Genes Involved in the Seminoma Testicular Cancer: A Bioinformatic Study

  • Jorge Antonio Párraga-Álava Departamento de Ingeniería Informática. Universidad de Santiago de Chile

Resumen

Abstract: This study aims to identify genes differentially expressed between: (1) normal tissue samples and tissue samples with testicular cancer, and (2) progress stages of testicular seminoma (cancer). In this context, data for the experiments were obtained from the Repository of the National Center for Biotechnology Information (NCBI). On them a cleaning process and pre-processing was performed through the elimination of null or missing values, then, and in order to perform dimensionality reduction of data on them, statistical test t-student was applied to establish genes with capacity to discriminate between the different conditions. Next, Significance Analysis of Microarrays (SAM) was carried out to identify genes that were differentially expressed. Thereby a set of 40 differentially expressed genes in normal samples and cancer samples; and 11 genes in the case of the stages of the disease were identified, all of them were subjected to a functional biological analysis. Finally, it was evidenced that genes HSPA2, SPINK2 and POU5F1P3 were coincident with previous studies in terms of being labeled as genes responsible for seminoma testicular cancer.

 

Resumen: Este estudio tuvo como objetivo identificar genes diferencialmente expresados entre: (1) muestras de tejido normal y muestras de tejido con cáncer testicular, y (2) etapas de progresión del seminoma testicular (cáncer). En este contexto, los datos para realizar los experimentos fueron obtenidos del Repositorio del Centro Nacional de Información Biotecnológica (NCBI). Sobre ellos se realizó un proceso de limpieza y el pre-procesamiento a través de la eliminación de los valores nulos o datos faltantes, luego, y con el objetivo de realizar reducción de dimensionalidad de los datos, se aplicó el test estadístico t-student para establecer genes con capacidad discriminatoria entre las distintas condiciones. Enseguida, se aplicó el Análisis de Significancia de Microarreglos (SAM) para identificar los genes que estaban expresados diferencialmente. Con ello se identificó un conjunto de 40 genes diferencialmente expresados en muestras normales y muestras con cáncer; y 11 genes en el caso de las etapas de dicha enfermedad, todos ellos fueron sometidos a un análisis biológico funcional. Por último, se evidenció que los genes HSPA2, SPINK2 y POU5F1P3 coinciden con estudios previos en cuanto a ser catalogados como genes responsables del cáncer testicular tipo seminoma.


 



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Biografía del autor/a

Jorge Antonio Párraga-Álava, Departamento de Ingeniería Informática. Universidad de Santiago de Chile

Jorge Párraga-Álava was born in Calceta, Ecuador, on May 28, 1987. He received the Master degree in systems management from the Army Polytechnic School, Quito, Ecuador in 2013. Currently, he is working toward the Ph. D. degree in engineering sciences with a major in informatics at University of Santiago, Chile. His current research interests include multi objective clustering techniques and its application to gene expression data.

Citas

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Publicado
2016-09-30
Cómo citar
Párraga-Álava, J. A. (2016). Genes Involved in the Seminoma Testicular Cancer: A Bioinformatic Study. Revista Politécnica, 38(1), 1. Recuperado a partir de https://revistapolitecnica.epn.edu.ec/ojs2/index.php/revista_politecnica2/article/view/449