Chuanpeng Dong

Center for Computational Biology and Bioinformatics
Indiana University School of Medicine
410 W 10 ST, HITS STE5000, Indianapolis, IN 46202, USA
Email: cpdong AT iu.edu
 
 

I am a PhD candidate in Bioinformatics at Indiana University. I work for Dr. Yunlong Liu at the Center for Computational Biology and Bioinformatics of Indiana University School of Medicine(IUSM). Before that, I received BS degree from Jilin University, and MS degree from Fudan University.
I am seeking a postdoc opportunity from mid 2022.

Research

My research focuses on developing statistical and informatics methods for analyzing of multi-omics data. Projects include but not limited to

• Develop computational methods for alternative splicing induced neoantigens identification

• Investigate novel role of intron retention in neurondegeneration diseases

• Integrated multi-omics analysis for Alzheimer’s disease human and mouse model data

• Machine learning models for cancer cell lines recommendation using omics data

• Trancription and splicing regulation analysis, motif analysis

• Translational bioinformatics for cancer research

Publication

• Dong, C., Cesarano, A., Bombaci, G., Reiter, J. L., Yu, C. Y., Wang, Y., ... & Liu, Y. (2021). Intron retention-induced neoantigen load correlates with unfavorable prognosis in multiple myeloma. Oncogene, 1-9.

• Liu, J., Dong, C., Liu, Y., & Wu, H. (2021). CGPE: an integrated online server for C ancer G ene and P athway E xploration. Bioinformatics, 37(15), 2201-2202.

• Tsai, A. P., Lin, P. B. C., Dong, C., Moutinho, M., Casali, B. T., Liu, Y., ... & Nho, K. (2021). INPP5D expression is associated with risk for Alzheimer's disease and induced by plaque-associated microglia. Neurobiology of disease, 153, 105303.

• Liu, S., Sun, X., Li, K., Zha, R., Feng, Y., Sano, T., ... & Yokota, H. (2021). Generation of the tumor-suppressive secretome from tumor cells. Theranostics, 11(17), 8517.

• Johnson, T. S., Christina, Y. Y., Huang, Z., Xu, S., Wang, T., Dong, C., ... & Huang, K. (2021). Diagnostic Evidence GAuge of Single cells (DEGAS): A flexible deep-transfer learning framework for prioritizing cells in relation to disease. bioRxiv, 2020-06.

• Dong, C., Liu, J., Chen, S. X., Dong, T., Jiang, G., Wang, Y., ... & Liu, Y. (2020). Highly robust model of transcription regulator activity predicts breast cancer overall survival. BMC medical genomics, 13, 1-10.

• Liu, Y., Kim, H. G., Dong, E., Dong, C., Huang, M., Liu, Y., ... & Dong, X. C. (2019). Sesn3 deficiency promotes carcinogen-induced hepatocellular carcinoma via regulation of the hedgehog pathway. Biochimica et Biophysica Acta (BBA)-Molecular Basis of Disease, 1865(10), 2685-2693.

• Huang, M., Kim, H. G., Zhong, X., Dong, C., Zhang, B., Fang, Z., ... & Zhang, C. (2019). Sestrin 3 Protects Against Diet‐Induced Nonalcoholic Steatohepatitis in Mice Through Suppression of Transforming Growth Factor β Signal Transduction. Hepatology.

• Zheng, S., Luo, X., Dong, C., Zheng, D., Xie, J., Zhuge, L., ... & Chen, H. (2018). A B7‐CD28 family based signature demonstrates significantly different prognoses and tumor immune landscapes in lung adenocarcinoma. International journal of cancer, 143(10), 2592-2601.

• Liu, G., Dong, C., Wang, X., Hou, G., Zheng, Y., Xu, H., ... & Liu, L. (2017). Regulatory activity based risk model identifies survival of stage II and III colorectal carcinoma. Oncotarget, 8(58), 98360.

• Liu, G., Zhan, X., Dong, C., & Liu, L. (2017). Genomics alterations of metastatic and primary tissues across 15 cancer types. Scientific reports, 7(1), 1-9.

• Zheng, S., Zheng, D., Dong, C., Jiang, J., Xie, J., Sun, Y., & Chen, H. (2017). Development of a novel prognostic signature of long non-coding RNAs in lung adenocarcinoma. Journal of cancer research and clinical oncology, 143(9), 1649-1657.

• Hou, G., Dong, C., Dong, Z., Liu, G., Xu, H., Chen, L., ... & Zhou, W. (2017). Upregulate KIF4A enhances proliferation, invasion of hepatocellular carcinoma and indicates poor prognosis across human cancer types. Scientific reports, 7(1), 4148.

• Liu, Gang, Chuanpeng Dong, and Lei Liu. "Integrated multiple “-omics” data reveal subtypes of hepatocellular carcinoma." PloS one 11.11 (2016).

• Ma, B., Liao, T., Wen, D., Dong, C., Zhou, L., Yang, S., ... & Ji, Q. (2016). Long intergenic non-coding RNA 271 is predictive of a poorer prognosis of papillary thyroid cancer. Scientific reports, 6(1), 1-13.

My google scholar: https://scholar.google.com/citations?user=j89QLMoAAAAJ&hl=en

Chuanpeng Dong © 2022  |  IU  School of Medicine