio frequency identification (RFID) tags embedded in knitted smart-garment devices, we wirelessly detect the respiratory state of a subject using an ensemble-based learning approach over an augmented Kalman-filtered tim...

A Prediction Model Using Machine Learning Algorithm for Assessing Stone-Free Status after Single Session Shock Wave Lithotripsy to Treat Ureteral Stones.

The Journal of urology
PURPOSE: The aim of this study was to develop and validate a decision support model using a machine learning algorithm to predict treatment success after single session shock wave lithotripsy in ureteral stone cases.

Energy-Optimal Human Walking With Feedback-Controlled Robotic Prostheses: A Computational Study.

IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society
Lower-limb amputees typically experience reduced mobility and higher metabolic rates than non-amputees. It may be possible to improve their mobility and metabolic rate with an optimized robotic prosthesis. Here, we use large-scale trajectory optimiza...

Training sparse least squares support vector machines by the QR decomposition.

Neural networks : the official journal of the International Neural Network Society
The solution of an LS-SVM has suffered from the problem of non-sparseness. The paper proposed to apply the KMP algorithm, with the number of support vectors as the regularization parameter, to tackle the non-sparseness problem of LS-SVMs. The idea of...

Fully automatic cross-modality localization and labeling of vertebral bodies and intervertebral discs in 3D spinal images.

International journal of computer assisted radiology and surgery
PURPOSE: We present a cross-modality and fully automatic pipeline for labeling of intervertebral discs and vertebrae in volumetric data of the lumbar and thoracolumbar spine. The main goal is to provide an algorithm that is applicable to a wide range...

Multilevel Feature Representation of FDG-PET Brain Images for Diagnosing Alzheimer's Disease.

IEEE journal of biomedical and health informatics
Using a single imaging modality to diagnose Alzheimer's disease (AD) or mild cognitive impairment (MCI) is a challenging task. FluoroDeoxyGlucose Positron Emission Tomography (FDG-PET) is an important and effective modality used for that purpose. In ...