Shinsheng Yuan

Professional Activity

Mathematics National Taiwan University
1993 ~ 1997
The University of California, Los Angeles
1998 ~ 2003


University / Institute
Associate Research Fellow
Institute of Statistical Sciences
Academia Sinica
2014 ~ Present
Assistant Research Fellow
Institute of Statistical Sciences
Academia Sinica
2006 ~ 2014
Adjunct Assistant Professor
2006 ~ 2009
2006 ~ 2006
Post Graduate Researcher
2003 ~ 2005

Honors And Awards

Silver Medal
International Methematics Olympic (IMO)

Professional Activity

IT Director

July 2015 ~ present

Institute of Statistical Science, Academia Sinica

Colloquium Chair

July 2009 ~ Dec 2009

Institute of Statistical Science, Academia Sinica

Editorial Services

Reviewer : Bioinformatics, IEEE transaction in computational biology and bioinformatics, International Journal of Systems and Synthetic Biology
, BMC Genomics, Computational Statistics and Data Analysis, Plos One, International Journal of Molecular Sciences.

Research Area & Interests

  1. Next Generation Sequencing: Methods and Applications
  2. Bioinformatics
  3. Epidemiology


  1. Li, K.C., Yan, M., Yuan, S.S. (2002) A Simple Statistical Model for Depicting the CDC15- Synchronized Yeast Cell-Cycle Regulated Gene Expression Data. Statistica Sinica, 12, 141-158 (SCI)
  2. Li, K.C. and Yuan, S.S. (2004) A functional genomic study on NCI’s anticancer drug screen. The Pharmacogenomics Journal, 4(2), 127-135 (SCI)
  3. Li, K.C., Liu, C.T., Sun, W., Yuan, S.S., Yu, T.W., (2004) A system for enhancing genome- wide co-expression dynamics study. PNAS, 101, 15561-15566 (SCI)
  4. Yu, T.W., Sun, W., Yuan, S.S., Li, K.C., (2005) Study of coordinative gene expression at the biological process level. Bioinformatics, 21, 3651-3657. (SCI) (IF: 5.323; SCI ranking: 7/75, 15/159, 2/47)
  5. Yingying Huang, George C. Tseng, Shinsheng Yuan, Ljiljana Pasa-Tolic, Mary S. Lipton, Richard D. Smith, Vicki H. Wysocki, (2007) A Data-Mining Scheme for Identifying Peptide Structural Motifs Responsible for Different MS/MS Fragmentation Intensity Patterns. Journal of Proteome Research, Special issue on Statistical and Computational Proteomics. (SCI) (IF: 5.056; SCI ranking: 10/75)
  6. Yuan, SS and Li, KC (2007) Context-dependent Clustering for Dynamic Cellular State Modeling of Microarray Gene Expression. Bioinformatics, 23(22):3039–3047 (SCI) (IF: 5.323; SCI ranking: 7/75, 15/159, 2/47)
  7. Ker-Chau Li, Aarno Palotie, Shinsheng Yuan, Denis Bronnikov, Daniel Chen, Xuelian Wei, Oi-Wa Choi, Janna Saarela, Leena Peltonen, (2007) Finding disease candidate genes by liquid association. Genome Biology, 8(10):R205. (SCI) (IF: 10.288; SCI ranking: 4/159, 9/161)
  8. W. Sun, S. Yuan and K.C. Li (2008) Trait-trait dynamic interaction: 2D-trait eQTL mapping for genetic variation study. BMC Genomics, 9:242. (SCI) (IF: 4.397; SCI ranking: 21/259, 31/161)
  9. Wu, T., Sun, W., Yuan, S., Chen, C.H., Li, K.C. (2008) A Method for Analyzing Censored Survival Phenotype with Gene Expression Data. BMC Bioinformatics, 9:417. (SCI) (IF: 3.024; SCI ranking: 28/75, 46/159, 6/47)
  10. Liu, C.T., Yuan, S., Li, K.C. (2009) Patterns of co-expression for protein complexes by size in Saccharomyces. Nucleic Acids Research, 37(2): 526-532. (SCI) (IF: 8.278; SCI ranking: 27/290)
