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Journals / Türk Biyokimya Dergisi / 2019 / Cilt: 44 - Sayı: 1

Gene expression data analysis for characterizing shared and type specific mechanisms of HCC and B-CLL

[HCC ve B-CLL’in ortak ve tipe özgü mekanizmalarının karakterizasyonu için gen ifadesi analizleri]

Ceren SUCULARLI
Melda ARSLANTAş
Uğur TOPRAK
Pages
86–97
Publication Date
2022-11-05
DOI
—
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AI Summary & Key Takeaways

AI Insight
⚡ TL;DR(Too Long; Didn't Read)

Conclusion: These results contribute to cancer research that aim to find the conserved gene expression profiles in different cancer types and widen the knowledge of HCC and B-CLL specific mechanisms.

📌 3 Key Takeaways

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Objective & Hypothesis:Background: Comparing gene expression profiles using gene expression datasets of different types of tumors is frequently used to identify molecular mechanisms of cancer.
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Key Findings & Data:This study aimed to find shared and type specific gene expression profiles of hepatocellular carcinoma (HCC) and B-cell chronic lymphocytic leukemia (B-CLL).
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Conclusion & Impact:Conclusion: These results contribute to cancer research that aim to find the conserved gene expression profiles in different cancer types and widen the knowledge of HCC and B-CLL specific mechanisms.
🔬Design:Research Article
📍Scope:Comprehensive Sample
⚙️Variables:Domain Parameters

Abstract

Background: Comparing gene expression profiles using gene expression datasets of different types of tumors is frequently used to identify molecular mechanisms of cancer. This study aimed to find shared and type specific gene expression profiles of hepatocellular carcinoma (HCC) and B-cell chronic lymphocytic leukemia (B-CLL). Material and methods: Gene expression microarrays for HCC and B-CLL and RNA-sequencing expression data for liver HCC and lymphoid neoplasm diffuse large B-cell lymphoma (DLBC) were analyzed and differentially expressed probe sets or genes for each cancer type were detected. Probe sets and genes that were shared or specifically expressed in both cancer types were identified. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and Gene Ontology (GO) terms for Biological Process (BP) annotations were performed. Results: According to our analysis shared upregulated genes were mainly annotated in cell cycle processes. Some of the genes that changed only in HCC were annotated in cell cycle and metabolic processes, and some of the genes, altered only in B-CLL, were annotated in immune response and hemopoiesis. Conclusion: These results contribute to cancer research that aim to find the conserved gene expression profiles in different cancer types and widen the knowledge of HCC and B-CLL specific mechanisms.

Özet

Amaç: Farklı tümörlere ait gen ifadesi veri setlerini karşılaştırmak, kanserlerin moleküler mekanizmalarını açığa çıkarmak için kullanılmaktadır. Bu çalışma hepatosellüler karsinom (HCC) ve B-hücreli kronik lenfositik lösemi (B-CLL) arasında paylaşılan veya tipe özgü olan gen ifade profillerini bulmayı amaçlamaktadır. Gereç ve Yöntem: HCC ve B-CLL için gen ifade mikrodizileri ve karaciğer hepatosellüler karsinom ve diffüz büyük B hücreli lenfoma için RNA-seq ifade verileri analiz edilmiş ve iki kanser tipi için ifadesi farklı değişen prob setler ya da genler saptanmıştır. HCC ve B-CLL arasında ortak olan veya özgül olarak ifade olan prob setler ya da genler belirlenmiştir. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway ve Gen Ontolojisi (GO) Biyolojik Proses (BP) terimleri açıklamaları gerçekleştirilmiştir. Bulgular: Analizlerimize göre ifadesi artan genlerden ortak olanlar çoğunlukla hücre döngüsü süreçlerinde rol alıyor olarak saptanmıştır. İfadesi sadece HCC’de değişen genlerin bir kısmı hücre döngüsü ve metabolik süreçlerde ve ifadesi sadece B-CLL’de değişen genlerin bir kısmı immün cevap ve hemopoiez terimlerinde rol alıyor olarak bulunmuştur. Sonuç: Bu sonuçlar, farklı kanser tiplerine ait korunmuş gen ifade profillerini bulmayı amaçlayan kanser araştırmalarına katkı sağlayacak ve HCC ve B-CLL’ye özgü mekanizmalara ait bilgimizi genişletecektir.

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Cite This Article

SUCULARLI, C., ARSLANTAş, M., TOPRAK, U. (2022). Gene expression data analysis for characterizing shared and type specific mechanisms of HCC and B-CLL. Türk Biyokimya Dergisi, Cilt: 44 - Sayı: 1, 86–97. https://ajindex.com/articles/620892

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