2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)最新文献

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Analysis of knee joint forces in different types of jumps of top futsal players at the beginning and at the end of the preparation period 顶尖五人制足球运动员不同类型跳跃训练开始和结束阶段膝关节受力分析
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635554
R. Radakovic, Sara Mijailovic, Nataša Zdravković Petrović, Aleksandra Vulovic, N. Filipovic, N. Zdravković
{"title":"Analysis of knee joint forces in different types of jumps of top futsal players at the beginning and at the end of the preparation period","authors":"R. Radakovic, Sara Mijailovic, Nataša Zdravković Petrović, Aleksandra Vulovic, N. Filipovic, N. Zdravković","doi":"10.1109/BIBE52308.2021.9635554","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635554","url":null,"abstract":"In this study, we will consider the forces in the knee joints of futsal players at the beginning and at the end of the training process focusing on two types of jumps: jumps without swing and jumps with swing. This study has two main objectives. The first objective is to compare the forces in the knee joint at the beginning and at the end of the training process in jumps without a swing and in jumps with a swing. The second objective is to show the distribution of deformations and stresses in the menisci of the knee joint at the beginning and at the end of the training process. Professional futsal players performed jumps that were analyzed using a force plate and high-speed video camera system. For this purpose, a 3D model of the human knee joint was developed from medical scans consisting of femur, fibula, tibia, articular cartilage, ligaments and menisci. Loads and material characteristics were adopted from the literature. Using finite element analysis, we were able to obtain a better insight into the distribution of deformation and stress in particular parts of the knee joint.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"10 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114375522","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Hemodynamics of Femoro-Popliteal “Bi-Pass” Surgery using FEA Methods 股腘“双通”手术血流动力学应用有限元分析方法
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635376
D. Nikolić, Dragan B. Sekulic, D. Milasinovic, D. Paunovic, Igor Sekulic, I. Šaveljić, N. Filipovic
{"title":"Hemodynamics of Femoro-Popliteal “Bi-Pass” Surgery using FEA Methods","authors":"D. Nikolić, Dragan B. Sekulic, D. Milasinovic, D. Paunovic, Igor Sekulic, I. Šaveljić, N. Filipovic","doi":"10.1109/BIBE52308.2021.9635376","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635376","url":null,"abstract":"Femoro-popliteal “by-pass” is indicated in the advanced stage of peripheral arterial occlusive disease. Indications for surgical treatment are set on the basis of the clinical picture, “ankle-brachial index” and angiographic findings. By the method of finite element analysis, three-dimensional models can be made on the basis of scanning angiography, on which we can measure different physical quantities and calculate the value of the “ankle-brachial index”. The aim is to show the hemodynamics of arteries by the method of finite element analysis (FEA) based on preoperative and postoperative scan angiography as well as physical quantities that can be measured in this way. In this review, the hemodynamics of femoro-popliteal “by-pass” on the preoperative and postoperative model are presented. The models obtained by FEA show: pressure, shear stress, velocities, and streamlines. Pressure, “ankle-brachial index”, compared with the values measured on the patient, with FEA results preoperatively and postoperatively. Postoperatively, higher values of pressure and “ankle-brachial index” were measured on the patient and on the models. The values shown in the models are significantly correlated with the values measured on the patient. Shear stress and velocity values are significantly reduced on postoperative models. The streamlines show a dominant anterior tibial artery. The values of physical quantities measured on the patient and on the models obtained by the FEA method correlate to a significant extent.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"38 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114617731","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A Game-Based Cognitive Assessment for Visuospatial Tasks: Evaluation in Healthy Adults 基于游戏的视觉空间任务认知评估:健康成人评估
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635507
Marios Hadjiaros, K. Neokleous, Eirini C. Schiza, M. Matsangidou, M. Avraamides, C. Pattichis
{"title":"A Game-Based Cognitive Assessment for Visuospatial Tasks: Evaluation in Healthy Adults","authors":"Marios Hadjiaros, K. Neokleous, Eirini C. Schiza, M. Matsangidou, M. Avraamides, C. Pattichis","doi":"10.1109/BIBE52308.2021.9635507","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635507","url":null,"abstract":"This article presents a study on the validation of gamified versions of three established cognitive tasks, namely the Corsi task, the Visual Search task, and the Whack a Mole task. Short versions of these tasks were created using gamification techniques and tested on healthy adults. Results showed that these new gamified versions produce similar patterns of results with those obtained from the traditional versions. Concluding, game-based cognitive assessment for visuospatial tasks is promising, however, this needs to be further evaluated on larger scale studies as well as under different cognitive conditions.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"14 2 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124618091","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
An Analysis of Feature Selection Techniques For COVID-19 Detection on Chest X-Ray Data 胸部x线数据检测COVID-19的特征选择技术分析
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635181
André L. Jeller Selleti, C. Silla
