Bioinformatic Prediction of Signaling Pathways for Apurinic/Apyrimidinic Endodeoxyribonuclease 1 (APEX1) and Its Role in Cholangiocarcinoma Cells
Abstract
:1. Introduction
2. Results
2.1. Expression of APEX1 in Cell Lines
2.2. Silencing of APEX1 in CCA Cell Lines
2.3. Protein Expression Patterns of APEX1-Gene-Silenced and Scramble-Treated KKU-213A and KKU-100 Cell Lines
2.4. Prediction of APEX1-Related Signaling Pathway
2.5. Molecular Docking of APEX1 and Related Proteins
2.6. RNA Expression Levels of APEX1 and Related Protein Genes
2.7. Protein Expression Levels of APEX1 and Related Proteins in CCA Tissues
3. Discussion
4. Materials and Methods
4.1. Human Cell Lines
4.2. Western Blot Analysis
4.3. Transient Silencing of APEX1 Gene Using siRNA
4.4. Gel Formation and Tryptic Digestion
4.5. Liquid Chromatography-Tandem Mass Spectrometry (LC/MS-MS)
4.6. Protein Quantitation and Identification
4.7. Selection of Candidate Proteins Using Bioinformatics Tool
4.8. Prediction of APEX1 Signaling Pathway
4.9. Molecular Docking
4.10. Evaluation of RNA Expression Levels in Tissue
4.11. Protein Expression in Tissue and Survival Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Sample Availability
References
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Tummanatsakun, D.; Proungvitaya, T.; Roytrakul, S.; Proungvitaya, S. Bioinformatic Prediction of Signaling Pathways for Apurinic/Apyrimidinic Endodeoxyribonuclease 1 (APEX1) and Its Role in Cholangiocarcinoma Cells. Molecules 2021, 26, 2587. https://doi.org/10.3390/molecules26092587
Tummanatsakun D, Proungvitaya T, Roytrakul S, Proungvitaya S. Bioinformatic Prediction of Signaling Pathways for Apurinic/Apyrimidinic Endodeoxyribonuclease 1 (APEX1) and Its Role in Cholangiocarcinoma Cells. Molecules. 2021; 26(9):2587. https://doi.org/10.3390/molecules26092587
Chicago/Turabian StyleTummanatsakun, Doungdean, Tanakorn Proungvitaya, Sittiruk Roytrakul, and Siriporn Proungvitaya. 2021. "Bioinformatic Prediction of Signaling Pathways for Apurinic/Apyrimidinic Endodeoxyribonuclease 1 (APEX1) and Its Role in Cholangiocarcinoma Cells" Molecules 26, no. 9: 2587. https://doi.org/10.3390/molecules26092587