3,903 results match your criteria Computers in Biology and Medicine [Journal]


Gaze Trajectory Index (GTI): A novel metric to quantify saccade trajectory deviation using eye tracking.

Comput Biol Med 2019 Feb 15;107:86-96. Epub 2019 Feb 15.

Laboratory of Bioengineering, Experimental Diagnostic and Specialty Medicine Dept. (DIMES), University of Bologna, Policlinico S. Orsola Malpighi, Via Massarenti 9, 40138, Bologna Italy. Electronic address:

Background: Many different indexes have been proposed to quantify saccade curvature based on geometric properties of the saccade trajectory projected on the 2D plane. We introduce the Gaze Trajectory Index (GTI), a novel metric to quantify saccade trajectory deviation based on calculation of the rotational eye movements performed in 3D space while following a 2D saccade trajectory recorded with eye tracking (ET).

Methods: We provided a description of GTI calculation. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.02.003DOI Listing
February 2019

3D segmentation of exterior wall surface of abdominal aortic aneurysm from CT images using variable neighborhood search.

Comput Biol Med 2019 Feb 6;107:73-85. Epub 2019 Feb 6.

Faculty of Information and Communication Technology, Mahidol University, Nakhonpathom, Thailand; Bremen Spatial Cognition Center, University of Bremen, Bremen, Germany.

A 3D model of abdominal aortic aneurysm (AAA) can provide useful anatomical information for clinical management and simulation. Thin-slice contiguous computed tomographic (CT) angiography is the best source of medical images for construction of 3D models, which requires segmentation of AAA in the images. Existing methods for segmentation of AAA rely on either manual process or 2D segmentation in each 2D CT slide. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.027DOI Listing
February 2019

Automatic IVUS lumen segmentation using a 3D adaptive helix model.

Comput Biol Med 2019 Feb 2;107:58-72. Epub 2019 Feb 2.

Department of Computer Science and Operations Research, University of Montreal, Montreal, QC, H3T 1J4 Canada. Electronic address:

In this paper, we develop a three dimensional (3D) segmentation algorithm of the lumen visualized using intravascular ultrasound (IVUS) imaging. These images are known for their various granular textures (speckles) that make the discrimination of different tissues very difficult, especially as a result of the presence of artifacts and shadows generated by tissue calcification. Our model consists of a helical active contour initialized automatically over the sequence, that evolves based on the analysis of the Rayleigh distribution of gray levels in order to extract the luminal border. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.023DOI Listing
February 2019

Grading of hepatocellular carcinoma using 3D SE-DenseNet in dynamic enhanced MR images.

Comput Biol Med 2019 Feb 4;107:47-57. Epub 2019 Feb 4.

Suzhou Institute of Biomedical Engineering and Technology, Chinese Academy of Sciences, Suzhou, 215163, China. Electronic address:

Background: Clinical histological grading of hepatocellular carcinoma (HCC) differentiation is of great significance in clinical diagnoses, treatments, and prognoses. However, it is challenging for radiologists to evaluate HCC gradings from medical images.

Purpose: In this study, a novel deep neural network was developed by combining the squeeze-and-excitation networks (SENets) in a three-dimensional (3D) densely connected convolutional network (DenseNet), which is referred to as a 3D SE-DenseNet, for the classification of HCC grading using enhanced clinical magnetic resonance (MR) images obtained from two different clinical centers. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.026DOI Listing
February 2019

Quantifying lung ultrasound comets with a convolutional neural network: Initial clinical results.

Comput Biol Med 2019 Feb 7;107:39-46. Epub 2019 Feb 7.

Biomedical Engineering, School of Science and Engineering, Tulane University, New Orleans, LA, USA. Electronic address:

Lung ultrasound comets are "comet-tail" artifacts appearing in lung ultrasound images. They are particularly useful in detecting several lung pathologies and may indicate the amount of extravascular lung water. However, the comets are not always well defined and large variations in the counting results exist between observers. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.02.002DOI Listing
February 2019

Automated epileptic seizure detection based on break of excitation/inhibition balance.

Comput Biol Med 2019 Feb 10;107:30-38. Epub 2019 Feb 10.

Bio, Electro And Mechanical Systems (BEAMS), Université Libre de Bruxelles (ULB), Brussels, Belgium. Electronic address:

Physiological models are attractive for seizure detection, as their parameters are related to physiological meanings. We propose an algorithm to early detect epileptic seizures based on automatic estimation of average synaptic gains (excitatory Ae, slow and fast inhibitory B and G) by combining clinical data with a neural mass model. Three indices (Ae/B, Ae/G and Ae/(B + G)), all related to excitation/inhibition balance, were calculated and used as cues to detect seizures. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.02.005DOI Listing
February 2019
2 Reads

Clinical intelligence: New machine learning techniques for predicting clinical drug response.

