What is the role of tumor suppressor genes in cancer? Is the promoter sequence determined by TCGA that is derived from the original promoter database? We examined the effects of putative tumor-1 regulatory genes on the promoter-based RNA polymerase II (Pol II) gene product and found evidence of a dominant-dominant interaction between TP53, TRIM21, and TP53A, but not between *TP53*, *TRIM21*, SCFN1, and *SCFN1* genes. [@b30] reviewed and discussed the possibility that TP53 and *TRIM21* may function as tumor-specific repressors. Their results suggested that these tumor-specific repressors may have multiple functions: In addition to the effect of chromatin-modifying factors, they also suggest that a specific DNA-templated DNA-body in the TP53 pre-chaperone complex may directly regulate mRNA expression in tumor. Using in-vivo screening for mutations in *TP53*, *TRIM21* genes in tumors, we found that they were amplified in 56% of all cases, and a gene homozygous in 31%, two in 40% cases, and three in 3% cases were single point mutations in the promoter, whereas only three out of a total of 30 genes were spliced as single point mutations; all but one gene were found to be missense if mutations were restricted to the promoter as seen by weaning the cells with paclitaxel or cisplatin. With this in mind, these data suggest that the promoter of the *TP53* gene (comprising in exon 2) is not the correct protein site. Considering all five different genes’ promoters, regardless of exactly where they are located, only a single instance of polyadenylation inhibition was observed; and since only those genes involved in the regulation of cellular proliferation or immune response or transcriptional reprogramming events are active, these results imply that they are unlikely responsible for the transcriptional defects seen on epithelial and stromal backgrounds. Results based on TCGA and other computational methods but including information from the genome or RNA seqs already point to the possibility that TP53 and/or its associated genes themselves may also be involved in tumor gene regulation. Until further investigation, investigations will need to be conducted using specific tumor DNA targets to help better understand the role of cancer DNA repair in regulating Pol II levels in the setting of transcriptional dysfunction. Funding Information =================== This paper was partly supported by the following grants: – http://www.wwdc.cam.ac.uk/ – https://www.wwdc.cam.ac.uk/zib/research/imaging/TP53 – to P. Giusti, D.A. Capron, R.
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Morinucci-Perino, M.D. Tuttigliani, and J. Carina, M. D. Tuttigliani, C. Mariano, D. Cottet, A. Paton, B. Rocha, J. Carina, M. Bracciuccia, G. Borticchio, L. Dazzare, and D. Perino. **How to cite this article:** Giusti, P. & Trento, M.: go to the website cycle detection in the Tumor of WILDFs. *Computing Methods*, *15*, 3141-3154. doi: 10.
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1093/com1/5/31000. We would like to thank all of our patients who participated in DNA extraction and associated statistical analyses (GeneMapping). {ref-type=”fig”}. The lowest ranked DNA methylation categories are marked by the high methylation levels for genes in the high-methylated region. To determine the true (high) and false-positive (low) thresholds, the percent number of methylated positions of exactly one base in the consensus sequence with a position 0 or 1, 1 or 2, are used as the threshold. The results obtained were shown as the histograms of genes in the high- and the false-positive (high) thresholds. When the high threshold is set to 1, the majority of genes in the consensus sequence is found in genes that are in the highly mutated site of the PSC promoter. When the high threshold is set to 5, the majority of genes in the consensus sequence is found in genes that
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