Alhudaj: CpG islands Detection Tool in Mammalian Genome Using C++
Year: 2021
Type: article
Abstract: One of the unique combinations in the mammalian genome, that revolutionized concepts in the fields of genetics and molecular pathology is what is termed the CpG islands. However, the accurate and rapid determination of CpG islands for DNA sequences remains experimentally and computationally challenging. The main goal for this project to design an offline, cross-platform CpG islands detection tool. The Algorithm implemented for this study was the traditional sliding window algorithm by using the C++ programming language. Three datasets were used for evaluating the performance of the application. The ANK1 gene, SPTB gene, and RET gene sequence files were obtained from NCBI. In this study, the highest CGIs were reported in ANK1 (ankyrin 1) Gene which scored 13 successive islands whereas the lowest score was reported in RET (ret proto-oncogene) Gene which shows only 6 islands. Generally, the program fulfills the boundaries limits as expected. We strongly recommend for further work, the implementation of other algorithms in addition to the sliding window algorithm such as Hidden Markov Model (HMM).
Institutions: Sabratha University, Aljafara University, Al Zawiya University
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W3213237296