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GOGOT: a method for the identification of differentially expressed fragments from cDNA-AFLP data
https://repo.qst.go.jp/records/44952
https://repo.qst.go.jp/records/44952075b9492-3195-4ec4-8591-41a5ddbb1fdb
| Item type | 学術雑誌論文 / Journal Article(1) | |||||
|---|---|---|---|---|---|---|
| 公開日 | 2007-08-23 | |||||
| タイトル | ||||||
| タイトル | GOGOT: a method for the identification of differentially expressed fragments from cDNA-AFLP data | |||||
| 言語 | ||||||
| 言語 | eng | |||||
| 資源タイプ | ||||||
| 資源タイプ識別子 | http://purl.org/coar/resource_type/c_6501 | |||||
| 資源タイプ | journal article | |||||
| アクセス権 | ||||||
| アクセス権 | metadata only access | |||||
| アクセス権URI | http://purl.org/coar/access_right/c_14cb | |||||
| 著者 |
Kadota, Koji
× Kadota, Koji× Araki, Ryoko× Nakai, Yuji× Abe, Masumi× 荒木 良子× 安倍 真澄 |
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| 抄録 | ||||||
| 内容記述タイプ | Abstract | |||||
| 内容記述 | Background: One-dimensional (l-D) electrophoretic data obtained using the cDNA-AFLP method hava attracted great interest for the identification of differentially expressed transcript-derived fragments (TDFs).However,high-throughput analysis of the cDNA-AFLP data is currently limited by the need for labor-intensive visual evaluation of multiple electropherograms.We would like to hava high-throughput ways of identifying such TDFs. \nResults:We describe a method,GOGOT,which automatically detects the differentially expressed TDFs in a set of time-course electropherograms.Analysis by GOGOT is conducted as follows:correction of fragment lengths of TDFs,alignment of identical TDFs across different electropherograms,normalization of peak heights,and identification of differentially expressed TDFs using a special atatistic.The output of the analysis is a highly reduced list of differentially expressed TDFs.Visual evaluation confirmed that the peak alignment was performed perfectly for the TDFs by virtue of the correction of peak fragment lengths before alignment in step l.The validity of the automated ranking of TDFs by the special statistic was confirmed by the visual evaluation of a third party. \nConclusion:GOGOT is useful for the automated detection of differentially expressed TDFs from cDNA-AFLP temporal electrophoretic data.The current algorithm may be applied to other electrophoretic data and temporal microarray data. |
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| 書誌情報 |
Algorithms for Molecular Biology (Online only URL: http://www.almob.org/) 巻 2, 号 5, p. 1-11, 発行日 2007-05 |
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| ISSN | ||||||
| 収録物識別子タイプ | ISSN | |||||
| 収録物識別子 | 1748-7188 | |||||
| DOI | ||||||
| 識別子タイプ | DOI | |||||
| 関連識別子 | 10.1186/1748-7188-2-5 | |||||
| 関連サイト | ||||||
| 識別子タイプ | URI | |||||
| 関連識別子 | http://www.almob.org/content/2/1/5 | |||||
| 関連名称 | http://www.almob.org/content/2/1/5 | |||||
