Mudasir Rashid1,2, Sanket Girish Shah1,2, Abhiram Natu1,2, Tripti Verma1,2, Sukanya Rauniyar1,2, Poonam B Gera3, Sanjay Gupta4,5. 1. Epigenetics and Chromatin Biology Group, Gupta Lab, Cancer Research Institute, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India. 2. Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, MH, India. 3. Biorepository, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India. 4. Epigenetics and Chromatin Biology Group, Gupta Lab, Cancer Research Institute, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India. sgupta@actrec.gov.in. 5. Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, MH, India. sgupta@actrec.gov.in.
Abstract
BACKGROUND: Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers. METHODS AND RESULTS: The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes. CONCLUSION: RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research.
BACKGROUND: Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers. METHODS AND RESULTS: The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes. CONCLUSION: RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research.
Authors: Hongying Dai; Richard Charnigo; Carrie A Vyhlidal; Bridgette L Jones; Madhusudan Bhandary Journal: Stat Med Date: 2013-02-26 Impact factor: 2.373
Authors: Keertan Dheda; Jim F Huggett; Stephen A Bustin; Margaret A Johnson; Graham Rook; Alimuddin Zumla Journal: Biotechniques Date: 2004-07 Impact factor: 1.993