2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)最新文献_第2页

Identifying Protein Complexes Method Based on Time-Sequenced Association and Ant Colony Clustering in Dynamic PPI Networks 动态PPI网络中基于时间序列关联和蚁群聚类的蛋白质复合物识别方法

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.28

Cuicui Yang, Junzhong Ji, Jia Wei Lv

{"title":"Identifying Protein Complexes Method Based on Time-Sequenced Association and Ant Colony Clustering in Dynamic PPI Networks","authors":"Cuicui Yang, Junzhong Ji, Jia Wei Lv","doi":"10.1109/BIBE.2016.28","DOIUrl":"https://doi.org/10.1109/BIBE.2016.28","url":null,"abstract":"As protein-protein interactions always change with time, environments and different stages of cell cycle, the clustering analysis on static protein-protein interaction (PPI) networks can not reflect this dynamics property and is far from satisfactory. To solve it, this paper proposes a method based on time-sequenced association and Ant Colony Clustering for identifying Protein Complexes in Dynamic PPI networks (called ACC-DPC). ACC-DPC first splits a PPI network into a series of dynamics subnetworks under different time points by integrating gene expression data, and then makes the clustering analysis on each subnetwork using the ant colony clustering method. For each subnetwork, ACC-DPC begins with constructing initial protein clusters by introducing the time-sequenced association characteristic of protein complexes between two adjacent time points, and later uses the picking up and dropping down operators of ant colony clustering to accomplish the clustering process of other proteins. The experimental results on two PPI datasets demonstrate that ACC-DPC has competitive performances in identifying protein complexes of dynamic PPI networks compared with several algorithms.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"91 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129354814","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: 1

DNA Biosensor Applications for Poly-Silicon Nanowire Field-Effect Transistors DNA生物传感器在多晶硅纳米线场效应晶体管中的应用

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.18

S. Lu, Chia-Hsien Li, Aanand, Syed Sarwar Imam, Shao-Ming Yang, Ming-Jen Fan, G. Sheu

引用次数: 1

Neural Oscillations in Temporoparietal Lobes under Inhibitory Control in a Naturalistic Situation 自然情境下抑制控制下的颞顶叶神经振荡

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.36

L. Ko, R. K. Chikara, Yi-Cheng Shih, E. Chang

{"title":"Neural Oscillations in Temporoparietal Lobes under Inhibitory Control in a Naturalistic Situation","authors":"L. Ko, R. K. Chikara, Yi-Cheng Shih, E. Chang","doi":"10.1109/BIBE.2016.36","DOIUrl":"https://doi.org/10.1109/BIBE.2016.36","url":null,"abstract":"The stop-signal paradigm has been commonly applied as a measure of inhibitory control due to its exclusive ability to capture theoretically important parameters related to the response inhibition. To observe the inhibitory function in realistic environmental settings, we designed a battlefield scenario (BFS), which is inspired by real condition like open fire between soldier and terrorist for saving civilian because terrorism is serious problem worldwide. The stop-signal task has been widely adopted as a way to parametrically quantify the response inhibition process. This study compared the response inhibition in two different scenarios: One used traditional simple visual symbols as go and stop signals i.e. symbol scenario (SBS), and the other translated the typical design into a battlefield scenario. The outcomes confirmed that both scenarios induced increased activity in the right inferior frontal gyrus (IFG) and pre supplementary motor area (preSMA), which have been associated to response inhibition. Particularly, in right temporoparietal junction (rTPJ) we found both higher BOLD activation and EEG power modulation in the battlefield scenario than in the traditional scenario after the stop stimulus onset.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"28 10 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122320863","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

Inference of Gene Regulatory Networks Using Coefficient of Determination, Tsallis Entropy and Biological Prior Knowledge 基于决定系数、Tsallis熵和生物先验知识的基因调控网络推断

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.54

Camila Y. Koike, Carlos H. A. Higa

{"title":"Inference of Gene Regulatory Networks Using Coefficient of Determination, Tsallis Entropy and Biological Prior Knowledge","authors":"Camila Y. Koike, Carlos H. A. Higa","doi":"10.1109/BIBE.2016.54","DOIUrl":"https://doi.org/10.1109/BIBE.2016.54","url":null,"abstract":"In this work, we studied a common problem in Systems Biology, which is the inference or reverse engineering of gene regulatory networks from gene expression data. We addressed this problem using the Boolean formalism, where the expression of a gene is represented only by two possible values: 0 (not expressed) or 1 (expressed). Besides that, our methodology is based on a feature selection approach and we used an algorithm named IFFS - improved forward floating selection. We performed experiments to compare two measures of gene interactions used in the criterion function of the algorithm, the coefficient of determination and the mutual information computed via Tsallis entropy. Besides that, we also incorporated a biological prior knowledge source of gene interactions from a database known as STRING. To validate the methodology, we used data from the DREAM challenge and a dataset from a budding yeast cell-cycle study. The results showed that, generally, the mutual information performs slightly better than the coefficient of determination, and that incorporating biological knowledge improves the results.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"73 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122608757","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: 5

A Vision Based Method for Real-Time Respiration Rate Estimation Using a Recursive Fourier Analysis 一种基于视觉的呼吸速率实时估计方法——递推傅立叶分析

