Impact of deep sequencing on hepatocellular carcinoma utilizing high-throughput technology

• Published in: Network modeling and analysis in health informatics and bioinformatics (Wien) Vol. 9; no. 1; p. 35
• Main Authors: Hashem, Esraa M., Mabrouk, Mai S., Eldeib, Ayman M.
• Format: Journal Article
• Language: English
• Published: Vienna Springer Vienna 01.12.2020; Springer Nature B.V
• Subjects: Applications of Graph Theory and Complex Networks; Bioinformatics; Biology; Cancer; Cancer therapies; Cell survival; Chromosome aberrations; Chromosomes; Computational Biology/Bioinformatics; Computer Science; Copy number; Epigenetics; Genes; Genomes; Genomics; Health Informatics; Hepatitis C; Hepatocellular carcinoma; Liver; Liver cancer; Liver diseases; Medical prognosis; Medical research; Medical science; Metastases; Mortality; Next-generation sequencing; Nucleotide sequence; Original Article; Patients; Suppressors; Tumors; Hepatocellular carcinoma; Bioinformatics; Next-generation sequence; OncosSNP-SEQ technique
• ISSN: 2192-6662; 2192-6670
• DOI: 10.1007/s13721-020-00242-x

In the medical sciences, bioinformatics typically include compiling expression data for cells affected by various diseases, like cancer. Hepatocellular carcinoma (HCC) is a tumor of the liver, which is generally emerging in the setting of chronic liver diseases. Clinical behavior of hepatocellular carcinoma is difficult to estimate. Therefore, there is a critical demand to obtain new techniques that can assess the prognosis of hepatic cancer patients. Methods: this work produces a genomic study that spotlights on applying bioinformatics technologies to predict and deal with the molecular reasons for hepatocellular carcinoma by the examination whole-genome sequence of the chromosomal variations of the genomic copy number to grand correct diagnoses of this kind of disease. In this study, next-generation sequence (NGS) is utilized by applying OncoSNP-SEQ technique to a number of human chromosomes for analyzing hepatic cancer data that identify genome-wide mutations in copy number of the genomic information data. The outcomes referred to a certain number of chromosome aberrations detected with significant genes such as : SHC, TCP1, CCT3 , SHC1, EPHA5, UGT2B28, UBE1L2, and also strike ( CREB3L4, RAB1, MAGI2 ) genes which are discovered lately in 2013 , tumor suppressors SHC1 and CKS1B, LRP1B , as well as oncogene UBE1L2 , all of which may play a central role in cancer cell survival during the progress of metastases. Recently, the development of next-generation sequence empowers simultaneous assessment of copy number of hundred thousands of locales in a genome, more precise estimation of copy numbers, higher coverage, accurate confirmation of change points, and higher tendency to distinguish new alteration regions.