DiProDB: a database for dinucleotide properties

被引：94

作者：

Friedel, Maik ^{[2
]}

Nikolajewa, Swetlana ^{[3
]}

Suehnel, Juergen ^{[2
]}

Wilhelm, Thomas ^{[1
]}

机构：

[1] AFRC, Inst Food Res, Norwich NR4 7UA, Norfolk, England

[2] Leiden Inst Age Res Fritz Lipmann Inst, Biocomp Grp, D-07745 Jena, Germany

[3] Univ Jena, Dept Bioinformat, D-07743 Jena, Germany

来源：

NUCLEIC ACIDS RESEARCH | 2009年 / 37卷

基金：

英国生物技术与生命科学研究理事会;

关键词：

STRUCTURAL-ANALYSIS; B-DNA; PROMOTER;

D O I：

10.1093/nar/gkn597

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

070307 [化学生物学]; 071010 [生物化学与分子生物学];

摘要：

DiProDB (http://diprodb.fli-leibniz.de) is a database of conformational and thermodynamic dinucleotide properties. It includes datasets both for DNA and RNA, as well as for single and double strands. The data have been shown to be important for understanding different aspects of nucleic acid structure and function, and they can also be used for encoding nucleic acid sequences. The database is intended to facilitate further applications of dinucleotide properties. A number of property datasets is highly correlated. Therefore, the database comes with a correlation analysis facility. Authors having determined new sets of dinucleotide property values are invited to submit these data to DiProDB.

引用

页码：D37 / D40

页数：4

共 15 条

[1]

ProSOM:: core promoter prediction based on unsupervised clustering of DNA physical profiles [J].

Abeel, Thomas ;

Saeys, Yvan ;

Rouze, Pierre ;

Van de Peer, Yves .

BIOINFORMATICS, 2008, 24 (13) :I24-I31

[2]

Large-scale structural analysis of the core promoter in mammalian and plant genomes [J].

Florquin, K ;

Saeys, Y ;

Degroeve, S ;

Rouzé, P ;

Van de Peer, Y .

NUCLEIC ACIDS RESEARCH, 2005, 33 (13) :4255-4264

[3]

Determining promoter location based on DNA structure first-principles calculations [J].

Goni, J. Ramon ;

Perez, Alberto ;

Torrents, David ;

Orozco, Modesto .

GENOME BIOLOGY, 2007, 8 (12)

[4]

B-DNA TWISTING CORRELATES WITH BASE-PAIR MORPHOLOGY [J].

GORIN, AA ;

ZHURKIN, VB ;

OLSON, WK .

JOURNAL OF MOLECULAR BIOLOGY, 1995, 247 (01) :34-48

[5]

Karas H, 1996, COMPUT APPL BIOSCI, V12, P441

[6]

Prediction of RNA secondary structure by free energy minimization [J].

Mathews, David H. ;

Turner, Douglas H. .

CURRENT OPINION IN STRUCTURAL BIOLOGY, 2006, 16 (03) :270-278

[7]

Common patterns in type II restriction enzyme binding sites [J].

Nikolajewa, S ;

Beyer, A ;

Friedel, M ;

Hollunder, J ;

Wilhelm, T .

NUCLEIC ACIDS RESEARCH, 2005, 33 (08) :2726-2733

[8]

On lines and planes of closest fit to systems of points in space. [J].

Pearson, Karl .

PHILOSOPHICAL MAGAZINE, 1901, 2 (7-12) :559-572

[9]

The relative flexibility of B-DNA and A-RNA duplexes:: database analysis [J].

Pérez, A ;

Noy, A ;

Lankas, F ;

Luque, FJ ;

Orozco, M .

NUCLEIC ACIDS RESEARCH, 2004, 32 (20) :6144-6151

[10]

PEREZMARTIN J, 1994, MICROBIOL REV, V58, P268

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