Comput Biol Med 2019 Jan 3. Epub 2019 Jan 3.

New Jersey Institute of Technology, Bioinformatics Program and Department of Computer Science, Newark, NJ, 07102-1982, USA. Electronic address:

Predicting the response, or sensitivity, of a clinical drug to a specific cancer type is an important research problem. By predicting the clinical drug response correctly, clinicians are able to understand patient-to-patient differences in drug sensitivity outcomes, which in turn results in lesser time spent and lower cost associated with identifying effective drug candidates. Although technological advances in high-throughput drug screening in cells led to the generation of a substantial amount of relevant data, the analysis of such data would be a challenging task. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.017DOI Listing
January 2019

RAMS: Remote and automatic mammogram screening.

Comput Biol Med 2019 Feb 5;107:18-29. Epub 2019 Feb 5.

Quality of Life Technology Laboratory, Department of Electrical and Computer Engineering, The University of Texas at Dallas, 800 W. Campbell Road, Richardson, TX, 75080, USA. Electronic address:

About one in eight women in the U.S. will develop invasive breast cancer at some point in life. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.024DOI Listing
February 2019
1 Read

Proximal detection of guide wire perforation using feature extraction from bispectral audio signal analysis combined with machine learning.

Comput Biol Med 2019 Feb 7;107:10-17. Epub 2019 Feb 7.

INKA Intelligente Katheter, Otto-von-Guericke-Universität, Magdeburg, Germany.

Artery perforation during a vascular catheterization procedure is a potentially life threatening event. It is of particular importance for the surgeons to be aware of hidden or non-obvious events. To minimize the impact it is crucial for the surgeon to detect such a perforation very early. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.02.001DOI Listing
February 2019

Detecting list-colored graph motifs in biological networks using branch-and-bound strategy.

Comput Biol Med 2019 Feb 2;107:1-9. Epub 2019 Feb 2.

School of Computer and Electronics and Information, Guangxi Key Laboratory of Multimedia Communications Network Technology, Guangxi University, Nanning, 530004, China. Electronic address:

In this work, we study the list-colored graph motif problem, which was introduced to detect functional motifs in biological networks. Given a multi-set M of colors as the query motif and a list-colored graph G where each vertex in G is associated with a set of colors, the aim of this problem is to find a sub-graph of G whose vertex set is colored exactly as motif M. To solve this problem, we present a heuristic method to efficiently and accurately detect list-colored graph motifs in biological networks using branch-and-bound strategy. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.025DOI Listing
February 2019

Novel cone-and-plate flow chamber with controlled distribution of wall fluid shear stress.

Comput Biol Med 2019 Mar 25;106:140-148. Epub 2019 Jan 25.

Department of Mechanics, School of Aerospace Engineering, Beijing Institute of Technology, Beijing, 100081, PR China. Electronic address:

Fluid flow in blood vessels or interstitial fluid flow within tissue cavities plays important roles in tissue regeneration. One of the fundamental issues for in vitro study of the effects of fluid shear stress (FSS) on cells is the development of a flow chamber that can provide a controlled FSS field. In this study, we developed a novel cone-and-plate flow chamber based on viscometry technology, in which the cone's shape was optimized to produce a uniform wall FSS field on the surface of a standard six-well cell culture plate. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.014DOI Listing

Automated segmentation of haematoma and perihaematomal oedema in MRI of acute spontaneous intracerebral haemorrhage.

Comput Biol Med 2019 Mar 29;106:126-139. Epub 2019 Jan 29.

Radiological Sciences, Division of Clinical Neuroscience, University of Nottingham, UK; NIHR Nottingham BRC, UK. Electronic address:

Background: Spontaneous intracerebral haemorrhage (SICH) is a common condition with high morbidity and mortality. Segmentation of haematoma and perihaematoma oedema on medical images provides quantitative outcome measures for clinical trials and may provide important markers of prognosis in people with SICH.

Methods: We take advantage of improved contrast seen on magnetic resonance (MR) images of patients with acute and early subacute SICH and introduce an automated algorithm for haematoma and oedema segmentation from these images. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.022DOI Listing

Pathophysiological mapping of tumor habitats in the breast in DCE-MRI using molecular texture descriptor.

