Statistically significant strings are related to regulatory elements in the promoter regions of Saccharomyces cerevisiae

DOI10.1016/S0378-4371(00)00488-XzbMATH Open0974.92014arXivphysics/0009002OpenAlexW2103065948MaRDI QIDQ1594625FDOQ1594625

Authors: Rui Hu, Bin Wang 

Publication date: 6 February 2001

Published in: Physica A (Search for Journal in Brave)

Abstract: Finding out statistically significant words in DNA and protein sequences forms the basis for many genetic studies. By applying the maximal entropy principle, we give one systematic way to study the nonrandom occurrence of words in DNA or protein sequences. Through comparison with experimental results, it was shown that patterns of regulatory binding sites in Saccharomyces cerevisiae(yeast) genomes tend to occur significantly in the promoter regions. We studied two correlated gene family of yeast. The method successfully extracts the binding sites varified by experiments in each family. Many putative regulatory sites in the upstream regions are proposed. The study also suggested that some regulatory sites are a ctive in both directions, while others show directional preference.

Full work available at URL: https://arxiv.org/abs/physics/0009002

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zbMATH Keywords

DNA sequencesmaximum entropy principleregular binding site patterns

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40)

Cites Work

• Title not available (Why is that?)

Cited In (4)

• PROKARYOTIC PHYLOGENY BASED ON COMPLETE GENOMES WITHOUT SEQUENCE ALIGNMENT
• Analysis of transcriptional synergy between upstream regions and introns in ribosomal protein genes of yeast
• Information capacity of nucleotide sequences and its applications
• Genome wide study of NF-Y type CCAAT boxes in unidirectional and bidirectional promoters in human and mouse

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