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Guest Editorial: Advanced Algorithms of Bioinformatics
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Yi-Ping Phoebe Chen
Issue Date:March 2013
pp. 273
Advanced algorithms can help to identify functional relationships of genes in a biological process, discovery sequence, and structural similarities and provide insights into the regulatory mechanism in bioinformatics. In this special section, three papers ...
 
Guest Editorial: Application and Development of Bioinformatics
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Yi-Ping Phoebe Chen
Issue Date:July 2014
pp. 1265
No summary available.
 
Guest editorial for the 12th Asia Pacific Bioinformatics Conference
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Shuigeng Zhou,Yi-Ping Phoebe Chen
Issue Date:July 2014
pp. 614-615
The eight papers in this special section were presented at the Twelfth Asia Pacific Bioinformatics Conference (APBC2014), which was held in Shanghai, China, 17-19 January, 2014. The papers cover diverse topics, including protein complex prediction, nucleos...
 
Identifying multiple stem-loops pre-miRNA using support vector machine
Found in: Bioinformatics and Biomedicine Workshop, IEEE International Conference on
By Xiaofeng Song,Minghao Wang,Yi-Ping Phoebe Chen,Ping Han
Issue Date:November 2011
pp. 446-448
Those pre-miRNAs with multiple loops are usually excluded in the most existing prediction methods. But as more and more miRNA have been identified, amount of miRNA precursor with multiple loops have been found. Therefore, determining how to effectively pre...
 
A Framework for Merging Inconsistent Beliefs in Security Protocol Analysis
Found in: Data Engineering Issues in E-Commerce, International Workshop on
By Qingfeng Chen, Yi-Ping Phoebe Chen, Chengqi Zhang, Shichao Zhang
Issue Date:April 2005
pp. 119-124
<p>This paper proposes a framework for merging inconsistent beliefs in the analysis of security protocols. The merge application is a procedure of computing the inferred beliefs of message sources and resolving the conflicts among the sources. Some s...
 
Early Breast Cancer Identification: Which Way to Go? Microarray or Image Based Computer Aided Diagnosis!
Found in: Network and System Security, International Conference on
By Jesmin Nahar, Kevin S. Tickle, A.B.M. Shawkat Ali, Yi-Ping Phoebe Chen
Issue Date:October 2009
pp. 456-461
The goal of this research is to develop a computer aided diagnostic (CAD) system that can detect breast cancer in the early stage by using microarray and image data. We verified the performance of six well known classification algorithms with various perfo...
 
Data Pre-processing for More Effective Gene Clustering
Found in: Computational Sciences and Optimization, International Joint Conference on
By Jingyu Hou, Yi-Ping Phoebe Chen
Issue Date:April 2009
pp. 710-713
The high-throughput experimental data from the new gene microarray technology has spurred numerous efforts to find effective ways of processing microarray data for revealing real biological relationships among genes. This work proposes an innovative data p...
 
Acoustic Features Extraction for Emotion Recognition
Found in: Computer and Information Science, ACIS International Conference on
By Jia Rong, Yi-Ping Phoebe Chen, Morshed Chowdhury, Gang Li
Issue Date:July 2007
pp. 419-424
In the last decade, the efforts of spoken language processing have achieved significant advances, however, the work with emotional recognition has not progressed so far, and can only achieve 50% to 60% in accuracy [1]. This is because a majority of researc...
 
Finding Short Patterns to Classify Text Documents
Found in: Web Intelligence, IEEE / WIC / ACM International Conference on
By Jiyuan An, Yi-Ping Phoebe Chen
Issue Date:December 2006
pp. 293-296
Many classification methods have been proposed to find patterns in text documents. However, according to Occam?s razor principle,
 
Finding Rule Groups to Classify High Dimensional Gene Expression Datasets
Found in: Pattern Recognition, International Conference on
By Jiyuan An, Yi-Ping Phoebe Chen
Issue Date:August 2006
pp. 1196-1199
Microarray data provides quantitative information about the transcription profile of cells. To analyze microarray datasets, methodology of machine learning has increasingly attracted bioinformatics researchers. Some approaches of machine learning are widel...
 
ANNODA: Tool for integrating Molecular-biological Annotation Data
Found in: Data Engineering Workshops, 22nd International Conference on
By Supawan Prompramote, Yi-Ping Phoebe Chen
Issue Date:April 2005
pp. 1166
Collecting, analyzing, and making Molecularbiological annotation data accessible in different public data sources is still an ongoing project. Integration of such data from these data sources might lead to valuable biological knowledge. There are numerous ...
 