Comput Biol Med 2019 Mar 26;106:114-125. Epub 2019 Jan 26.

Pontifical Catholic University of Rio de Janeiro, Rio de Janeiro, Brazil. Electronic address:

Background: We propose a computational methodology capable of detecting and analyzing breast tumor habitats in images acquired by magnetic resonance imaging with dynamic contrast enhancement (DCE-MRI), based on the pathophysiological behavior of the contrast agent (CA).

Methods: The proposed methodology comprises three steps. In summary, the first step is the acquisition of images from the Quantitative Imaging Network Breast. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.017DOI Listing

Medical expenditure estimation by Bayesian network for lung cancer patients at different severity stages.

Comput Biol Med 2019 Mar 24;106:97-105. Epub 2019 Jan 24.

Department of Surgery, Shin-Kong Wu Ho-Su Memorial Hospital, Shilin District, Taipei, 111, Taiwan, ROC. Electronic address:

Lung cancer is one of the leading causes of mortality, and its medical expenditure has increased dramatically. Estimating the expenditure for this disease has become an urgent concern of the supporting families, medial institutes, and government. In this study, a conditional Gaussian Bayesian network (CGBN) model was developed to incorporate the comprehensive risk factors to estimate the medical expenditure of a lung cancer patient at different stages. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.015DOI Listing

Refinement-based modeling of the ErbB signaling pathway.

Comput Biol Med 2019 Mar 24;106:91-96. Epub 2019 Jan 24.

Computational Biomodeling Laboratory, Turku Centre for Computer Science, Finland; Department of Mathematics and Statistics, University of Turku, Finland; National Institute for Research and Development in Biological Sciences, Romania. Electronic address:

The construction of large scale biological models is a laborious task, which is often addressed by adopting iterative routines for model augmentation, adding certain details to an initial high level abstraction of the biological phenomenon of interest. Refitting a model at every step of its development is time consuming and computationally intensive. The concept of model refinement brings about an effective alternative by providing adequate parameter values that ensure the preservation of its quantitative fit at every refinement step. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.016DOI Listing

A rule-based semantic approach for data integration, standardization and dimensionality reduction utilizing the UMLS: Application to predicting bariatric surgery outcomes.

Comput Biol Med 2019 Mar 23;106:84-90. Epub 2019 Jan 23.

Department of Computer Science, The University of North Carolina - Greensboro, PO Box 26170, Greensboro, NC, 27402-6170, USA. Electronic address:

Utilization of existing clinical data for improving patient outcomes poses a number of challenging and complex problems involving lack of data integration, the absence of standardization across inhomogeneous data sources and computationally-demanding and time-consuming exploration of very large datasets. In this paper, we will present a robust semantic data integration, standardization and dimensionality reduction method to tackle and solve these problems. Our approach enables the integration of clinical data from diverse sources by resolving canonical inconsistencies and semantic heterogeneity as required by the National Library of Medicine's Unified Medical Language System (UMLS) to produce standardized medical data. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.019DOI Listing

You are what you eat: Sequence analysis reveals how plant microRNAs may regulate the human genome.

Comput Biol Med 2019 Mar 23;106:106-113. Epub 2019 Jan 23.

Department of Medical Genetics, Faculty of Medicine, Tehran University of Medical Sciences (TUMS), Tehran, Iran. Electronic address:

Background: Nutrigenomic has revolutionized our understanding of nutrition. As plants make up a noticeable part of our diet, in the present study we chose microRNAs of edible plants and investigated if they can perfectly match human genes, indicating potential regulatory functionalities.

Methods: miRNAs were obtained using the PNRD database. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.020DOI Listing

Wall shear stress in the Navier-Stokes equation: A commentary.

Authors:
Khalid M Saqr

Comput Biol Med 2019 Mar 18;106:82-83. Epub 2019 Jan 18.

Biomedical Flow Dynamics Laboratory, Institute of Fluid Science, Tohoku University, Sendai, 980-8577, Miyagi, Japan; College of Engineering and Technology, Arab Academy for Science, Technology and Maritime Transport, Alexandria, Egypt. Electronic address:

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.012DOI Listing

Cascaded LSTM recurrent neural network for automated sleep stage classification using single-channel EEG signals.

Comput Biol Med 2019 Mar 19;106:71-81. Epub 2019 Jan 19.

