Int. J. Knowl. Discov. Bioinform.最新文献_第4页

Perspective Wall Technique for Visualizing and Interpreting Medical Data 可视化和解释医学数据的透视墙技术

Int. J. Knowl. Discov. Bioinform. Pub Date : 2012-04-01 DOI: 10.4018/jkdb.2012040104

Hela Ltifi, Mounir Ben Ayed, Ghada Trabelsi, A. Alimi

引用次数: 2

Predicting Aging-Genes in Drosophila Melanogaster by Integrating Network Topological Features and Functional Categories 结合网络拓扑特征和功能分类预测黑腹果蝇衰老基因

Int. J. Knowl. Discov. Bioinform. Pub Date : 2012-04-01 DOI: 10.4018/jkdb.2012040102

Yan-Hui Li, Jian-Hui Li, Xin Song, Kai Feng, Y. Zhou

引用次数: 8

PASS2: A Database of Structure-Based Sequence Alignments of Protein Structural Domain Superfamilies PASS2:基于结构域超家族的蛋白质序列比对数据库

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-10-01 DOI: 10.4018/jkdb.2011100104

K. Kanagarajadurai, S. Kalaimathy, Paramasivam Nagarajan, R. Sowdhamini

{"title":"PASS2: A Database of Structure-Based Sequence Alignments of Protein Structural Domain Superfamilies","authors":"K. Kanagarajadurai, S. Kalaimathy, Paramasivam Nagarajan, R. Sowdhamini","doi":"10.4018/jkdb.2011100104","DOIUrl":"https://doi.org/10.4018/jkdb.2011100104","url":null,"abstract":"A detailed comparison of protein domains that belong to families and superfamilies shows that structure is better conserved than sequence during evolutionary divergence. Sequence alignments, guided by structural features, permit a better sampling of the protein sequence space and effective construction of libraries for fold recognition. Sequence alignments are useful evolutionary models in defining structure-function relationships for protein superfamilies. The PASS2 database, maintained by the authors, presents alignments of proteins related at the superfamily level and characterised by low sequence similarity. The number of new superfamilies increased to 47% compared with the previous PASS2 version, which shows the crucial importance of updating the PASS2 database. In the current release of the PASS2 database, they align protein superfamilies using a structural alignment protocol. The authors also introduce two alignment assessment methods that depend on the average structural deviations of domains and the extent of conserved secondary structures. They also integrate new and important structural and sequence features at the superfamily level into the database. These features are conserved-unconserved blocks in proteins, spatial distribution of sequences using principal component analysis and a statistical view for each superfamily. The authors suggest that highly structurally deviant superfamily members could be removed as outliers, so that such extreme distant relationships will not obscure the alignment. They report a nearly-automated, updated version of the superfamily alignment database, consisting of 1776 superfamilies and 9536 protein domains, that is in direct correspondence with the SCOP (1.73) database.","PeriodicalId":160270,"journal":{"name":"Int. J. Knowl. Discov. Bioinform.","volume":"7 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2011-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115320019","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: 11

Knowledge Discovery and Multimodal Inputs for Driving an Intelligent Wheelchair 智能轮椅驾驶的知识发现与多模态输入

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-10-01 DOI: 10.4018/JKDB.2011100102

B. Faria, Luis Paulo Reis, N. Lau

{"title":"Knowledge Discovery and Multimodal Inputs for Driving an Intelligent Wheelchair","authors":"B. Faria, Luis Paulo Reis, N. Lau","doi":"10.4018/JKDB.2011100102","DOIUrl":"https://doi.org/10.4018/JKDB.2011100102","url":null,"abstract":"Cerebral Palsy is defined as a group of permanent disorders in the development of movement and posture. The motor disorders in cerebral palsy are associated with deficits of perception, cognition, communication, and behaviour, which can affect autonomy and independence. The interface between the user and an intelligent wheelchair can be done with several input devices such as joysticks, microphones, and brain computer interfaces (BCI). BCI enables interaction between users and hardware systems through the recognition of brainwave activity. The current BCI systems have very low accuracy on the recognition of facial expressions and thoughts, making it difficult to use these devices to enable safe and robust commands of complex devices like an Intelligent Wheelchair. This paper presents an approach to expand the use of a brain computer interface for driving an intelligent wheelchair by patients suffering from cerebral palsy. The ability with the joystick, head movements, and voice inputs were tested, and the best possibility for driving the wheelchair is given to a specific user. Experiments were performed using 30 individuals suffering from IV and V degrees of cerebral palsy on the Gross Motor Function (GMF) measure. The results show that the pre-processing and variable selection methods are effective to improve the results of a commercial BCI product by 57%. With the developed system, it is also possible for users to perform a circuit in a simulated environment using just facial expressions and thoughts.","PeriodicalId":160270,"journal":{"name":"Int. J. Knowl. Discov. Bioinform.","volume":"4 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2011-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121268575","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: 8

Identification Methods of G Protein-Coupled Receptors G蛋白偶联受体的鉴定方法

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-10-01 DOI: 10.4018/jkdb.2011100103

Meriem Zekri, K. Alem, L. Souici-Meslati

引用次数: 2

Trend Analysis of Length of Stay Data via Phase-Type Models 基于阶段型模型的停留时间数据趋势分析

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-07-01 DOI: 10.4018/jkdb.2011070103