  11. Yi-Chiung Hsu, Shinsheng Yuan, Hsuan-Yu Chen, Sung-Liang Yu, Chia-Hsin Liu, Pin-Yen Hsu, Guani Wu, Gee-Chen Chang, Ker-Chau Li1, Pan-Chyr Yang. (2009) A Four-Gene Signature from NCI60 Cell Line for Survival Prediction in Non-Small-Cell Lung Cancer. Clinical Cancer Research, 15 (23): 7309-7315. (SCI) (IF: 7.837; SCI ranking: 12/196)
  12. Shang-Kai Tai, GuanI Wu, Shinsheng Yuan, and Ker-Chau Li. (2010) Genome-wide expression links the electron transfer pathway of Shewanella oneidensis to chemotaxis. BMC Genomics, 11:319 (SCI) (IF: 4.397; SCI ranking: 21/259, 31/161)
  13. Shinsheng Yuan, Sung-Liang Yu, Hsuan-Yu Chen, Yi-Chiung Hsu, Kang-Yi Su, Huei- Wen Chen, Chih-Yi Chen, Chong-Jen Yu, Jin-Yuan Shih, Yung-Chie Lee, Yih-Leong Chang, Chiou-Ling Cheng, Chung-Ping Hsu, Jiun-Yi Hsia, Chien–Yu Lin, Guani Wu, Chia-Hsin Liu, Chin-Di Wang, Kang-Chung Yang, Yi-Wei Chen, Yi-Ling Lai, Chu- Chun Hsu, Tai-Jing Lin, Tsung-Ying Yang, Kun-Cheieh Chen, Kuo-Hsuan Hsu, Jeremy J.W. Chen, Gee-Chen Chang, Ker-Chau Li and Pan-Chyr Yang. (2011) Clustered Genomic Alterations in Chromosome 7p Dictate Outcomes and Targeted Treatment Responses of Lung Adenocarcinoma with EGFR-activating Mutations. Journal of Clinical Oncology, 29(25):3435-42. (SCI) (IF: 18.038; SCI ranking: 5/196)
  14. Pei-Ing Hwang, Huan-Bin Wu, Chin-Di Wang, Bai-Ling Lin, Cheng-Tao Chen, Shinsheng Yuan, Guani Wu and Ker-Chau Li , 2011, Tissue-specific gene expression templates for accurate molecular characterization of the normal physiological states of multiple human tissues with implication in development and cancer studies. BMC GENOMICS, 12, 439. (SCI) (IF: 4.397; SCI ranking: 21/259, 31/161)
  15. ChiaHsin Liu, Ker-Chau Li, Shinsheng Yuan*, 2012, Human Protein-Protein Interaction Prediction by A Novel Sequence-Based Coevolution Method: Coevolutionary Divergence. Bioinformatics, doi: 10.1093/bioinformatics/bts620. Epub. (SCI) (IF: 5.323; SCI ranking: 7/75, 15/159, 2/47)
  16. Ting-Shuo Huang, Yu-Chiau Shyu, Huang-Yang Chen, Li-Mei Lin, Chia-Ying Lo, Shin-Sheng Yuan*, Pei-Jer Chen*, 2013, Effect of parenteral selenium supplementation in critically ill patients: A systematic review and meta-analysis. PLoS ONE, 8(1): e54431. doi:10.1371/journal.pone.0054431. (SCI) (IF: 3.730; SCI ranking: 7/56)
  17. Yi-Chiung Hsu, Hsuan-Yu Chen, Shinsheng Yuan, Sung-Liang Yu, Chia-Hung Lin, Guani Wu, Pan-Chyr Yang and Ker-Chau Li, 2013, Genome-wide analysis of three-way interplay between gene expression, cancer cell invasion and anti-cancer compound sensitivity. BMC Medicine, 11:106 doi:10.1186/1741-7015-11-106. (SCI) (IF: 6.679; SCI ranking: 7/151)
  18. Ting-Shuo Huang, Yu-Chiau Shyu, Shin-Sheng Yuan and Pei-Jer Chen, 2013, Selenium for Sepsis: What We Have Learned So Far? Critical Care Medicine, Accepted. (SCI) (IF: 6.124; SCI ranking: 2/27)
  19. Ping Wu, Shin-Sheng Yuan, Chao-Chi Ho, Wan-Yu, Hsieh, Qi-Sheng, Hong, Sung-Liang, Yu, Wei, Chen, Hsuan-Yu, Chen, Chin-Di, Wang, Ker-Chau, Li, Pan-Chyr, Yang, Huei-Wen Chen, 2013, Focal amplification of HOXD-harboring chromosome region is implicated in multiple-walled carbon nanotubes-induced carcinogenicity. Nano Letters, Epub ahead of print. (SCI) (IF: 13.025; SCI ranking: 8/152, 5/134, 8/239, 4/69, 5/127, 6/68)
