Using universal human reference RNA in microarray gene expression studies

Abstract

TP53 is involved in the regulation of the cell cycle, response to DNA damage and induction of apoptosis. Mutations in this gene are thought to contribute to the development, progression or both of a variety of tumors, including human malignant glioma. Molecular analyses of primary malignant gliomas have demonstrated cellular heterogeneity in gene loss, rearrangement, amplification, transcription and translation. Furthermore, the rapid recurrence of this tumor demonstrates the presence of cells that are intrinsically resistant to therapy. Whether mutations in TP53 contribute to therapy resistance and tumor recurrence in malignant gliomas is not known. To determine if TP53 mutations are indicative of cells with a selective advantage that contributes to the survival and/or recurrence of glial tumors, we undertook a study to compare matched cells from primary and recurrent tumors from the same patients. We will present results from our analysis of TP53 mutations present in cells derived from both primary and recurrent glial tumors using polymerase chain reaction and sequence analysis to screen for mutations in exons 5-8 of TP53.

Assessing the Expression of Long INterspersed Elements (LINEs) via Long-Read Sequencing in Diverse Human Tissues and Cell Lines

“…The ONT sequenced datasets included the following cell lines: Universal Human Reference (UHR), HepG2, Human Embryonic Kidney 293T (HEK293T), HCT116, MCF7, A549, HeLa, and Acute Myeloid Leukemia (AML). The UHR dataset consisted of ten human cell lines derived from various human tissues, including liver, testis, mammary gland, cervix, brain, skin, liposarcoma, macrophage, T-lymphoblast, and B-lymphocyte (BioProject Accession Number: PRJNA639366) [35]. Datasets of five cell lines were obtained from the Singapore Nanopore Expression (SG-NEx) project [36] (accessed on 2 June 2023 at registry.opendata.aws/sg-nex-data): HepG2 cell line of human liver carcinoma, HEK293T cell line derived from human embryonic kidney cells that were transformed with adenovirus E1A and SV40 large T antigen [37], HCT116 cell line originated from human colorectal carcinoma, MCF7 breast cancer cell line from a patient tissue sample, and A549 lung cancer cell line from a patient tissue sample.…”