Concept Learning of Text Documents
Found in: Web Intelligence, IEEE / WIC / ACM International Conference on
By Jiyuan An, Yi-Ping Phoebe Chen
Issue Date:September 2004
pp. 698-701
Concept learning of text documents can be viewed as the problem of acquiring the definition of a general category of documents. To definite the category of a text document, the Conjunctive of keywords is usually be used. These keywords should be fewer and ...
 
A Computational Framework for Nucleic Acid Sub-Sequence Identification
Found in: Bioinformatic and Bioengineering, IEEE International Symposium on
By Scott Mann, Yi-Ping Phoebe Chen, Luke Eaton
Issue Date:May 2004
pp. 467
Identification of nucleic acid sub-sequences within larger background sequences is a fundamental need of the biology community. The applicability correlates to research studies looking for homologous regions, diagnostic purposes and many other related acti...
 
Discovering Inhibition Pathways for Protein Kinases
Found in: IEEE Intelligent Systems
By Qingfeng Chen,Yi-Ping Phoebe Chen
Issue Date:September 2012
pp. 19-26
The inhibition of protein kinase activity can cause disease. The authors present a method for investigating inhibitive regulatory correlations between kinase isoforms and physical factors.
 
Function Annotation for Pseudoknot Using Structure Similarity
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Qingfeng Chen,Yi-Ping Phoebe Chen
Issue Date:November 2011
pp. 1535-1544
Many raw biological sequence data have been generated by the human genome project and related efforts. The understanding of structural information encoded by biological sequences is important to acquire knowledge of their biochemical functions but remains ...
 
Discovery of Structural and Functional Features in RNA Pseudoknots
Found in: IEEE Transactions on Knowledge and Data Engineering
By Qingfeng Chen, Yi-Ping Phoebe Chen
Issue Date:July 2009
pp. 974-984
An RNA pseudoknot consists of nonnested double-stranded stems connected by single-stranded loops. There is increasing recognition that RNA pseudoknots are one of the most prevalent RNA structures and fulfill a diverse set of biological roles within cells, ...
 
A Scheduling Method for Node Relay-based Webcast Considering Reconnection
Found in: Advanced Information Networking and Applications, International Conference on
By Yusuke Gotoh,Tomoki Yoshihisa,Hideo Taniguchi,Masanori Kanazawa,Wenny Rahayu,Yi-Ping Phoebe Chen
Issue Date:March 2012
pp. 787-794
Due to the recent popularization of digital broadcasting systems, selective contents broadcasting depending on users' preferences with node relay-based web cast have attracted much attention. In node relay-based web cast, waiting time is reduced by receivi...
 
A Scheduling Method for Selective Contents Broadcasting with Fast-Forwarding
Found in: P2P, Parallel, Grid, Cloud, and Internet Computing, International Conference on
By Yusuke Gotoh,Tomoki Yoshihisa,Hideo Taniguchi,Masanori Kanazawa,Wenny Rahayu,Yi-Ping Phoebe Chen
Issue Date:October 2011
pp. 344-349
Due to the recent popularization of digital broadcasting systems, selective contents broadcasting depending on viewers' preference, have attracted attention. For example, in a quiz program, a user selects his answer and watches the video content for the an...
 
High Functional Coherence in k-Partite Protein Cliques of Protein Interaction Networks
Found in: Bioinformatics and Biomedicine, IEEE International Conference on
By Qian Liu, Yi-Ping Phoebe Chen, Jinyan Li
Issue Date:November 2009
pp. 111-117
We introduce a new topological concept called k-partite protein cliques to study protein interaction (PPI) networks.In particular, we examine functional coherence of proteins in k-partite protein cliques. A k-partite protein clique is a k-partite maximal c...
 
Querying Recursive Structures Without Recursive Queries
Found in: Agile Development Conference/Australasian Database Conference
By Yi-Ping Phoebe Chen, Robert M. Colomb
Issue Date:February 2000
pp. 21
In this paper, we present generic Data-Base Model Tools for L-Systems (DBM-L). DBM-L allows representation of L-Systems objects as database structures by a generic automatic translation process. This research contributes the idea of pre-computing recursive...
 
DML: A Bridge between Database Systems and L-Systems for Biological Research
Found in: Scientific and Statistical Database Management, International Conference on
By Yi-Ping Phoebe Chen
Issue Date:July 1999
pp. 285
In this paper, we present the generic Data Model Tools for L-Systems (DML). The work combines a novel application area with databases in Bioinformatics. DML allows specification of database structures and queries in terms of objects and relations specific ...
 