  20. Chun-Chieh Chen, Hsuan-Yu Chen, Kang-Yi Su, Qi-Sheng Hong, Bo-Shiun Yan, Ching-Hsien Chen, Szu-Hua Pan, Yih-Leong Chang, Chia-Jen Wang, Pei-Fang Hung, Shinsheng Yuan, Gee-Chen Chang, Jeremy J. W. Chen, Pan-Chyr Yang, Ya-Chien Yang, and Sung-Liang Yu (2014) Shisa3 Is Associated with Prolonged Survival through Promoting β-Catenin Degradation in Lung Cancer. American Journal of Respiratory and Critical Care Medicine 2014 190:4, 433-444
  21. Hsuan-Yu Chen, Sung-Liang Yu, Bing-Ching Ho, Kang-Yi Su, Yi-Chiung Hsu, Chi-Sheng Chang, Yu-Cheng Li, Shi-Yi Yang, Pin-Yen Hsu, Hao Ho, Ya-Hsuan Chang, Chih-Yi Chen, Hwai-I Yang, Chung-Ping Hsu, Tsung-Ying Yang, Kun-Chieh Chen, Kuo-Hsuan Hsu, Jeng-Sen Tseng, Jiun-Yi Hsia, Cheng-Yen Chuang, Shinsheng Yuan, Mei-Hsuan Lee, Chia-Hsin Liu, Guan-I Wu, Chao A. Hsiung, Yuh-Min Chen, Chih-Liang Wang, Ming-Shyan Huang, Chong-Jen Yu, Kuan-Yu Chen, Ying-Huang Tsai, Wu-Chou Su, Huei-Wen Chen, Jeremy J.W. Chen, Chien-Jen Chen, Gee-Chen Chang, Pan-Chyr Yang, and Ker-Chau Li. (2015) R331W Missense Mutation of Oncogene YAP1 Is a Germline Risk Allele for Lung Adenocarcinoma With Medical Actionability. JCO Jul 10, 2015:2303-2310; published online on June 8, 2015.
  22. Ray-Bing Chen, Chi-Hsiang Chu, Shinsheng Yuan and Ying Nian Wu (2015). Bayesian Sparse Group Selection. Journal of Computational and Graphical Statistics, DOI:10.1080/10618600.2015.1041636
  23. Shyu YC, Yuan SS, Lee SY, Yang CJ, Yang KC, Lee TL, Wang LJ. (2015) Attention-deficit/hyperactivity disorder, methylphenidate use and the risk of developing schizophrenia spectrum disorders: A nationwide population-based study in Taiwan. Schizophr Res. 2015 Oct; 168(1-2):161-7. doi: 10.1016/j.schres.2015.08.033. Epub 2015 Sep 10.
  24. Lee MJ, Yang KC, Shyu YC, Yuan SS, Yang CJ, Lee SY, Lee TL, Wang LJ. (2016) Attention-deficit hyperactivity disorder, its treatment with medication and the probability of developing a depressive disorder: A nationwide population-based study in Taiwan. J Affect Disord. 2016 Jan 1; 189:110-7. doi: 10.1016/j.jad.2015.09.015. Epub 2015 Sep 28. Erratum in: J Affect Disord. 2016 Jan 15; 190:122.
  25. Wang LJ, Lee SY, Yuan SS, Yang CJ, Yang KC, Lee TL, Shyu YC. (2016) Impact of negative media publicity on attention-deficit/hyperactivity disorder medication in Taiwan. Pharmacoepidemiol Drug Saf. 2016 Jan; 25(1):45-53. doi: 10.1002/pds.3907. Epub 2015 Nov 9.
  26. Shyu YC, Lee SY, Yuan SS, Yang CJ, Yang KC, Lee TL, Wang LJ. (2016) Seasonal Patterns of Medications for Treating Attention-Deficit/Hyperactivity Disorder: Comparison of Methylphenidate and Atomoxetine. Clin Ther. 2016 Mar; 38(3):595-602. doi: 10.1016/j.clinthera.2016.01.015. Epub 2016 Feb 10.
  27. Liu CH, Ho BC, Chen CL, Chang YH, Hsu YC, Li YC, Yuan SS, Huang YH, Chang CS, Li KC, Chen HY. (2016) ePIANNO: ePIgenomics ANNOtation tool. PLoS One. 2016; 11(2):e0148321. doi: 10.1371/journal.pone.0148321.
  28. Wang LJ, Lee SY, Yuan SS, Yang KC, Yang CJ, Lee TL, Shyu YC. (2016) Risk of Mortality Among Patients Treated With Antipsychotic Medications: A Nationwide Population-Based Study in Taiwan. J Clin Psychopharmacol. 2016 Feb; 36(1):9-17. doi: 10.1097/JCP.0000000000000451.
  29. Wang LJ, Shyu YC, Yuan SS, Yang CJ, Yang KC, Lee TL, Lee SY. (2016) Attention-deficit hyperactivity disorder, its pharmacotherapy, and the risk of developing bipolar disorder: A nationwide population-based study in Taiwan. J Psychiatr Res. 2016 Jan; 72:6-14. doi: 10.1016/j.jpsychires.2015.10.014. Epub 2015 Oct 19.