Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001)最新文献_第3页

Knowledge discovery in biological data sets using a hybrid Bayes classifier/evolutionary algorithm 基于混合贝叶斯分类器/进化算法的生物数据集知识发现

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974435

M. Raymer, L. Kuhn, W. Punch

引用次数: 11

Applying data warehouse concepts to gene expression data management 数据仓库概念在基因表达数据管理中的应用

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974413

V. Markowitz, T. Topaloglou

引用次数: 18

An automated approach to modelling class II MHC alleles and predicting peptide binding 建模II类MHC等位基因和预测肽结合的自动化方法

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974415

Martin T. Swain, A. J. Brooks, G. Kemp

引用次数: 11

PocketMol: a molecular visualization tool for the Pocket PC PocketMol:用于Pocket PC的分子可视化工具

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974406

J. Gilder, M. Raymer, T. Doom

引用次数: 3

Predicting RNA secondary structures with arbitrary pseudoknots by maximizing the number of stacking pairs 通过最大化堆叠对的数量来预测具有任意假结的RNA二级结构

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974428

Samuel Ieong, M. Kao, T. Lam, W. Sung, S. Yiu

引用次数: 59

Supporting remote user defined functions in heterogeneous biological databases 支持异构生物数据库中远程用户定义的功能

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974423

Liangyou Chen, H. Jamil

{"title":"Supporting remote user defined functions in heterogeneous biological databases","authors":"Liangyou Chen, H. Jamil","doi":"10.1109/BIBE.2001.974423","DOIUrl":"https://doi.org/10.1109/BIBE.2001.974423","url":null,"abstract":"Similar to most scientific studies, biological analyses demand a great deal of computations and simulations involving sophisticated tools that are often found geographically distributed over the Internet. A worldwide effort in genomics research has resulted in a powerful collection of publicly available sequence analysis tools. These tools often require specialized local services and domain knowledge to function correctly, rendering them unlikely candidates for integration into remote database applications. Thus, integration of heterogeneous \"functions\" still remains an open problem. Providing a reasonable framework for seamless integration of these tools with database query engines will enable application developers to exploit and harness the power of these effective analysis tools. In this paper, we present an integration framework for such tools by enabling access to them in a user transparent way as part of database queries. In our system, such online tools are abstracted as remote user defined functions (RUDF). An extended SQL DDL language, called the Internet Function Definition Language (IFDL), is presented for the specification and definition of RUDFs. The interface between database system and the Internet is implemented using a layer based on a language called the Hypertext Query Language (HTQL). The separation of IFDL, DDL, HTQL and SQL DML offers several optimization opportunities and makes it possible to develop an architecture for interoperability of heterogeneous databases with RUDFs in more simple and efficient ways.","PeriodicalId":405124,"journal":{"name":"Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001)","volume":"77 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2001-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122441828","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: 9

Optimized seamless integration of biomolecular data 优化生物分子数据的无缝整合

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974408

B. Eckman, Z. Lacroix, L. Raschid

引用次数: 45

An intelligent assistant for navigation of visually impaired people 为视障人士提供导航的智能助手

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974434

N. Bourbakis, D. Kavraki

引用次数: 44

An XML application for genomic data interoperation 用于基因组数据互操作的XML应用程序

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974417

K. Cheung, Yang Liu, Anuj Kumar, M. Snyder, M. Gerstein, P. Miller

{"title":"An XML application for genomic data interoperation","authors":"K. Cheung, Yang Liu, Anuj Kumar, M. Snyder, M. Gerstein, P. Miller","doi":"10.1109/BIBE.2001.974417","DOIUrl":"https://doi.org/10.1109/BIBE.2001.974417","url":null,"abstract":"As the eXtensible Markup Language (XML) becomes a popular or standard language for exchanging data over the Internet/Web, there are a growing number of genome Web sites that make their data available in XML format. Publishing genomic data in XML format alone would not be that useful if there is a lack of development of software applications that could take advantage of the XML technology to process these XML-formatted data. This paper illustrates the usefulness of XML in representing and interoperating genomic data between two different data sources (Snyder's laboratory at Yale and SGD at Stanford). In particular, we compare the locations of transposon insertions in the yeast DNA sequences that have been identified by BLAST searches with the chromosomal locations of the yeast open reading frames (ORFs) stored in SGD. Such a comparison allows us to characterize the transposon insertions by indicating whether they fall into any ORFs (which may potentially encode proteins that possess essential biological functions). To implement this XML-based interoperation, we used NCBIs \"blastall\" (which gives an XML output option) and SGD's yeast nucleotide sequence dataset to establish a local blast server. Also, we converted the SGD's ORF location data file (which is available in tab-delimited formal) into an XML document based on the BIOML (BIOpolymer Markup Language) standard.","PeriodicalId":405124,"journal":{"name":"Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001)","volume":"78 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2001-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123548942","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

Thinking nonlinearly about brain dynamics: a neurocommentary 关于大脑动力学的非线性思考:神经评论

Proceedings 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering (BIBE 2001) Pub Date : 2001-03-04 DOI: 10.1109/BIBE.2001.974419

Michale E. Brandt

引用次数: 3