In silico study of non-coding, coding transcription region and domain interaction for chromosomal translocation sequences

摘要

Chromosome translocation is an abnormality caused by the rearrangement of fragments between two non-homologous chromosomes. Fusion gene event may be formed when the translocation joins two separated genes, this kind of events happen rather common in cancer. It is conjecture that non-coding as well as coding fusion gene event may possibly occur. It is known that proteins are composed of multiple functional domains. In this study, domain-domain interaction (DDI) data is employed to study fusion proteins' interaction. The aim of this work is to identify microRNA (miRNA) precursors and fusion gene from the translocation sequences as well as DDI for fusion proteins. The results indicated that none of the fusion sequence perfectly matches with known miRNA precursor in full length. However, there exist several translocation sequence regions perfectly match with certain miRNA precursors partially (around 60% of the length). On the other hand, two fusion sequences were predicted to form coding regions; however, those are known exonic regions, and these regions are conserved among certain species as well. This conjecture is novel and the present work is the first attempt in investigating such possibility. Our finding showed that certain translocation sequences, (i) match with a partial sequence of miRNA precursors perfectly, and (ii) are high similarity (over 87% identity) to the whole precursors. Furthermore, it is suggested that protein-protein interaction (PPI), which is mediated by DDI can elucidate the molecular mechanism for cancer formation, The findings of novel miRNA, coding fusion gene and PPI, will certainly open a new direction in cancer biology.