Biolab, Department of Electronics and Telecommunications, Politecnico di Torino, Turin, Italy. Electronic address:

Automated evaluation of a subject's neurocognitive performance (NCP) is a relevant topic in neurological and clinical studies. NCP represents the mental/cognitive human capacity in performing a specific task. It is difficult to develop the study protocols as the subject's NCP changes in a known predictable way. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00104825193001
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http://dx.doi.org/10.1016/j.compbiomed.2019.01.013DOI Listing
March 2019
5 Reads

Motor unit innervation zone localization based on robust linear regression analysis.

Comput Biol Med 2019 Mar 14;106:65-70. Epub 2019 Jan 14.

Department of Physical Medicine and Rehabilitation, University of Texas Health Science Center at Houston, Houston, United States; TIRR Memorial Hermann Research Center, Houston, TX, United States.

With the aim of developing a flexible and reliable procedure for superficial muscle innervation zone (IZ) localization, we proposed a method to estimate IZ location using surface electromyogram (EMG) based on robust linear regression. Regression lines were used to model the bidirectional propagation pattern of a single motor unit action potential (MUAP) and visualize the trajectory of the MUAP propagation. IZ localization was performed by identifying the origin of the bidirectional MUAP propagation. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.007DOI Listing
March 2019
2 Reads

In silico approaches and tools for the prediction of drug metabolism and fate: A review.

Comput Biol Med 2019 Mar 16;106:54-64. Epub 2019 Jan 16.

School of Integrative Engineering, Chung-Ang University, 84 Heukseok-ro, Dongjak-gu, Seoul, 06974, Republic of Korea. Electronic address:

The fate of administered drugs is largely influenced by their metabolism. For example, endogenous enzyme-catalyzed conversion of drugs may result in therapeutic inactivation or activation or may transform the drugs into toxic chemical compounds. This highlights the importance of drug metabolism in drug discovery and development, and accounts for the wide variety of experimental technologies that provide insights into the fate of drugs. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.008DOI Listing

Effects of left atrium on intraventricular flow in numerical simulations.

Comput Biol Med 2019 Mar 17;106:46-53. Epub 2019 Jan 17.

National Heart Research Institute Singapore, Singapore; Duke-NUS Medical School Singapore, Singapore.

With the aid of cardiac imaging techniques, recent numerical simulations of left ventricular flow can be patient-specific to better mimic physiological conditions. However, studies with a dynamic mitral valve (MV) remain extremely limited. Even so, the left atrium (LA) is usually simplified to be tubular regardless of its complex structure. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.011DOI Listing
March 2019
1 Read

Implementing error rate checks to improve the data quality in the Victorian Audit of Surgical Mortality.

Comput Biol Med 2019 Mar 8;106:40-45. Epub 2019 Jan 8.

Victorian Audit of Surgical Mortality, Royal Australasian College of Surgeons, East Melbourne, Victoria, Australia.

Objective: The Victorian Audit of Surgical Mortality (VASM) is part of the Australian and New Zealand Audit of Surgical Mortality, aiming to identify factors associated with surgical mortality. A quality assurance method was utilised to rectify system issues through error rate checks of VASM data points. This method ensured data collected and entered in the audit database were accurate. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.004DOI Listing

Application of supervised machine learning algorithms in the classification of sagittal gait patterns of cerebral palsy children with spastic diplegia.

Authors:
Yanxin Zhang Ye Ma

Comput Biol Med 2019 Mar 16;106:33-39. Epub 2019 Jan 16.

The Research Academy of Grand Health, Faculty of Sport Science, Ningbo University, China.

Gait classification has been widely used for children with cerebral palsy (CP) to assist with clinical decision making and to evaluate different treatment outcomes. The aim of this study was to evaluate supervised machine learning algorithms in the classification of sagittal gait patterns for CP children with spastic diplegia. Gait parameters were extracted from gait data obtained from two hundred children with spastic diplegia CP, and were used to represent the key kinematic features of each individual's gait. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.009DOI Listing
March 2019
3 Reads

Quantitative cardiology comes of age.

Authors:
James Coromilas

Comput Biol Med 2019 Mar 7;106:31-32. Epub 2019 Jan 7.

Division of Cardiovascular Disease and Hypertension, Rutgers Robert Wood Johnson Medical School, New Brunswick, NJ, USA. Electronic address:

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.005DOI Listing
March 2019
2 Reads

Automated diagnosis of HIV-associated neurocognitive disorders using large-scale Granger causality analysis of resting-state functional MRI.

Comput Biol Med 2019 Mar 15;106:24-30. Epub 2019 Jan 15.

