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BIBM
2008
IEEE
107views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
A Functional Network of Yeast Genes Using Gene Ontology Information
In the post-genomic era, the organization of genes into networks has played an important role in characterizing the functions of individual genes and the interplay between them. I...
Erliang Zeng, Giri Narasimhan, Lisa Schneper, Kala...
BIBM
2008
IEEE
108views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Systematic Evaluation of Scaling Methods for Gene Expression Data
Even after an experimentally prepared gene expression data set has been pre-processed to account for variations in the microarray technology, there may be inconsistencies between ...
Gaurav Pandey, Lakshmi Naarayanan Ramakrishnan, Mi...
BIBM
2008
IEEE
175views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Integrative Protein Function Transfer Using Factor Graphs and Heterogeneous Data Sources
We propose a novel approach for predicting protein functions of an organism by coupling sequence homology and PPI data between two (or more) species with multifunctional Gene Onto...
Antonina Mitrofanova, Vladimir Pavlovic, Bud Mishr...
BIBM
2008
IEEE
101views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Comparing and Clustering Flow Cytometry Data
Flow cytometry technique produces large, multidimensional datasets of properties of individual cells that are helpful for biomedical science and clinical research. This paper expl...
Lin Liu, Li Xiong, James J. Lu, Kim M. Gernert, Vi...
BIBM
2008
IEEE
105views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Energy Profile and Secondary Structure Impact shRNA Efficacy
Many characteristics of functional synthetic siRNAs have been identified. Our three-phase algorithm was developed to design siRNA on a wholegenome scale based on these characteris...
Hong Zhou, Xiao Zeng
BIBM
2008
IEEE
112views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Predicting Protective Linear B-Cell Epitopes Using Evolutionary Information
Mapping B-cell epitopes plays an important role in vaccine design, immunodiagnostic tests, and antibody production. Because the experimental determination of B-cell epitopes is ti...
Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar
BIBM
2008
IEEE
145views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Meta Analysis of Microarray Data Using Gene Regulation Pathways
Using microarray technology for genetic analysis in biological experiments requires computationally intensive tools to interpret results. The main objective here is to develop a ...
Saira Ali Kazmi, Yoo-Ah Kim, Baikang Pei, Ravi Nor...
BIBM
2008
IEEE
170views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Protein Sequence Motif Super-Rule-Tree (SRT) Structure Constructed by Hybrid Hierarchical K-Means Clustering Algorithm
— Protein sequence motifs information is crucial to the analysis of biologically significant regions. The conserved regions have the potential to determine the role of the protei...
Bernard Chen, Jieyue He, Stephen Pellicer, Yi Pan
BIBM
2008
IEEE
137views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Exploring Alternative Splicing Features Using Support Vector Machines
Alternative splicing is a mechanism for generating different gene transcripts (called isoforms) from the same genomic sequence. Finding alternative splicing events experimentally ...
Jing Xia, Doina Caragea, Susan Brown
BIBM
2008
IEEE
212views Bioinformatics» more  BIBM 2008»
11 years 4 months ago
Analysis of Multiplex Gene Expression Maps Obtained by Voxelation
Background: Gene expression signatures in the mammalian brain hold the key to understanding neural development and neurological disease. Researchers have previously used voxelatio...
Li An, Hongbo Xie, Mark H. Chin, Zoran Obradovic, ...
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