alteration in methylation pattern of promoters is associated with tumorigenic events,(1, 2) and differentiation control,(3, 4) in several types of cells in humans.specific hypermethylation in promoter region of some genes exist in different types of neoplastic cells.(5) dna methylation indicates to the addition of a methyl moiety to the cytosine in a cpg dinucleotide. cpg dinucleotides tend to ...

A systematic phylogenetic footprinting approach was performed to identify conserved transcription factor binding sites (TFBSs) in mammalian promoter regions using human, mouse and rat sequence alignments. We found that the score distributions of most binding site models did not follow the Gaussian distribution required by many statistical methods. Therefore, we performed an empirical test to es...

Complement receptor 2 (CR2) is regulated at the transcriptional level, but the promoter elements and the transcription factors that bind to them and contribute to its regulation are unknown. After documenting that PMA and cAMP induced the activity of the CR2 promoter by 10-fold, we conducted promoter truncation and mutagenesis experiments, in conjunction with shift assays, to determine the func...

TFIIH is a multifunctional RNA polymerase II general initiation factor that includes two DNA helicases encoded by the Xeroderma pigmentosum complementation group B (XPB) and D (XPD) genes and a cyclin-dependent protein kinase encoded by the CDK7 gene. Previous studies have shown that the TFIIH XPB DNA helicase plays critical roles not only in transcription initiation, where it catalyzes ATP-dep...

Recently, the Encyclopedia of DNA Elements (ENCODE) Analysis Working Group converted data from ChIP-seq analyses from the Broad Histone track into 15 corresponding chromatic maps that label sequences with different kinds of histone modifications in promoter regions. Here, we publish a frequency profile of the three ChromHMM promoter states, at 200-bp intervals, with particular reference to the ...

RNA polymerase initiating at Escherichia coli ribosomal RNA promoter-leader regions can efficiently read through factor rho-dependent termination signals. Dissection of the promoter-leader region reveals that the ability to read through termination signals is conferred independently by both promoter and leader regions. Events in the leader also affect the transcription rate of structural genes ...

Saccharomyces cerevisiae accumulates trehalose as a stress metabolite in adverse environmental conditions. The synthesis and breakdown are important for the regulation of levels within yeast cell. Therefore, TPS1 NTH1 gene expressions tightly regulated during transcription also translation. Since both genes contain Stress Response Elements (STRE) promoter regions, they co-activated under Howeve...

The structural properties of the DNA molecule are known to play a critical role in transcription. In this paper, the structural profiles of promoter regions were studied within the context of their diversity and their function for eleven prokaryotic species; Escherichia coli, Klebsiella pneumoniae, Salmonella Typhimurium, Pseudomonas auroginosa, Geobacter sulfurreducens Helicobacter pylori, Chl...

Comparative sequence analysis is a powerful tool to extract functional information from genomes of organisms. Completion of human and mouse genomes lead to profitable comparative analyses, providing many insights into non-coding regions as well as into protein coding regions. Shortly after the completion of human and mouse genomes, large-scale collections of 5’ end of cDNAs for human and mouse ...