Department of Neuroscience, University of Rochester Medical Center, 601 Elmwood Ave, Rochester, NY, 14642, USA; Department of Electrical and Computer Engineering, University of Rochester, 500 Joseph C. Wilson Blvd, Rochester, NY, 14627, USA; Department of Biomedical Engineering, University of Rochester, 500 Joseph C. Wilson Blvd, Rochester, NY, 14627, USA; Department of Imaging Sciences, University of Rochester Medical Center, 601 Elmwood Ave, Rochester, NY, 14642, USA.

HIV-associated neurocognitive disorders (HAND) represent an important source of neurologic complications in individuals with HIV. The dynamic, often subclinical, course of HAND has rendered diagnosis, which currently depends on neuropsychometric (NP) evaluation, a challenge for clinicians. Here, we present evidence that functional brain connectivity, derived by large-scale Granger causality (lsGC) analysis of resting-state functional MRI (rs-fMRI) time-series, represents a potential biomarker to address this critical diagnostic need. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6377830PMC
March 2019
1 Read

The effects of electrical and thermal boundary condition on the simulation of radiofrequency ablation of liver cancer for tumours located near to the liver boundary.

Comput Biol Med 2019 Mar 11;106:12-23. Epub 2019 Jan 11.

Faculty of Medicine and Health Sciences, University Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia.

Effects of different boundary conditions prescribed across the boundaries of radiofrequency ablation (RFA) models of liver cancer are investigated for the case where the tumour is at the liver boundary. Ground and Robin-type conditions (electrical field) and body temperature and thermal insulation (thermal field) conditions are examined. 3D models of the human liver based on publicly-available CT images of the liver are developed. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00104825193000
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http://dx.doi.org/10.1016/j.compbiomed.2019.01.003DOI Listing
March 2019
4 Reads

PLIT: An alignment-free computational tool for identification of long non-coding RNAs in plant transcriptomic datasets.

Comput Biol Med 2019 Feb 4;105:169-181. Epub 2019 Jan 4.

School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom.

Long non-coding RNAs (lncRNAs) are a class of non-coding RNAs which play a significant role in several biological processes. RNA-seq based transcriptome sequencing has been extensively used for identification of lncRNAs. However, accurate identification of lncRNAs in RNA-seq datasets is crucial for exploring their characteristic functions in the genome as most coding potential computation (CPC) tools fail to accurately identify them in transcriptomic data. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.014DOI Listing
February 2019
1 Read

In vivo measurement of blood clot mechanics from computational fluid dynamics based on intravital microscopy images.

Comput Biol Med 2019 Mar 11;106:1-11. Epub 2019 Jan 11.

Otto H. York Department of Chemical and Materials Engineering, New Jersey Institute of Technology, Newark, NJ, 07102, USA. Electronic address:

Ischemia which leads to heart attacks and strokes is one of the major causes of death in the world. Whether an occlusion occurs or not depends on the ability of a growing thrombus to resist flow forces exerted on its structure. This manuscript provides the first known in vivo measurement of how much stress a clot can withstand, before yielding to the surrounding blood flow. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2019.01.001DOI Listing
March 2019
1 Read

High throughput automated detection of axial malformations in Medaka embryo.

Comput Biol Med 2019 Feb 3;105:157-168. Epub 2019 Jan 3.

Université Paris-Est, LIGM (UMR 8049), CNRS, ENPC, ESIEE, UPEM, 2 Boulevard Blaise Pascal, 93162, Noisy-le Grand, France.

Fish embryo models are widely used as screening tools to assess the efficacy and/or toxicity of chemicals. This assessment involves the analysis of embryo morphological abnormalities. In this article, we propose a multi-scale pipeline to allow automated classification of fish embryos (Medaka: Oryzias latipes) based on the presence or absence of spine malformations. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.016DOI Listing
February 2019
2 Reads

Automated detection of erythema migrans and other confounding skin lesions via deep learning.

Comput Biol Med 2019 Feb 18;105:151-156. Epub 2018 Dec 18.

Lyme Disease Research Center, Division of Rheumatology, Department of Medicine, Johns Hopkins University School of Medicine, United States.

Lyme disease can lead to neurological, cardiac, and rheumatologic complications when untreated. Timely recognition of the erythema migrans rash of acute Lyme disease by patients and clinicians is crucial to early diagnosis and treatment. Our objective in this study was to develop deep learning approaches using deep convolutional neural networks for detecting acute Lyme disease from erythema migrans images of varying quality and acquisition conditions. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.007DOI Listing
February 2019
2 Reads

Private naive bayes classification of personal biomedical data: Application in cancer data analysis.