T. Le, C. Kwoh, K. Lee, Eng Soon Teo

引用次数: 8

BioTextRetriever: A Tool to Retrieve Relevant Papers biotextretriver:检索相关论文的工具

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-07-01 DOI: 10.4018/jkdb.2011070102

Célia Talma Gonçalves, Rui Camacho, Eugénio C. Oliveira

{"title":"BioTextRetriever: A Tool to Retrieve Relevant Papers","authors":"Célia Talma Gonçalves, Rui Camacho, Eugénio C. Oliveira","doi":"10.4018/jkdb.2011070102","DOIUrl":"https://doi.org/10.4018/jkdb.2011070102","url":null,"abstract":"Whenever new sequences of DNA or proteins have been decoded it is almost compulsory to look at similar sequences and papers describing those sequences in order to both collect relevant information concerning the function and activity of the new sequences and/or know what is known already about similar sequences. In current web sites and data bases of sequences there are, usually, a set of curated paper references linked to each sequence. Those links are a good starting point to look for relevant information related to a set of sequences. One way to implement such approach is to do a blast with the new decoded sequences, and collect similar sequences. Then one looks at the papers linked with the similar sequences. Most often the number of retrieved papers is small and one has to search large data bases for relevant papers. This paper proposes a process of generating a classifier based on the initially set of relevant papers. First, the authors collect similar sequences using an alignment algorithm like Blast. Then, the authors use the enlarges set of papers to construct a classifier. Finally a classifier is used to automatically enlarge the set of relevant papers by searching the MEDLINE using the automatically constructed classifier.","PeriodicalId":160270,"journal":{"name":"Int. J. Knowl. Discov. Bioinform.","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2011-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125382886","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: 10

Early Deterioration Warning for Hospitalized Patients by Mining Clinical Data 基于临床数据挖掘的住院患者病情早期预警

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-07-01 DOI: 10.4018/jkdb.2011070101

Yi Mao, Yixin Chen, Gregory Hackmann, Minmin Chen, Chenyang Lu, M. Kollef, T. Bailey

{"title":"Early Deterioration Warning for Hospitalized Patients by Mining Clinical Data","authors":"Yi Mao, Yixin Chen, Gregory Hackmann, Minmin Chen, Chenyang Lu, M. Kollef, T. Bailey","doi":"10.4018/jkdb.2011070101","DOIUrl":"https://doi.org/10.4018/jkdb.2011070101","url":null,"abstract":"Data mining on medical data has great potential to improve the treatment quality of hospitals and increase the survival rate of patients. Every year, 4-17% of patients undergo cardiopulmonary or respiratory arrest while in hospitals. Clinical study has found early detection and intervention to be essential for preventing clinical deterioration in patients at general hospital units. This paper proposes an early warning system (EWS) designed to identify the signs of clinical deterioration and provide early warning for serious clinical events. The EWS is designed to provide reliable early alarms for patients at the general hospital wards (GHWs). The main task of EWS is a challenging classification problem on high-dimensional stream data with irregular, multi-scale data gaps, measurement errors, outliers, and class imbalance. This paper proposes a novel data mining framework for analyzing such medical data streams. The authors assess the feasibility of the proposed EWS approach through retrospective study that includes data from 41,503 visits at a major hospital. Finally, the system is applied in a clinical trial at a major hospital and obtains promising results. This project is an example of multidisciplinary cyber-physical systems involving researchers in clinical science, data mining, and nursing staff.","PeriodicalId":160270,"journal":{"name":"Int. J. Knowl. Discov. Bioinform.","volume":"6 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2011-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130883322","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: 13

Medical Survival Analysis Through Transduction of Semi-Supervised Regression Targets 通过半监督回归靶标转导的医学生存分析

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-07-01 DOI: 10.4018/jkdb.2011070104

F. Khan, Qiuhua Liu

{"title":"Medical Survival Analysis Through Transduction of Semi-Supervised Regression Targets","authors":"F. Khan, Qiuhua Liu","doi":"10.4018/jkdb.2011070104","DOIUrl":"https://doi.org/10.4018/jkdb.2011070104","url":null,"abstract":"A crucial challenge in predictive modeling for survival analysis applications such as medical prognosis is the accounting of censored observations in the data. While these time-to-event predictions inherently represent a regression problem, traditional regression approaches are challenged by the censored characteristics of the data. In such problems the true target times of a majority of instances are unknown; what is known is a censored target representing some indeterminate time before the true target time. While censored samples can be considered as semi-supervised targets, the current limited efforts in semi-supervised regression do not take into account the partial nature of unsupervised information; samples are treated as either fully labeled or unlabelled. This paper presents a novel semi-supervised learning approach where the true target times are approximated from the censored times through transduction. The method can be employed to transform traditional regression methods for survival analysis, or can be employed to enhance existing state-of-the-art survival analysis methods for improved predictive performance. The proposed approach represents one of the first applications of semi-supervised regression to survival analysis and yields a significant improvement in performance over the state-of-the-art in prostate and breast cancer prognosis applications.","PeriodicalId":160270,"journal":{"name":"Int. J. Knowl. Discov. Bioinform.","volume":"18 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2011-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125302435","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: 11

Association Rule Mining Based HotSpot Analysis on SEER Lung Cancer Data 基于关联规则挖掘的SEER肺癌数据热点分析

Int. J. Knowl. Discov. Bioinform. Pub Date : 2011-04-01 DOI: 10.4018/jkdb.2011040103

Ankit Agrawal, A. Choudhary

引用次数: 21