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BIBE
2003
IEEE
124views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
Prediction of Contact Maps Using Support Vector Machines
Contact map prediction is of great interest for its application in fold recognition and protein 3D structure determination. In this paper we present a contact-map prediction algor...
Ying Zhao, George Karypis
BIBE
2003
IEEE
121views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
Time Series Analysis of Gene Expression and Location Data
We develop a method for integrating time series expression profiles and factor-gene binding data to quantify dynamic aspects of gene regulation. We estimate latencies for transcr...
Chen-Hsiang Yeang, Tommi Jaakkola
BIBE
2003
IEEE
183views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
Effective Indexing and Filtering for Similarity Search in Large Biosequence Databases
We present a multi-dimensional indexing approach for fast sequence similarity search in DNA and protein databases. In particular, we propose effective transformations of subsequen...
Ozgur Ozturk, Hakan Ferhatosmanoglu
BIBE
2003
IEEE
14 years 5 months ago
Requirements of Phylogenetic Databases
We examine the organizational impact on phylogenetic databases of the increasing sophistication in the need and use of phylogenetic data. A primary issue is the use of the unnorma...
Luay Nakhleh, Daniel P. Miranker, François ...
BIBE
2003
IEEE
105views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
Prostate Gland and Extra-Capsular Tissue 3D Reconstruction and Measurement
Currently there are little objective parameters that can quantify the success of one form of prostate surgical removal over another. Accordingly, at Old Dominion University (ODU) ...
Frederic Rick McKenzie, Rania Hussein, Jennifer Se...
BIBE
2003
IEEE
14 years 5 months ago
An Investigation of Phylogenetic Likelihood Methods
Abstract— We analyze the performance of likelihoodbased approaches used to reconstruct phylogenetic trees. Unlike other techniques such as Neighbor-Joining (NJ) and Maximum Parsi...
Tiffani L. Williams, Bernard M. E. Moret
BIBE
2003
IEEE
116views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
An Assessment of a Metric Space Database Index to Support Sequence Homology
Hierarchical metric-space clustering methods have been commonly used to organize proteomes into taxonomies. Consequently, it is often anticipated that hierarchical clustering can ...
Rui Mao, Weijia Xu, Neha Singh, Daniel P. Miranker
BIBE
2003
IEEE
128views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
A Repulsive Clustering Algorithm for Gene Expression Data
: - Facing the development of microarray technology, clustering is currently a leading technique to gene expression data analysis. In this paper, we propose a novel algorithm calle...
Chyun-Shin Cheng, Shiuan-Sz Wang
BIBE
2003
IEEE
103views Bioinformatics» more  BIBE 2003»
14 years 5 months ago
An Empirical Comparison of Tools for Phylogenetic Footprinting
Mathieu Blanchette, Samson Kwong, Martin Tompa
ISPASS
2005
IEEE
14 years 5 months ago
BioBench: A Benchmark Suite of Bioinformatics Applications
Recent advances in bioinformatics and the significant increase in computational power available to researchers have made it possible to make better use of the vast amounts of gene...
Kursad Albayraktaroglu, Aamer Jaleel, Xue Wu, Mano...