WORDUP - AN EFFICIENT ALGORITHM FOR DISCOVERING STATISTICALLY SIGNIFICANT PATTERNS IN DNA-SEQUENCES

被引：48

作者：

PESOLE, G ^{[1
]}

PRUNELLA, N ^{[1
]}

LIUNI, S ^{[1
]}

ATTIMONELLI, M ^{[1
]}

SACCONE, C ^{[1
]}

机构：

[1] CNR, CTR STUDIO MITOCONDRI & METAB ENERGENT, I-70126 BARI, ITALY

来源：

NUCLEIC ACIDS RESEARCH | 1992年 / 20卷 / 11期

关键词：

D O I：

10.1093/nar/20.11.2871

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We present here a fast and sensitive method designed to isolate short nucleotide sequences which have non-random statistical properties and may thus be biologically active. It is based on a first order Markov analysis and allows us to detect statistically significant sequence motifs from six to ten nucleotides long which are significantly shared (or avoided) in the sequences under investigation. This method has been tested on a set of 521 sequences extracted from the Eukaryotic Promoter Database (2). Our results demonstrate the accuracy and the efficiency of the method in that the sequence motifs which are known to act as eukaryotic promoters, such as the TATA-box and the CAAT-box, were clearly identified. In addition we have found other statistically significant motifs, the biological roles of which are yet to be clarified.

引用

页码：2871 / 2875

页数：5

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