MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes

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IEEE Computer Society Bioinformatics Conference (CSB'02)

MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes (PDF)

Stanford, California

August 14-August 16

ISBN: 0-7695-1653-X

	ASCII Text	x
	C. Shyu, J. A. Foster, K. X. Liao, S. J. Bent, K. Sale, L. J. Forney, T. Soule, "MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes," Computational Systems Bioinformatics Conference, International IEEE Computer Society, pp. 341, IEEE Computer Society Bioinformatics Conference (CSB'02), 2002.

	BibTex	x
	@article{ 10.1109/CSB.2002.1039364, author = {C. Shyu and J. A. Foster and K. X. Liao and S. J. Bent and K. Sale and L. J. Forney and T. Soule}, title = {MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes}, journal ={Computational Systems Bioinformatics Conference, International IEEE Computer Society}, volume = {0}, year = {2002}, isbn = {0-7695-1653-X}, pages = {341}, doi = {http://doi.ieeecomputersociety.org/10.1109/CSB.2002.1039364}, publisher = {IEEE Computer Society}, address = {Los Alamitos, CA, USA}, }

	RefWorks Procite/RefMan/Endnote	x
	TY - CONF JO - Computational Systems Bioinformatics Conference, International IEEE Computer Society TI - MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes SN - 0-7695-1653-X SP EP A1 - C. Shyu, A1 - J. A. Foster, A1 - K. X. Liao, A1 - S. J. Bent, A1 - K. Sale, A1 - L. J. Forney, A1 - T. Soule, PY - 2002 KW - null VL - 0 JA - Computational Systems Bioinformatics Conference, International IEEE Computer Society ER -

C. Shyu, University of Idaho

J. A. Foster, University of Idaho

K. X. Liao, University of Idaho

S. J. Bent, University of Idaho

K. Sale, University of Idaho

L. J. Forney, University of Idaho

T. Soule, University of Idaho

DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/CSB.2002.1039364

Analyses of microbial community structure based on terminal restriction fragment length polymorphisms (T-RFLP) of 16S rRna genes are hindered by the lack of computational tools needed to aid experimental design, and to archive and analyze large data sets. The aim of this research was to develop a suite of web-based tools that would enable researchers to perform several tasks, these include: (a) in silico PCR amplification and restriction of 16S rRNA gene sequences found in public databases; (b) automatic retrieval of data and archival storage in an Oracle relational database; (c) comparison of multiple T-RFLP profiles obtained from a single sample using different primer-enzyme combinations; and (d) statistical analysis of T-RFLP data and clustering of samples based on similarities and differences.

Citation:

C. Shyu, J. A. Foster, K. X. Liao, S. J. Bent, K. Sale, L. J. Forney, T. Soule, "MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Genes," csb, pp.341, IEEE Computer Society Bioinformatics Conference (CSB'02), 2002

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