Detecting pathogenicity islands and anomalous gene clusters by iterative discriminant analysis
文献类型：期刊论文
| 作者 | Tu, Q; Ding, DF |
| 刊名 | FEMS MICROBIOLOGY LETTERS
 |
| 出版日期 | 2003 |
| 卷号 | 221期号:2页码:269-275 |
| 关键词 | bacterial genome pathogenicity island genomic island discriminant analysis compositional analysis |
| 通讯作者 | Ding, DF (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Biochem & Cell Biol, Key Lab Proteom, 320 Yeuyang Rd, Shanghai 200031, Peoples R China., |
| 英文摘要 | We present a simple method to detect pathogenicity islands and anomalous gene clusters in bacterial genomes. The method uses iterative discriminant analysis to define genomic regions that deviate most from the rest of the genome in three compositional criteria: G+C content, dinucleotide frequency and codon usage. Using this method, we identify many virulence-related gene islands, e.g. encoding protein secretion systems. adhesins, toxins, and other anomalous gene clusters, such as prophages. The program and the whole dataset, including the catalogs of genes in the detected anomalous segments, are publicly available at http://compbio.sibsnet.org/projects/pai-ida/. This program can be used in searching for virulence-related factors in newly sequenced bacterial genomes. (C) 2003 Federation of European Microbiological Societies. Published by Elsevier Science B.V. All rights reserved. |
| 学科主题 | Microbiology |
| 类目[WOS] | Microbiology |
| 关键词[WOS] | III SECRETION SYSTEM ; ENTEROHEMORRHAGIC ESCHERICHIA-COLI ; VIRULENCE FACTORS ; SALMONELLA-TYPHIMURIUM ; HELICOBACTER-PYLORI ; EFFECTOR PROTEINS ; BACTERIAL GENOMES ; IRON |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000182736700020 |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.143/handle/331003/2248]  |
| 专题 | 上海生化细胞研究所_上海生科院生化细胞研究所 |
| 推荐引用方式 GB/T 7714 | Tu, Q,Ding, DF. Detecting pathogenicity islands and anomalous gene clusters by iterative discriminant analysis[J]. FEMS MICROBIOLOGY LETTERS,2003,221(2):269-275. |
| APA | Tu, Q,&Ding, DF.(2003).Detecting pathogenicity islands and anomalous gene clusters by iterative discriminant analysis.FEMS MICROBIOLOGY LETTERS,221(2),269-275. |
| MLA | Tu, Q,et al."Detecting pathogenicity islands and anomalous gene clusters by iterative discriminant analysis".FEMS MICROBIOLOGY LETTERS 221.2(2003):269-275. |
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