Human repetitive sequence densities are mostly negatively correlated with R/Y-based nucleosome-positioning motifs and positively correlated with W/S-based motifs

Genomics

Wentian Li³  Daniela Sosa²  Marco V. Jose¹ 

[1] Theoretical Biology Group, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Apdo Postal 70228, México 04510 DF, Mexico;Facultad de Ciencias, Universidad Nacional Autónoma de México, México 04510 DF, MexicoCentro de Ciencias de la Complejidad, Universidad Nacional Autónoma de México, México 04510 DF, Mexico;The Robert S. Boas Center for Genomics and Human Genetics, The Feinstein Institute for Medical Research, North Shore LIJ Health System, Manhasset, 350 Community Drive, NY 11030, USA

关键词: Nucleosome positioning;    Repetitive sequences;    DNA motifs;    Wavelet transformation;   

DOI  :  10.1016/j.ygeno.2012.10.005

学科分类：医学（综合）

来源: Academic Press

【 摘 要 】

Weexaminedstatisticalcorrelationsbetweenthefrequenciesofsevenproposednucleosomepositioningmotifsandthedensitiesofrepetitivesequencesinthehumangenome.Forbothparametricandnon-parametricmeasuresofstatisticalcorrelationsthereisatendencyforrepetitivesequencedensitytobenegativelycorrelatedwiththedensityofR/Y-basednucleosomepositioningmotifs,whilebeingpositivelycorrelatedwiththatofW/S-basedmotifs.Theseresultslargelyholdevenwhenmotifsareexaminedonlywithinrepeat-filteredsequences.TheRRRRRYYYYYmotifandits5-baseshiftYYYYYRRRRR,inparticular,isover-representedinthehumangenome;anditsnegativecorrelationisconsistentlypresentatdifferentregionsandatdifferentlengthscales.Forsomeothernucleosomepositioningmotifs,therelationshipwithrepeatscanberegionalorlengthscaledependent.Consideringtheimportanceofnucleosomeformationinepigeneticregulations,theseresultsmayprovidenewinsighttotheevolutionofrepetitivesequences.

【 授权许可】

Unknown   

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