Extreme value theory in some statistical analysis of genomic sequences

DOI10.1007/S10687-006-0008-9MaRDI QIDQ2463683zbMATH OpenOpenAlexFDO

Authors Lily Wang, Pranab K. Sen

Publication date 16 December 2007

Published in Extremes (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1007/s10687-006-0008-9

zbMATH Keywords

maximum profile scoresprotein profilessequence alignments

Mathematics Subject Classification ID

Statistics of extreme values; tail inference (62G32) Applications of statistics to biology and medical sciences; meta analysis (62P10) Biochemistry, molecular biology (92C40)

Review text

The authors consider the problem of multiple alignments of protein-coding DNA sequences. A concept of multiple alignment profiles for a domain of protein sequences is introduced. It is assumed that the profiles are random and possibly with gaps. Statistical significance of the profile scores is estimated by deriving the distribution of their maximum. It is shown that the tail distributions of the scores behave like a mixed normal distribution. An application to the Immunoglobulin domain (Ig) and results of simulations are presented.

Recommendations

• Toward an accurate statistics of gapped alignments
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Cites work

• Extremes and related properties of random sequences and processes
• scientific article; zbMATH DE number 50805 (Why is no real title available?)
• Large Deviation Probabilities for Weighted Sums
• Poisson approximation for dependent trials
• Two moments suffice for Poisson approximations: The Chen-Stein method

Cited in

(1)

• Alignment Statistics for Long-Range Correlated Genomic Sequences

Describes a project that uses

Uses Software

• BLAST
• PSI-BLAST

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