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.29

Avishek Chatterjee, A. Prathosh, Pragathi Praveena, V. Upadhya

{"title":"A Vision Based Method for Real-Time Respiration Rate Estimation Using a Recursive Fourier Analysis","authors":"Avishek Chatterjee, A. Prathosh, Pragathi Praveena, V. Upadhya","doi":"10.1109/BIBE.2016.29","DOIUrl":"https://doi.org/10.1109/BIBE.2016.29","url":null,"abstract":"In this paper, we propose a simple yet effective, computer vision based method for estimating respiration rate in real-time from the thoraco-abdominal video of a subject being monitored. The periodic motion of the chest wall of the subject is captured through the optical flow in the video sequence. The frequency of the chest wall motion is estimated by performing a Fourier analysis on the time sequence of the optical flow vectors. We present how to perform the Fourier analysis recursively leveraging the sequential nature of a video to speed-up our method. Unlike other methods, our method does not require a selection of region of interest because our method aggregates out-of-phase optical flows by factoring out the their relative phase differences. Unlike many existing methods, our method does not require to be reinitialized if the subject changes the posture during the observation. Our method works with different postures and different views (frontal, side, etc.) of the subject. Our method is very simple to implement. We evaluate our method against an impedance pneumograph and demonstrate the high accuracy of our method on thoracoabdominal videos of many subjects wearing a wide variety of clothing.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"185 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131405213","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

Improved Nephron Model for Pressure-Diuresis and Pressure-Natriuresis 压力利尿和压力钠尿的改进肾元模型

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.59

Siva Manohar Reddy Kesu, Hariharan Ramasangu

{"title":"Improved Nephron Model for Pressure-Diuresis and Pressure-Natriuresis","authors":"Siva Manohar Reddy Kesu, Hariharan Ramasangu","doi":"10.1109/BIBE.2016.59","DOIUrl":"https://doi.org/10.1109/BIBE.2016.59","url":null,"abstract":"The complexity of the kidney is that mathematical models of renal function depend on the experimental measurements from in-vivo and in-vitro. Earlier models of the nephron use the simple mathematical model that was unable to clearly capture the pressure-diuresis and pressure-natriuresis functionality. In this paper, a mathematical model of nephron has been developed with isoporous glomerulus model for better understanding of the functionality of the nephron for Salt-Sensitive rat(high-salt and low-salt) and Salt-Resistant. Renal blood flow, glomerular filtration, pressure-diuresis and pressure-natriuresis relationships have been explained clearly based on predicted modelling data from the mathematical model of the nephron. The predicted data is compared with the experimental data. The water and sodium excretion are well controlled within the normal limits in the improved isoporous glomerulus nephron model. The predicted data of regulated water and sodium excretion are well fitted with the data collected from experimental studies of the Dahl salt sensitive (low salt and high salt) rat and Dahl salt resistive rat based on calculation of the mean square error for glomerulur filtration, urine output and sodium excretion.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"518 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134035828","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: 1

2D Adaptive Grid-Based Image Analysis Approach for Biological Networks 生物网络二维自适应网格图像分析方法

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.17

Haifa F. Alhasson, B. Obara

引用次数: 0

Effects of Individualized Respiratory Cycle-Based Vibration Stimuli on Nervous System after Mental or Physical Load 个体化呼吸周期振动刺激对精神或体力负荷后神经系统的影响

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.19

Naoto Iwamoto, H. Hagiwara

引用次数: 0

Recognition of Cortical Modulation Mechanism in Elderly Postural Control under the Computerized Dynamic Posturography 计算机动态体位术下老年人体位控制皮层调节机制的识别

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.74

Chun-Ju Chang, Jen-Suh Chern, Tsui-Fen Yang, Saiwei Yang

{"title":"Recognition of Cortical Modulation Mechanism in Elderly Postural Control under the Computerized Dynamic Posturography","authors":"Chun-Ju Chang, Jen-Suh Chern, Tsui-Fen Yang, Saiwei Yang","doi":"10.1109/BIBE.2016.74","DOIUrl":"https://doi.org/10.1109/BIBE.2016.74","url":null,"abstract":"The high level of central nervous system plays an important role to modulate the balance stability, also, the neuromotor integrated the external interference and sensorimotor information to keep individual stability. For understanding the postural control within elderly adults, in this study, we provided continues and unexpected platform perturbation, which combined with the virtual reality and real-time orientated inertia sensor, to investigate the postural sway and cortical response relationship between healthy elderly. Results showed that although postural sway and cortical activation were affected by the visual interference, significant contrary cortical modulations were found between the condition with and without the visual interference. The various modulations in central nervous system provide valid evidence that the cerebrum modulated the postural reactions timely based on the challenged of the external environment. The concepts of the neuromotor correlation may provide information for the design of human-machine interface, and the application of the useful interactive monitor device is also advised for detecting the risk of fall.","PeriodicalId":377504,"journal":{"name":"2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE)","volume":"5 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128523661","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: 1

Real-Time Visual Respiration Rate Estimation with Dynamic Scene Adaptation 基于动态场景自适应的实时视觉呼吸速率估计

2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) Pub Date : 2016-10-01 DOI: 10.1109/BIBE.2016.31

Avishek Chatterjee, A. Prathosh, Pragathi Praveena, V. Upadhya

引用次数: 5