Comput Biol Med 2019 Feb 24;105:144-150. Epub 2018 Dec 24.

Department of Computer Science, The Graduate Center, CUNY, New York, NY, 10016, USA; Department of Computer Science, Tandon School of Engineering, New York University, New York, NY, USA.

Clinicians would benefit from access to predictive models for diagnosis, such as classification of tumors as malignant or benign, without compromising patients' privacy. In addition, the medical institutions and companies who own these medical information systems wish to keep their models private when in use by outside parties. Fully homomorphic encryption (FHE) enables computation over encrypted medical data while ensuring data privacy. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.11.018DOI Listing
February 2019
1 Read

Performance evaluation of 10-year ultrasound image-based stroke/cardiovascular (CV) risk calculator by comparing against ten conventional CV risk calculators: A diabetic study.

Comput Biol Med 2019 Feb 8;105:125-143. Epub 2019 Jan 8.

Stroke Monitoring and Diagnostic Division, AtheroPoint™, Roseville, CA, USA. Electronic address:

Motivation: AtheroEdge Composite Risk Score (AECRS1.0) is an integrated stroke/cardiovascular risk calculator that was recently developed and computes the 10-year risk of carotid image phenotypes by integrating conventional cardiovascular risk factors (CCVRFs). It is therefore important to understand how closely AECRS1. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00104825193000
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http://dx.doi.org/10.1016/j.compbiomed.2019.01.002DOI Listing
February 2019
6 Reads
1.240 Impact Factor

Color masking improves classification of celiac disease in videocapsule endoscopy images.

Comput Biol Med 2019 Mar 24;106:150-156. Epub 2018 Dec 24.

Department of Medicine - Celiac Disease Center, Columbia University College of Physicians and Surgeons, New York, NY, USA.

Background: Videocapsule endoscopy images are useful to detect pathologic alterations, including villous atrophy, in the small intestinal mucosa, which is helpful for diagnosing celiac disease. In prior work, quantitative videocapsule analysis was found useful to classify celiac versus control images. However, the effect of dark/extraneous substances on classification efficacy requires remediation. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.011DOI Listing
March 2019
1 Read

Deep structure tensor graph search framework for automated extraction and characterization of retinal layers and fluid pathology in retinal SD-OCT scans.

Comput Biol Med 2019 Feb 31;105:112-124. Epub 2018 Dec 31.

Department of Ophthalmology, Armed Forces Institute of Ophthalmology (AFIO), Rawalpindi, Pakistan.

Maculopathy is a group of retinal disorders that affect macula and cause severe visual impairment if not treated in time. Many computer-aided diagnostic methods have been proposed over the past that automatically detect macular diseases. However, to our best knowledge, no literature is available that provides an end-to-end solution for analyzing healthy and diseased macular pathology. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.015DOI Listing
February 2019
1 Read

Automated geographic atrophy segmentation for SD-OCT images based on two-stage learning model.

Comput Biol Med 2019 Feb 28;105:102-111. Epub 2018 Dec 28.

Shandong Provincial Key Laboratory of Network based Intelligent Computing, School of Information Science and Engineering, University of Jinan, Jinan, China.

Automatic and reliable segmentation for geographic atrophy in spectral-domain optical coherence tomography (SD-OCT) images is a challenging task. To develop an effective segmentation method, a two-stage deep learning framework based on an auto-encoder is proposed. Firstly, the axial data of cross-section images were used as samples instead of the projection images of SD-OCT images. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.013DOI Listing
February 2019
1 Read
1.240 Impact Factor

Automated beat-wise arrhythmia diagnosis using modified U-net on extended electrocardiographic recordings with heterogeneous arrhythmia types.

Comput Biol Med 2019 Feb 20;105:92-101. Epub 2018 Dec 20.

Department of Electronics and Computer Engineering, Ngee Ann Polytechnic, Singapore; Department of Biomedical Engineering, School of Science and Technology, Singapore University of Social Sciences, Singapore; School of Medicine, Faculty of Health and Medical Sciences, Taylor's University, 47500, Subang Jaya, Malaysia. Electronic address:

Abnormality of the cardiac conduction system can induce arrhythmia - abnormal heart rhythm - that can frequently lead to other cardiac diseases and complications, and are sometimes life-threatening. These conduction system perturbations can manifest as morphological changes on the surface electrocardiographic (ECG) signal. Assessment of these morphological changes can be challenging and time-consuming, as ECG signal features are often low in amplitude and subtle. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.012DOI Listing
February 2019
1 Read

A prediction method for plasma concentration by using a nonlinear grey Bernoulli combined model based on a self-memory algorithm.