{"title":"An Analysis of Feature Selection Techniques For COVID-19 Detection on Chest X-Ray Data","authors":"André L. Jeller Selleti, C. Silla","doi":"10.1109/BIBE52308.2021.9635181","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635181","url":null,"abstract":"We are currently experiencing a worldwide health problem known as the coronavirus pandemic, many researchers are looking to help in any way they can to deal with the pandemic and the problems caused by it. In the context of machine learning research, it is possible to develop methods to assist with the screening of patients using different types of exams and machine learning techniques. In this paper, we investigate the use of different features selection methods with different classifiers to the task of covid-19 (and other five pathologies and healthy lungs) identification in chest x-rays images. The analysis of the experimental results shows that the application of feature selection methods can improve the detection of coronavirus as well as other pathologies.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"2020 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"117295302","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A Heuristic Strategy for Multi-Mapping Reads to Enhance Hi-C Data 一种多映射读取的启发式策略以增强Hi-C数据
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635215
Chanaka Bulathsinghalage, Lu Liu
{"title":"A Heuristic Strategy for Multi-Mapping Reads to Enhance Hi-C Data","authors":"Chanaka Bulathsinghalage, Lu Liu","doi":"10.1109/BIBE52308.2021.9635215","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635215","url":null,"abstract":"Current Hi-C analysis approaches focus on uniquely mapped reads and little research has been carried out to include multi-mapping reads, which leads to a lack of biological signals from DNA repetitive regions. We propose a heuristic strategy to assign multi-mapping reads to loci according to the distance to their closest restriction enzyme cutting sites. We demonstrate that the heuristic strategy can rescue multi-mapping reads thus enhance the quality of Hi-C data. Compared with mHi-C, it not only improves replicate reproducibility in the same cell type, but also maintains the difference between replicates of different cell types. Moreover, the strategy identifies much more common statistically significant chromatin interactions between Hi-C experiments of different restriction enzymes and has a huge advantage on computing resources. Therefore, the heuristic strategy can be used to enhance Hi-C data by utilizing multi-mapping reads.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129614457","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A Deep Learning-based cropping technique to improve segmentation of prostate's peripheral zone 基于深度学习的前列腺外周区域分割改进裁剪技术
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635576
D. Zaridis, E. Mylona, N. Tachos, K. Marias, M. Tsiknakis, D. Fotiadis
{"title":"A Deep Learning-based cropping technique to improve segmentation of prostate's peripheral zone","authors":"D. Zaridis, E. Mylona, N. Tachos, K. Marias, M. Tsiknakis, D. Fotiadis","doi":"10.1109/BIBE52308.2021.9635576","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635576","url":null,"abstract":"Automatic segmentation of the prostate peripheral zone on Magnetic Resonance Images (MRI) is a necessary but challenging step for accurate prostate cancer diagnosis. Deep learning (DL) based methods, such as U-Net, have recently been developed to segment the prostate and its' sub-regions. Nevertheless, the presence of class imbalance in the image labels, where the background pixels dominate over the region to be segmented, may severely hamper the segmentation performance. In the present work, we propose a DL-based preprocessing pipeline for segmenting the peripheral zone of the prostate by cropping unnecessary information without making a priori assumptions regarding the location of the region of interest. The effect of DL-cropping for improving the segmentation performance was compared to the standard center-cropping using three state-of-the-art DL networks, namely U-net, Bridged U-net and Dense U-net. The proposed method achieved an improvement of 24%, 12% and 15% for the U-net, Bridged U-net and Dense U-net, respectively, in terms of Dice score.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128952589","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Modeling Sprouting Angiogenesis by Drift Forces with the Usage of Fokker-Planck Equation 利用漂移力模拟发芽血管生成的Fokker-Planck方程
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635409
H. Nieto-Chaupis
{"title":"Modeling Sprouting Angiogenesis by Drift Forces with the Usage of Fokker-Planck Equation","authors":"H. Nieto-Chaupis","doi":"10.1109/BIBE52308.2021.9635409","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635409","url":null,"abstract":"One of the first phases of cancer is known as angiogenesis by the which are created new blood vessels from the pre-existing one. In this paper, the well-known equation of Fokker-Planck is used to describe the time evolution of the new vessels since their creation until the time that them acquire certain stability. In particular, emphasis is done to the term of drift that encompasses the stochastic character of angiogenesis. Once the theory is proposed, computational simulations are carried out. For this, the Gaussian approach with a time-dependent width is employed. This yields a oscillating scenario of ions due to the repulsion and attraction forces at the events of permeability.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"25 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123611554","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A New Multi-Feature Classification Scheme for Normal and Abnormal Respiratory Sounds Discrimination 一种新的多特征呼吸音判别方法
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635348
M. Antonakakis, K. Politof, Georgios A. Klados, Glykeria Sdoukopoulou, S. Schiza, M. Papadogiorgaki, C. Farmaki, M. Pediaditis, M. Zervakis, V. Sakkalis
