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6th Atlantic Symposium on Computational Biology and Genome Informatics (CBG) |
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CBG-1: Computational Methods |
Go-Chart, a toolkit for visualization of genes in the context of gene ontology with variable p-values
D. Shah, M. Ma, G. Tromp
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Linking multiple genes to human chromosomal locations to facilitate knowledge discovery
T. Wang, M. Ma, P. Soteropoulos
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Statistical identification of biclusters in gene expression data
A. Chakraborty
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Wavelet analysis on temporal expression profiles of malaria parasite
H. Cai, S. Agaian, J. Gu, Y. Wang
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Precise Gridding of Microarray Images by Detecting and Correcting Rotations in Subarrays
Yu Wang, Frank Y. Shih, Marc Q. Ma
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SNP auto-calling using support vector machines
K. Zhang, M. Ma, H.-Y. Wang, Y. Wang, M. Baerjee, A. Karmaker, F. Shih, J. Wang, H. Li
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CBG-2: Metabolic Networks |
Exploring protein networks with a semantic similarity measure across gene ontology
Z. Lubovac, J. Gamalielsson, B. Olsson, A. Lindlof
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Efficient validation of metabolic pathway databases
L. Felix, G. Valiente
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Testing feasibility in metabolic pathways is as easy as matrix
R. Nigam
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A combined approach to the identification of transcription factor binding sites in prokaryote
H.K. Dai, L. Zhao
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CBG-3: Structure Alignment |
Finding global similarities between proteins using vector algorithms
S. Hamel
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Randomized algorithms for three-dimensional protein structures alignment
Y.-L. Lin, Y.-H. Lin, P.-S. Yu, H.-C. Chang
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Aligning two RNA secondary structures with l-block
Z. Wang, E.R.M. Tillier
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Peak alignment using restricted edit distances
V. Makinen
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The similarity metric and the distance metric
B. Ma, K. Zhang
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ParaRNA: A parametric tool for aligning two RNA structures
L. Wang, W. Feng, H. Zhao, K. Zhang, X. Liu
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CBG-4: Genomic Data Analysis |
Phylogenetic information integration: research issues and techniques
K.G. Herbert, J.T.L. Wang
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Combinatorial reconstruction of sibling relationships
T.Y. Berger-Wolf, B. DasGupta, W. Chaovalitwongse, M.V. Ashley
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Genomic data mining for species identification using principal component analysis
S. Sen, S. Narasimhan, A. Konar, U.K. Chakraborty
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Comparison of gene structure in microbial genomes
G. Rao, D.K.Y. Chiu
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PROFESS, a system to support extracting protein function information from literature
Y. Kaneta, M. Numa, M. A. Munna, Y. Sakurai, T. Ohkawa
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CBG-5: Pattern Analysis Methods |
Local sequence alignment using parallel memory-efficient dynamic programming
L. Pichl, M. Arai, K. Hanabusa, T. Hayashi
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Finding double-stranded RNA structures in the 3’ untranslated eukaryotic mRNAs
S.-Y. Le, J.V. . Maizel, Jr
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Splice site prediction with linear kernel and Bayesian mapping
Y. Zhang, C.-H. Chu, H. Zha, Y. Chen, X. Ji
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Sequence-structure patterns: discovery and applications
T. Milledge, S. Khuri, X. Wei, C. Yang, G. Zheng, G. Narasimhan
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Determining thresholds for binding site sequence models using information theory
C. Bi, P.K. Rogan
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CBG-6: Pattern Search Methods |
Exploring the space of consensus RNA secondary structure motifs using suffix arrays
T. Nguyen, M. Turcotte
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YUCCA: An efficient algorithm for small molecule docking
V. Choi
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Algorithms for searching RNA motifs in genomic sequences
J. Liu, K. Zhang
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A method for retrieving protein with a local structure similar to known interaction site using profile
Y. Nonomura, K. Yoshino, T. Ohkawa
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Identification of protein patterns in nucleic acid sequences and exploration of synonymous codons in tissue differentiation
G. Anogianakis, E. Kapritsos, Ch. Makris, N. Mpaltas, K. Perdikuri, K. Themelis, A. Tsakalidis
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Classifying SARS-CoV genomes based on their unique sequences
P.-H. Liu, S.-L. Peng, C.Y. Tang, Y.-W. Tsay, J.T.L. Wang
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