Finding Motifs in miRNA Sequences
Found in: Computer and Information Science, ACIS International Conference on
By Chinnu Subramaniam, Jiyuan An, Jayavardhana Gubbi, Yi-Ping Phoebe Chen
Issue Date:July 2007
pp. 507-512
Recently, the emergence of non-coding miRNA has attracted biology and computer researchers. miRNA plays an important role in regulation of genes. Finding motifs in RNA is one of important topics. In our work, we attempt to find motifs in mature miRNA from ...
 
Function Annotation for Pseudoknot Using Structure Similarity
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Qingfeng Chen, Yi-Ping Phoebe Chen, Yi-Ping Phoebe Chen
Issue Date:November 2011
pp. 1535-1544
Many raw biological sequence data have been generated by the human genome project and related efforts. The understanding of structural information encoded by biological sequences is important to acquire knowledge of their biochemical functions but remains ...
     
Reordering video shots for event classification using bag-of-words models and string kernels
Found in: Proceedings of the 27th Conference on Image and Vision Computing New Zealand (IVCNZ '12)
By Shyi-Chyi Cheng, Yi-Ping Phoebe Chen, Yung-Lun Chen
Issue Date:November 2012
pp. 186-191
This paper presents a novel approach to reorder video shots using the state-of-the-art bag-of-words (BoW) approach. The shot reordering approach eliminates the temporal ambiguity which is likely to degrade the performance of conventional video event recogn...
     
Guest Editorial: Advanced Algorithms of Bioinformatics
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Yi-Ping Phoebe Chen
Issue Date:March 2013
pp. 273-273
Based on all kinds of adjacent amino acids (AAA), we map each protein primary sequence into a 400 by ($(L-1)$) matrix $({\schmi M})$. In addition, we further derive a normalized 400-tuple mathematical descriptors $({\schmi D})$, which is extracted from the...
     
Guest Editorial: Application and Development of Bioinformatics
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Yi-Ping Phoebe Chen
Issue Date:September 2012
pp. 1265
Gene translation is a central process in all living organisms. Developing a better understanding of this complex process may have ramifications to almost every biomedical discipline. Recently, Reuveni et al. proposed a new computational model of this proce...
     
A method to reduce waiting time for close-range broadcasting
Found in: Proceedings of the 9th International Conference on Advances in Mobile Computing and Multimedia (MoMM '11)
By Hideo Taniguchi, Masanori Kanazawa, Tomoki Yoshihisa, Wenny Rahayu, Yi-Ping Phoebe Chen, Yusuke Gotoh
Issue Date:December 2011
pp. 116-122
Due to the recent popularization of digital webcast systems. close-range broadcasting using continuous media data, i.e. audio and video, has attracted great attention. For example, in a movie program, after a user watches interesting content such as a high...
     
A scalable and extensible segment-event-object-based sports video retrieval system
Found in: ACM Transactions on Multimedia Computing, Communications, and Applications (TOMCCAP)
By Adrien Joly, Dian Tjondronegoro, Yi-Ping Phoebe Chen
Issue Date:May 2008
pp. 1-40
Sport video data is growing rapidly as a result of the maturing digital technologies that support digital video capture, faster data processing, and large storage. However, (1) semi-automatic content extraction and annotation, (2) scalable indexing model, ...
     
Content-based video indexing for sports applications using integrated multi-modal approach
Found in: Proceedings of the 13th annual ACM international conference on Multimedia (MULTIMEDIA '05)
By Binh Pham, Dian Tjondronegoro, Yi-Ping Phoebe Chen
Issue Date:November 2005
pp. 1035-1036
To sustain an ongoing rapid growth of video information, there is an emerging demand for a sophisticated content-based video indexing system. However, current video indexing solutions are still immature and lack of any standard. This doctoral consists of a...
     
The power of play-break for automatic detection and browsing of self-consumable sport video highlights
Found in: Proceedings of the 6th ACM SIGMM international workshop on Multimedia information retrieval (MIR '04)
By Binh Pham, Dian Tjondronegoro, Yi-Ping Phoebe Chen
Issue Date:October 2004
pp. 267-274
To enable content-based retrieval, highlights extraction from broadcasted sport video has been an active research topic in the last decade. There is a well-known theory that high-level semantic, such as goal in soccer can be detected based on the occurrenc...
     
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