{"title":"A New Multi-Feature Classification Scheme for Normal and Abnormal Respiratory Sounds Discrimination","authors":"M. Antonakakis, K. Politof, Georgios A. Klados, Glykeria Sdoukopoulou, S. Schiza, M. Papadogiorgaki, C. Farmaki, M. Pediaditis, M. Zervakis, V. Sakkalis","doi":"10.1109/BIBE52308.2021.9635348","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635348","url":null,"abstract":"During sleep., breathing-related sleep disorders (BSD) are very probable to cause distortions on human health and even be life-threatening. Among the different types of BSD., apnea accounts for one of the most common. Many detection algorithms have been proposed for spotting and classifying apneas, using one feature or being designed for binary classification. Also, many proposed clinical setups for respiratory data acquisition are invasive, making the application to patients a non-trial task. In this study, we aim to propose an easy-to-apply and patient-friendly clinical setup with a BSD detection that utilizes a multi-feature classification scheme for binary (apnea, healthy), as well as multiple classes (healthy, central, mixed, and obstructive apneas and hypopneas). Our clinical setup includes a high-resolution microphone attached to the bed at a very close distance to the patient. Our multi-feature approach contains spectral, statistical, and symbolic-based characteristics of respiratory signals of five patients admitted for a first BSD diagnosis and assesses the performance of different classification algorithms iteratively. The results show a high classification performance ($>$ 98% for binary and $>$ 84% for multi-class classification) for either classification scheme. A robust classification scheme is thus proposed, utilizing the entire content of the recorded respiratory signal. Such a classification scheme leads to a promising result towards the design of portable devices with multi-features for real-time detection of BSD.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"97 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"116544666","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Numerical modelling in assessment of different colorectal cancer cell lines behavior in treatment with cisplatin 数值模拟评估不同结直肠癌细胞系在顺铂治疗中的行为
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635412
D. Šeklić, T. Djukić, M. Zivanovic, M. Jovanović, N. Filipovic
{"title":"Numerical modelling in assessment of different colorectal cancer cell lines behavior in treatment with cisplatin","authors":"D. Šeklić, T. Djukić, M. Zivanovic, M. Jovanović, N. Filipovic","doi":"10.1109/BIBE52308.2021.9635412","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635412","url":null,"abstract":"Colorectal cancer is one of the most common types of cancer and metastasis particular problem in anticancer treatment. Therefore, it is crucial to understand key steps in metastasis formation, such as loss of adherent junctions. $mathbf{E}$ -cadherin and $beta$ -catenin are proteins involved in cell-cell junctions in cancer cells. Present study aimed to explain changes in E-cadherin and $beta$ -catenin in two colorectal cancer cell lines after treatment with standard anticancer drug cisplatin, by using numerical modelling. The validity of the mathematical model was tested by experimental measurement of E-cadherin and $beta$ -catenin protein expression by immunofluorescent method. Our results shows that the numerical model of the Wnt pathway completely confirms experimental results for HCT-116 cells, while for SW-480 cells this model should be adjusted.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"34 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123941049","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Predicting Fruit Fly Behaviour using TOLC device and DeepLabCut 利用TOLC装置和DeepLabCut预测果蝇行为
2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2021-10-25 DOI: 10.1109/BIBE52308.2021.9635290
Sanghoon Lee, Brayden Waugh, Garret O'Dell, Xiji Zhao, Wook-Sung Yoo, Dalhyung Kim
{"title":"Predicting Fruit Fly Behaviour using TOLC device and DeepLabCut","authors":"Sanghoon Lee, Brayden Waugh, Garret O'Dell, Xiji Zhao, Wook-Sung Yoo, Dalhyung Kim","doi":"10.1109/BIBE52308.2021.9635290","DOIUrl":"https://doi.org/10.1109/BIBE52308.2021.9635290","url":null,"abstract":"Animal behavior is an essential element in neuroscience study and noninvasive behavioral tracking of animals during experiments is crucial to many scientific pursuits. However, extracting detailed poses without markers in dynamically changing backgrounds has been a challenge. Transparent Omnidirectional Locomotion Compensator (TOLC), a tracking device, was recently developed to investigate longitudinal studies of a wide range of behavior in an unrestricted walking Drosophila without tethering and the conventional image segmentation method has been used to identify the centroids of the walking Drosophila. Since the shape or morphological features of the pixel-wise mask may vary depending on the captured images, however, the centroid calculation errors could occur when segmenting the walking Drosophila. To solve the problem, DeepLabCut, an open-source deep-learning toolbox performing markerless pose estimation on a sequence of images for quantitative behavioral analysis, was utilized to find the centroids of Drosophila melanogaster in a video recorded by TOLC. One hundred labeled images with centroids were created for the training of ResNet50 among 60,984 images and used for predicting 5,000 images in the experiment. The results of the experiment showed that the centroids predicted by the deep learning model are more accurate than the centroids from the morphological features in a specific part of the sequence of the images. Additionally, we created 200 labeled images with legs for the training of ResN et50 and predicted 5,000 images to investigate the difference between the centroids of a Drosophila melanogaster over the locations of the legs. The centroids generated from morphological features often provide incorrect information when the Drosophila melanogaster stretches out the front legs for some regions. Detailed analysis of experiment results and the future research direction with more extensive experiments are discussed.","PeriodicalId":343724,"journal":{"name":"2021 IEEE 21st International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"49 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127412937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
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