Comput Biol Chem - Statistical analysis of combinatorial transcriptional regulatory motifs in human intron-containing promoter sequences.

Tópicos

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Resumo

The combinatorial regulation is an important feature of transcriptional regulation of genes. Although a number of researches have been done, the general properties of combinatorial transcriptional regulatory elements, including their patterns and distributions, are still not well understood. Specially, the understanding for laws of transcriptional regulation involving introns is challenging. Here, we performed statistical analyses on potentially interacting motif pairs in human housekeeping genes and tissue-specific genes of some tissues. We first identified transcriptional regulatory motifs in promoter sequences, including the first introns, using a sequence-based approach which incorporates several different sequence backgrounds. And then we predicted the potentially interacting motif pairs using Hypergeometric distribution and Mann-Whitney U-test. The validation of the predicted interacting motif pairs has been carried out via analyses of orthologous conservation and enrichment. The distribution characteristics of the identified motif pairs were examined using a probability model. We found that interacting motif pairs have some significant preferences in location, distance and orientation in housekeeping and tissue-specific genes. The results suggest that the features of transcriptional regulation in housekeeping genes are different from the tissue-specific genes. Besides, location preferences of the motif pairs provide clues to the way of the introns participating in transcriptional regulation in different tissue-specific genes.

Resumo Limpo

combinatori regul import featur transcript regul gene although number research done general properti combinatori transcript regulatori element includ pattern distribut still well understood special understand law transcript regul involv intron challeng perform statist analys potenti interact motif pair human housekeep gene tissuespecif gene tissu first identifi transcript regulatori motif promot sequenc includ first intron use sequencebas approach incorpor sever differ sequenc background predict potenti interact motif pair use hypergeometr distribut mannwhitney utest valid predict interact motif pair carri via analys ortholog conserv enrich distribut characterist identifi motif pair examin use probabl model found interact motif pair signific prefer locat distanc orient housekeep tissuespecif gene result suggest featur transcript regul housekeep gene differ tissuespecif gene besid locat prefer motif pair provid clue way intron particip transcript regul differ tissuespecif gene

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