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Development of a distributed annotat...

McNeill, Thomas Z.

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Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington.

Record Type:	Electronic resources : Monograph/item
Title/Author:	Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington./
Author:	McNeill, Thomas Z.
Description:	232 p.
Notes:	Source: Dissertation Abstracts International, Volume: 65-07, Section: B, page: 3289.
Contained By:	Dissertation Abstracts International65-07B.
Subject:	Biology, Microbiology. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3139810
ISBN:	0496869515

Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington.
McNeill, Thomas Z.

Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington. - 232 p.

Source: Dissertation Abstracts International, Volume: 65-07, Section: B, page: 3289.

Thesis (Ph.D.)--University of Houston, 2004.

The rapid and accurate communication of ideas, ongoing analysis and data among collaborators is often critical to the success or failure of a project. Groups undertaking sequencing and annotation of a bacterial genome have heretofor not had a common data delivery platform to facilitate the sharing of data and analysis in real time thus hindering project outcomes. The CONtig Analyzer and aNotator (CONAN) is a comprehensive integrated set of computer-based tools designed for scientists who analyze and compare genomes. Using an interface to a visualization platform, Genboree, (Gonzales-Garay et al., 2004) and an underlying data warehouse that stores the information in a relational form, CONAN facilitates collaborating users to view and interact with data and analysis results regardless of location or local computing facilities. In addition, CONAN employs advanced analytical methods designed to tolerate genome sequence data that is of questionable quality or incomplete in terms of total genome assembly. This tolerance to pre-assembly data allows significant information to be extracted from available data while the procedures for finishing and final assembly continue.

ISBN: 0496869515Subjects--Topical Terms:

1017734
Biology, Microbiology.

Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington.
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245 1 0 $a Development of a distributed annotation system, the Contig Analyzer and Annotator (CONAN) and annotation of Rickettsia typhi Wilmington.
300 $a 232 p.
500 $a Source: Dissertation Abstracts International, Volume: 65-07, Section: B, page: 3289.
500 $a Adviser: M. Benedik.
502 $a Thesis (Ph.D.)--University of Houston, 2004.
520 $a The rapid and accurate communication of ideas, ongoing analysis and data among collaborators is often critical to the success or failure of a project. Groups undertaking sequencing and annotation of a bacterial genome have heretofor not had a common data delivery platform to facilitate the sharing of data and analysis in real time thus hindering project outcomes. The CONtig Analyzer and aNotator (CONAN) is a comprehensive integrated set of computer-based tools designed for scientists who analyze and compare genomes. Using an interface to a visualization platform, Genboree, (Gonzales-Garay et al., 2004) and an underlying data warehouse that stores the information in a relational form, CONAN facilitates collaborating users to view and interact with data and analysis results regardless of location or local computing facilities. In addition, CONAN employs advanced analytical methods designed to tolerate genome sequence data that is of questionable quality or incomplete in terms of total genome assembly. This tolerance to pre-assembly data allows significant information to be extracted from available data while the procedures for finishing and final assembly continue.
520 $a To test the hypothesis that a genome annotation project could be conducted in parallel with finishing and assembly, the annotation of Rickettsia typhi Wilmington was conducted by a group of twelve investigators with different backgrounds and interests relative to R. typhi. Starting from a genome assembly of 5 contigs and ending in a fully sequenced organism, CONAN was used by this annotation team to annotate 877 genes, 3 rRNAs, 33 tRNAs, 3 ncRNAs, and over 40 pseudogenes (McLeod et al., 2004). The process and results of the R. typhi project have shown that the CONAN platform is viable and valuable for genome analysis. Steps previously done manually have been automated and enhanced, and communication of analyses across the research team was greatly improved. The R. typhi project also uncovered some shortcomings in the language and semantics for describing analyses and results. The team concluded that the primary obstacle preventing the rapid expansion and general acceptance of CONAN and CONAN-like systems across all organism based analysis communities is the semantic differences that would evolve within each community. These semantic differences manifest in terms of ontological variation between analysis communities. Once solutions to these semantic differences have been addressed and resolved, research communities will be able to take advantage of automated, well-coordinated exchange of data and results, and further shorten the overall time for analysis and comparison between genomes.
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650 4 $a Biology, Microbiology. $3 1017734
650 4 $a Biology, Molecular. $3 1017719
650 4 $a Computer Science. $3 626642
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690 $a 0307
690 $a 0984
710 2 0 $a University of Houston. $3 1019266
773 0 $t Dissertation Abstracts International $g 65-07B.
790 1 0 $a Benedik, M., $e advisor
790 $a 0087
791 $a Ph.D.
792 $a 2004
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3139810