Automatic transcription factor classifier based on functional domain composition
文献类型：期刊论文
| 作者 | Qian, Ziliang; Cai, Yu-Dong; Li, Yixue |
| 刊名 | Biochemical and biophysical research communications
 |
| 出版日期 | 2006-08-18 |
| 卷号 | 347期号:1页码:141-144 |
| 关键词 | Transcription factors Functional domain composition Intimate sorting classifier Jackknife cross-validation test |
| ISSN号 | 0006-291X |
| DOI | 10.1016/j.bbrc.2006.06.060 |
| 通讯作者 | Cai, yu-dong(cyd@picb.ac.cn) |
| 英文摘要 | To understand the transcriptional regulatory mechanism, it is indispensable to identify transcription factors (tf) from the whole genome and to classify transcription factors into different classes. new computational approaches have been developed to identify tfs/non-tfs, and furthermore to classify tfs into four different classes, based on the protein functional domain composition [k.c. chou, y.d. cai, using functional domain composition and support vector machines for prediction of protein subcellular location, j. biol. chem. 277 (2002) 45765-45769]. we trained and tested our method on a non-redundancy dataset consisting of 74 transcription factors collected from transfac v7.0 [v. matys, o.v. kel-margoulis, e. fricke, i. liebich, s. land, a. barre-dirrie, i. reuter, d. chekmenev, m. krull, k. hornischer, n. voss, p. stegmaier, b. lewicki-potapov, h. saxel, a.e. kel, e. wingender, transfac(r) and its module transcompel(r): transcriptional gene regulation in eukaryotes, nucleic acids res. 34 (2006) d108-d110] and 1558 non-transcription factors from uniprotkb/swiss-prot release 49.3 of 2 1-mar-2006. the overall success rates of jackknife cross-validation tests reached 98.4% for tf/non-tf identification and 97.2% for classifications of tf classes: basic domains, zinc-coordinating dna-binding domains. helix-turn-helix, and beta-scaffold factors. (c) 2006 elsevier inc. all rights reserved. |
| WOS关键词 | AMINO-ACID-COMPOSITION ; PROTEIN STRUCTURAL CLASS ; PREDICTION ; DATABASES |
| WOS研究方向 | Biochemistry & Molecular Biology ; Biophysics |
| WOS类目 | Biochemistry & Molecular Biology ; Biophysics |
| 语种 | 英语 |
| WOS记录号 | WOS:000239198000019 |
| 出版者 | ACADEMIC PRESS INC ELSEVIER SCIENCE |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2378963 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Cai, Yu-Dong |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Inst Biol Sci, Bioinformat Ctr, Shanghai 200031, Peoples R China 2.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China 3.Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, Beijing 100864, Peoples R China 4.Univ Manchester, Inst Sci & Technol, Biomol Sci Dept, Manchester M60 1QD, Lancs, England 5.Shanghai Ctr Bioinformat Technol, Shanghai 200235, Peoples R China |
| 推荐引用方式 GB/T 7714 | Qian, Ziliang,Cai, Yu-Dong,Li, Yixue. Automatic transcription factor classifier based on functional domain composition[J]. Biochemical and biophysical research communications,2006,347(1):141-144. |
| APA | Qian, Ziliang,Cai, Yu-Dong,&Li, Yixue.(2006).Automatic transcription factor classifier based on functional domain composition.Biochemical and biophysical research communications,347(1),141-144. |
| MLA | Qian, Ziliang,et al."Automatic transcription factor classifier based on functional domain composition".Biochemical and biophysical research communications 347.1(2006):141-144. |
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来源：中国科学院大学
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