Determination of Genetic Alteration in Pancreatic Ductal Adenocarcinoma Tissues by Analysis of Gene Expression Data

Abstract

Objective: It is very important to determine the molecular infrastructure of pancreatic ductal adenocarcinoma, which has a very high mortality rate, limited treatment options, and does not have an option for targeted therapy, and to understand the disease by clinicians. Therefore, in this study, the gene expression dataset was used to determine the differences in transcriptome levels between tissues with pancreatic ductal adenocarcinoma and normal tissues. Methods: In the current study, gene expression data set obtained from 10 pancreatic ductal adenocarcinoma tissues and 5 normal tissues were used. The limma package available in the R programming language was used to identify transcripts with differential expression in pancreatic ductal adenocarcinoma compared to normal tissues. The log2FC and adj-p values were used to identify genes that showed differential (up or down) regulation. Results: According to the results of gene expression analysis, 7098 transcripts showed different regulation in pancreatic ductal adenocarcinoma tissue compared to normal tissue. With the UMAP graph, normal and pancreatic ductal adenocarcinoma tissues are distributed differently from each other, indicating that there is a difference in transcript between these two tissues. Conclusion: As a result of the gene expression analysis performed in the study, transcripts differing between pancreatic ductal adenocarcinoma tissues and normal tissues were found. With the help of studies with these transcripts, targeted treatment strategies can be developed for the treatment of the disease, and the status of this disease, which has a very high mortality rate, can be changed.

Keywords

• : pancreatic ductal adenocarcinoma
• gene expression
• differential expression

Pankreatik Duktal Adenokarsinom Dokularında Genetik Değişikliklerin Gen Ekspresyon Verileri Analizi ile Belirlenmesi

Abstract

Amaç: Ölüm oranı çok yüksek, tedavi seçenekleri kısıtlı ve hedefe yönelik tedavi seçeneği bulunmayan pankreatik duktal adenokarsinomun moleküler altyapısının belirlenmesi ve hastalığın klinisyenler tarafından anlaşılması oldukça önemlidir. Bu nedenle, bu çalışmada, pankreatik duktal adenokarsinomlu dokular ile normal dokular arasındaki transkriptom seviyelerindeki farklılıkları belirlemek için gen ekspresyon veri seti kullanılmıştır. Metod: Bu çalışmada, 10 pankreatik duktal adenokarsinom dokusu ve 5 normal dokudan elde edilen gen ekspresyon veri seti kullanılmıştır. R programlama dilinde bulunan limma paketi, normal dokulara kıyasla pankreatik duktal adenokarsinomda diferansiyel ekspresyona sahip transkriptleri tanımlamak için kullanılmıştır. Log2FC ve adj-p değerleri, diferansiyel (yukarı veya aşağı) düzenleme gösteren genleri tanımlamak için kullanılmıştır. Bulgular: Gen ekspresyon analizi sonuçlarına göre, 7098 transkript pankreatik duktal adenokarsinom dokusunda normal dokuya kıyasla farklı düzenleme göstermiştir. UMAP grafiği ile normal ve pankreatik duktal adenokarsinom dokularının birbirinden farklı dağılım göstermesi, bu iki doku arasında transkript farklılığı olduğunu göstermektedir. Sonuç: Çalışmada yapılan gen ekspresyon analizi sonucunda pankreatik duktal adenokarsinom dokuları ile normal dokular arasında farklılık gösteren transkriptler bulunmuştur. Bu transkriptler ile yapılacak çalışmalar sayesinde hastalığın tedavisi için hedefe yönelik tedavi stratejileri geliştirilebilir ve ölüm oranı çok yüksek olan bu hastalığın durumu değiştirilebilir.

Keywords

• Pankreatik duktal adenokarsinom
• gen ekspresyonu
• diferansiyel ekspresyon

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