Vegetos
(An International Journal of Plant Research & Biotechnology)
Gene expression and survival analysis study of KIAA0101 gene revealed its prognostic and diagnostic importance in breast cancer
Research Articles | Published: 13 January, 2023
Online ISSN : 2229-4473.
Website:www.vegetosindia.org
Pub Email: contact@vegetosindia.org
First Page: 249
Last Page: 258
Views: 1393
Keywords:
Breast cancer, Microarray,
KIAA0101
, Welch t test, Survival analysis, Kaplan–Meier plot
Abstract
Breast cancer (BC) is the most frequent cancer affecting women worldwide. High-throughput genomic platforms and microarray-based gene expression profiling have emerged as one of the best strategies for understanding and interpreting BC at the genetic level. BRCA1/2 are the main target gene while several other genes also play crucial role in BC. In the present study, we evaluated the expression, diagnostic and survival/prognostic role of the KIAA0101 gene in BC. We applied the student t test (equal or unequal sample sizes, unequal variances/Welch’s t test) and the Kaplan–Meier estimator to validate dependability of the KIAA0101 (PCLAF, PCNA clamp associated factor) gene in BC. Microarray data (GSE10810) were retrieved from “Gene Expression Omnibus”, “National Center for Biotechnology Information (NCBI)”. KIAA0101 gene was one of the significantly expressed genes while comparing 31 breast tumor samples with 27 normal breast samples (control) at the threshold (fold change of ± 2 and p value < 0.001) using the Welch t test. The Kaplan–Meier Plotter tool was used to verify the overall survival and the relapse free survival of the KIAA0101 gene on bigger and 50 independent GEO datasets; 20 BC, 13 ovarian cancer, 11 lung cancer, and 6 gastric cancer cohorts. Hazard ratio and log rank p value of the KIAA0101 gene were determined under different restrictions of estrogen receptors, progesterone receptors and lymph node status (positive and negative). Finally, the wFisher, Lancaster, and weighted Z-method robust meta-analysis and statistical approaches were used to combine p-values for collective statistical significance of KIAA0101 gene. Score of log rank p value (< 0.05) indicated the therapeutic and prognostic importance of gene. Furthermore, to improve the precision of the analysis, qPCR was done to validate microarray expression result of KIAA0101 gene. In conclusion, KIAA0101 was one of the most over-expressed genes in BC which can be considered as a potential prognostic and diagnostic biomarker.
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Acknowledgements
Author Information
University Department of Statistics and Computer Applications, Tilka Manjhi Bhagalpur University, Bhagalpur, India
shahid273@gmail.com
University Department of Statistics and Computer Applications, Tilka Manjhi Bhagalpur University, Bhagalpur, India
ahmad_n@tmbuniv.ac.in
King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia
zmirza1@kau.edu.sa