Comput Biol Med 2019 Feb 5;105:81-91. Epub 2018 Dec 5.

Institute of Artificial Intelligence, De Montfort University, Leicester, LE1 9BH, UK.

The goal of this work is to present and explore the application of a novel nonlinear grey Bernoulli combined model based on a self-memory algorithm, abbreviated as SA-NGBM, for modeling single-peaked sequences of time samples of acetylsalicylate plasma concentration following oral dosing. The self-memorization SA-NGBM routine reduces the dependence on a solitary initial value, as the initial state of the model utilizes multiple time samples. To test its forecasting performance, the SA-NGBM was used to extrapolate the plasma concentration predicted data, in comparison with the later time samples. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.004DOI Listing
February 2019
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Automated glaucoma diagnosis using bit-plane slicing and local binary pattern techniques.

Comput Biol Med 2019 Feb 5;105:72-80. Epub 2018 Dec 5.

Department of Electronics and Communication Engineering, Ngee Ann Polytechnic, 599489, Singapore; Department of Biomedical Engineering, School of Science and Technology, SUSS University, 599491, Singapore; School of Medicine, Faculty of Health and Medical Sciences, Taylor's University, 47500, Subang Jaya, Malaysia.

Background And Objective: Glaucoma is a ocular disorder which causes irreversible damage to the retinal nerve fibers. The diagnosis of glaucoma is important as it may help to slow down the progression. The available clinical methods and imaging techniques are manual and require skilled supervision. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.11.028DOI Listing
February 2019
1 Read

A simplified metabolic network reconstruction to promote understanding and development of flux balance analysis tools.

Comput Biol Med 2019 Feb 17;105:64-71. Epub 2018 Dec 17.

Department of Biomedical Engineering, University of Virginia, Charlottesville, VA, 22908, USA. Electronic address:

GEnome-scale Network REconstructions (GENREs) mathematically describe metabolic reactions of an organism or a specific cell type. GENREs can be used with a number of constraint-based reconstruction and analysis (COBRA) methods to make computational predictions on how a system changes in different environments. We created a simplified GENRE (referred to as iSIM) that captures central energy metabolism with nine metabolic reactions to illustrate the use of and promote the understanding of GENREs and constraint-based methods. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.010DOI Listing
February 2019
1 Read

2D reconstruction of small intestine's interior wall.

Comput Biol Med 2019 Feb 5;105:54-63. Epub 2018 Dec 5.

School of Computer Science, University of Lincoln, Lincoln, UK. Electronic address:

Examining and interpreting of a large number of wireless endoscopic images from the gastrointestinal tract is a tiresome task for physicians. A practical solution is to automatically construct a two dimensional representation of the gastrointestinal tract for easy inspection. However, little has been done on wireless endoscopic image stitching, let alone systematic investigation. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.001DOI Listing
February 2019
5 Reads

Deep embeddings for novelty detection in myopathy.

Comput Biol Med 2019 Feb 11;105:46-53. Epub 2018 Dec 11.

Division of Rheumatology Johns Hopkins University School of Medicine, Baltimore, MD, USA.

We address the challenge of finding anomalies in ultrasound images via deep learning, specifically applying this to screening for myopathies and finding rare presentations of myopathic disease. Among myopathic diseases, this study focuses on the use case of myositis given the spectrum of muscle involvement seen in these inflammatory muscle diseases, as well as the potential for treatment. For this study, we have developed a fully annotated dataset (called "Myositis3K") which includes 3586 images of eighty-nine individuals (35 control and 54 with myositis) acquired with informed consent. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.006DOI Listing
February 2019
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Coeliac disease novel histological quantification.

Comput Biol Med 2019 Mar 28;106:149. Epub 2018 Nov 28.

Department of Pathology, Brigham & Women's Hospital, Boston, USA.

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http://dx.doi.org/10.1016/j.compbiomed.2018.11.023DOI Listing
March 2019
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Biomechanics of the golf swing using OpenSim.

Comput Biol Med 2019 Feb 4;105:39-45. Epub 2018 Dec 4.

