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Meta-analysis of whole-genome gene expression datasets assessing the effects of IDH1 and IDH2 mutations in isogenic disease models.
Schulten, Hans-Juergen; Al-Adwani, Fatima; Saddeq, Haneen A Bin; Alkhatabi, Heba; Alganmi, Nofe; Karim, Sajjad; Hussein, Deema; Al-Ghamdi, Khalid B; Jamal, Awatif; Al-Maghrabi, Jaudah; Al-Qahtani, Mohammed H.
Affiliation
  • Schulten HJ; Center of Excellence in Genomic Medicine Research, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, P.O. Box 80216, Jeddah, 21589, Saudi Arabia. hschult2@msn.com.
  • Al-Adwani F; Center of Excellence in Genomic Medicine Research, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, P.O. Box 80216, Jeddah, 21589, Saudi Arabia.
  • Saddeq HAB; Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, Jeddah, Saudi Arabia.
  • Alkhatabi H; Center of Excellence in Genomic Medicine Research, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, P.O. Box 80216, Jeddah, 21589, Saudi Arabia.
  • Alganmi N; Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, Jeddah, Saudi Arabia.
  • Karim S; Center of Excellence in Genomic Medicine Research, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, P.O. Box 80216, Jeddah, 21589, Saudi Arabia.
  • Hussein D; Department of Computer Science, King Abdulaziz University, Jeddah, Saudi Arabia.
  • Al-Ghamdi KB; Center of Excellence in Genomic Medicine Research, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, P.O. Box 80216, Jeddah, 21589, Saudi Arabia.
  • Jamal A; King Fahad Medical Research Center, Department of Medical Laboratory Technology, Faculty of Applied Medical Science, King Abdulaziz University, Jeddah, Saudi Arabia.
  • Al-Maghrabi J; Department of Otolaryngology, Head and Neck Surgery, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia.
  • Al-Qahtani MH; Department of Pathology, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia.
Sci Rep ; 12(1): 57, 2022 01 07.
Article in En | MEDLINE | ID: mdl-34997121
Mutations in isocitrate dehydrogenase 1 (IDH1) and IDH2 are oncogenic drivers to a variable extent in several tumors, including gliomas, acute myeloid leukemia (AML), cholangiocarcinoma, melanoma, and thyroid carcinoma. The pathobiological effects of these mutations vary considerably, impeding the identification of common expression profiles. We performed an expression meta-analysis between IDH-mutant (IDHmut) and IDH-wild-type (IDHwt) conditions in six human and mouse isogenic disease models. The datasets included colon cancer cells, glioma cells, heart tissue, hepatoblasts, and neural stem cells. Among differentially expressed genes (DEGs), serine protease 23 (PRSS23) was upregulated in four datasets, i.e., in human colon carcinoma cells, mouse heart tissue, mouse neural stem cells, and human glioma cells. Carbonic anhydrase 2 (CA2) and prolyl 3-hydroxylase 2 (P3H2) were upregulated in three datasets, and SOX2 overlapping transcript (SOX2-OT) was downregulated in three datasets. The most significantly overrepresented protein class was termed intercellular signal molecules. An additional DEG set contained genes that were both up- and downregulated in different datasets and included oxidases and extracellular matrix structural proteins as the most significantly overrepresented protein classes. In conclusion, this meta-analysis provides a comprehensive overview of the expression effects of IDH mutations shared between different isogenic disease models. The generated dataset includes biomarkers, e.g., PRSS23 that may gain relevance for further research or clinical applications in IDHmut tumors.
Subject(s)

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Isocitrate Dehydrogenase Type of study: Prognostic_studies / Systematic_reviews Limits: Animals / Humans Language: En Journal: Sci Rep Year: 2022 Document type: Article Affiliation country: Country of publication:

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Isocitrate Dehydrogenase Type of study: Prognostic_studies / Systematic_reviews Limits: Animals / Humans Language: En Journal: Sci Rep Year: 2022 Document type: Article Affiliation country: Country of publication: