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	Automatic transcription factor classifier based on functional domain composition
	Qian, Ziliang; Cai, Yu-Dong; Li, Yixue
刊名	Biochemical and biophysical research communications
	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
出版者	ACADEMIC PRESS INC ELSEVIER SCIENCE
WOS记录号	WOS:000239198000019
内容类型	期刊论文
URI标识	http://www.corc.org.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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