Rutgers, The State University of New Jersey, United States. Electronic address:

A study was conducted to investigate the underlying mechanisms involved in the dynamics of body motions during the golf swing. A series of model simulation programs were developed in OpenSim to control the characteristics of the biomechanical model of the body. The resultant model parameters were put in an Excel file, which allowed these parameters to be modified. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.002DOI Listing
February 2019
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Matlab toolbox for semi-automatic segmentation of the human nasal cavity based on active shape modeling.

Comput Biol Med 2019 Feb 11;105:27-38. Epub 2018 Dec 11.

Physics Department, University of Antwerp, Laboratory of Biophysics and Biomedical Physics, Groenenborgerlaan 171, 2020, Antwerp, Belgium.

The nose is a complex and important organ with a multitude of functions. Computational fluid dynamics (CFD) has been shown to be a valuable tool to obtain a better understanding of the functioning of the nose. CFD simulations require a surface geometry, which is constructed from tomographic data. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.008DOI Listing
February 2019
3 Reads

Myocardial oxygen balance during acute normovolemic hemodilution: A novel compartmental modeling approach.

Comput Biol Med 2019 Feb 12;105:16-26. Epub 2018 Dec 12.

Department of Biomedical and Chemical Engineering and Sciences, Florida Institute of Technology, Melbourne, FL, USA. Electronic address:

Background: Hemodilution was introduced initially as a blood conservation technique to reduce allogeneic blood transfusion in patients undergoing surgical procedures. Although the technique has been approved by the National Institute of Health consensus panel, limits of hemodilution under anesthetic conditions have not been established as they have in animal models.

Methods: A novel multi-compartmental modeling approach has been proposed that includes the effect of anesthesia to quantify the effect of hemodilution on myocardial oxygen balance during myocardial ischemia. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.009DOI Listing
February 2019
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Detecting synchrony in EEG: A comparative study of functional connectivity measures.

Comput Biol Med 2019 Feb 11;105:1-15. Epub 2018 Dec 11.

College of Science and Engineering, Flinders University, Adelaide, Australia; Medical Device Research Institute, Flinders University, Adelaide, Australia.

In neuroscience, there is considerable current interest in investigating the connections between different parts of the brain. EEG is one modality for examining brain function, with advantages such as high temporal resolution and low cost. Many measures of connectivity have been proposed, but which is the best measure to use? In this paper, we address part of this question: which measure is best able to detect connections that do exist, in the challenging situation of non-stationary and noisy data from nonlinear systems, like EEG. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00104825183040
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http://dx.doi.org/10.1016/j.compbiomed.2018.12.005DOI Listing
February 2019
23 Reads

Phase singularity point tracking for the identification of typical and atypical flutter patients: A clinical-computational study.

Comput Biol Med 2019 Jan 10;104:319-328. Epub 2018 Dec 10.

ITACA Institute, Universitat Politècnica de València, Spain.

Atrial Flutter (AFL) termination by ablating the path responsible for the arrhythmia maintenance is an extended practice. However, the difficulty associated with the identification of the circuit in the case of atypical AFL motivates the development of diagnostic techniques. We propose body surface phase map analysis as a noninvasive tool to identify AFL circuits. Read More

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http://dx.doi.org/10.1016/j.compbiomed.2018.11.020DOI Listing
January 2019
1 Read

Ultrasound simulation model incorporating incident and reflected wave propagations along a common carotid artery.

Comput Biol Med 2019 Jan 13;104:267-277. Epub 2018 Nov 13.

Department of Electronic Engineering, Information School, Yunnan University, Kunming, Yunnan, 650091, China.

An ultrasound simulation model incorporating incident and reflected wave propagations is proposed to provide a realistic data source for validation of transit time (TT)-based local pulse wave velocity (PWV) estimation algorithms. First, the incident wave (IW) and reflected wave (RW) at a certain position over a common carotid artery (CCA) are estimated. Then, the propagating pulse waves (PWs) along the CCA are modelled with the synthesizations of the estimated IWs and RWs, whose occurrences are delayed in opposite sequences according to a preset PWV. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00104825183037
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http://dx.doi.org/10.1016/j.compbiomed.2018.11.009DOI Listing
January 2019
4 Reads

Celiac disease and small-bowel enteropathy - Seeing beyond the haze, the mist and the fog.

Comput Biol Med 2019 Jan 3;104:352-353. Epub 2018 Dec 3.

Endoscopy Unit, The Royal Infirmary of Edinburgh, Edinburgh, Scotland, UK.

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http://dx.doi.org/10.1016/j.compbiomed.2018.12.003DOI Listing
January 2019
1 Read
1.240 Impact Factor