<b><font size=+3>Wei-Chen Chen</font></b><br> <b>E-mail</b>: wccsnow at gmail dot com<br> <b>Websites</b>: <a href="https://scholar.google.com/citations?user=vQRTsmUAAAAJ&hl=en&oi=ao" target="_blank">Google Scholar</a>, <a href="https://www.linkedin.com/in/wei-chen-chen-512b6349" target="_blank">LinkedIn</a>, and <a href="https://github.com/snoweye/" target="_blank">GitHub</a>. <br> <b>Download</b>: <a href="./file/CV_web_Wei-Chen_Chen.pdf">CV (pdf)</a> --- ### EXPERIENCE - Food and Drug Administration, USA. * 08/2016--present, Mathematical Statistician, Center for Devices and Radiological Health. * 08/2014--08/2016, ORISE Fellow, Center for Biologics Evaluation and Research. - Department of Ecology and Evolutionary Biology, University of Tennessee-Knoxville, USA. * 09/2013--07/2014, Postdoctoral Associate. - Computer Science and Mathematics Division, Oak Ridge National Laboratory, USA. * 08/2011--08/2013, Postdoctoral Research Associate. - Division of Biostatistics and Bioinformatics, National Health Research Institutes, Taiwan. * 01/2001--08/2005, Research Assistant. --- ### EDUCATION - 08/2005--07/2011, Ph.D., Statistics, Iowa State University, USA. - 09/1998--06/2000, M.S., Statistics, National Central University, Taiwan. - 09/1994--06/1998, B.S., Mathematics, National Central University, Taiwan. --- ### COMPUTER SKILLS - **Statistical Software**: R, JAGS, WinBUGS. - **Programming Languages**: C, Fortran, Perl. - **Web Development Tools**: PHP, Html, CGI. - **Database**: MySQL. - **Operating Systems**: Linux/Unix, Solaris, MS-Windows. - **Parallel Computing Libraries**: OpenMPI, MPICH, MS-MPI. - **Network Related**: Apache, SSL, Samba, NFS, NIS, SSH, ZeroMQ. - **Others**: TeX/LaTeX, Shell Script, vi, Word, Excel, PowerPoint. --- ### PUBLICATIONS #### *Software Released on [CRAN](http://cran.r-project.org)* - 11 [pbdR](http://r-pbd.org/) Packages: **pbdRPC**, **remoter**, **pbdZMQ**, **pbdPROF** (<span style="color:darkred">GSoC sponsored (2013, 2014)</span>), **pbdDEMO**, **pbdNCDF4**, **pbdDMAT**, **pbdBASE**, **pbdSLAP**, **pbdMPI**, and **pmclust**. - 6 [R](http://r-project.org/) Packages: **getPass**, **cubfits**, **QZ**, **EMCluster**, **phyclust**, and **MixSim**. #### *Refereed Papers* <ol id="custom" style="counter-reset: item 14"> <li id="ref"> Schmidt, D., **Chen, W.-C.**, Matheson, M., and Ostrouchov, G., "Programming with BIG Data in R: Scaling Analytics from One to Thousands of Nodes," *Big Data Research*, (accepted). </li> <li id="ref"> Li, J.X., **Chen, W.-C.** and Scott, J.A. (2016), "Addressing Prior-data Conflict with Empirical Meta-Analytic-Predictive Priors in Clinical Studies with Historical Information," *Journal of Biopharmaceutical Statistics*, **16**(6), 1056--1066. </li> <li id="ref"> Schmidt, D., **Chen, W.-C.**, and Ostrouchov, G. (2016), "Introducing a New Client/Server Framework for Big Data Analytics with the R Language," *Proceedings of the XSEDE16 Conference on Diversity, Big Data, and Science at Scale*, 38:1-38:9. </li> <li id="ref"> Gilchrist, M.A., **Chen, W.-C.**, Shah, P., Landerer, C.L., and Zaretzki, R. (2015), "Estimating Gene Expression and Codon-Specific Translational Efficiencies, Mutation Biases, and Selection Coefficients from Genomic Data Alone," *Genome Biology and Evolution*, **7**(6), 1559--1579. </li> <li id="ref"> **Chen, W.-C.**, Ostrouchov, G., Pugmire, D., Prabhat, and Wehner, M. (2013), "A Parallel EM Algorithm for Model-Based Clustering Applied to the Exploration of Large Spatio-Temporal Data," *Technometrics*, **55**(4), 513--523. </li> <li id="ref"> Melnykov, V., **Chen, W.-C.**, and Maitra, R. (2012), "MixSim: An R Package for Simulating Data to Study Performance of Finite Mixture Modeling and Clustering Algorithms," *Journal of Statistical Software*, **51**(12), 1--25. </li> <li id="ref"> Schmidt, D., Ostrouchov, G., **Chen, W.-C.**, and Patel, P. (2012), "Tight Coupling of R and Distributed Linear Algebra for High-Level Programming with Big Data," *High Performance Computing, Networking, Storage and Analysis (SCC), 2012 SC Companion:*, 811-815. </li> <li id="ref"> **Chen, W.-C.** and Maitra, R. (2011), "Model-Based Clustering of Regression Time Series Data via APECM -- An AECM Algorithm Sung to an Even Faster Beat," *Statistical Analysis and Data Mining*, **4**(6), 567--578. (<span style="color:darkred">Student Paper Competition Winner</span>). </li> <li id="ref"> Carpenter, S., **Chen, W.-C.**, and Dorman, K.S. (2011), "Rev Variation during Persistent Lentivirus Infection," *Viruses*, **3**, 1--12. </li> <li id="ref"> **Chen, W.-C.** and Maiti, T. (2007), "Analysis of cDNA Microarray Experiment with External Controls: A Mixed Model Approach," *Calcutta Statistical Association Bulletin*, **59**, 117--135 (by invitation). </li> <li id="ref"> Wen, C.-C., Wu, Y.-J., Huang, Y.-H., **Chen, W.-C.**, Liu, S.-C., Jiang, S.-S., Juang, J.-L., Lin, C.-Y., Fang, W.-T., Hsiung, C.A., and Chang, I.-S. (2006), "A Bayes Regression Approach to Array-CGH Data," *Statistical Applications in Genetics and Molecular Biology*, **5**(1), Article 3. </li> <li id="ref"> Fan, T.-H. and **Chen, W.-C.** (2005), "A Bayesian Change Points Analysis of the Seismic Activity in Northeastern Taiwan," *Journal of Statistical Computation and Simulation*, **75**(11), 857--868. </li> <li id="ref"> Juang, J.-L., Chen, T.-C., Jiang, S.-S., Hsiung, C.A., **Chen, W.-C.**, Chen, G.-W., Lin, S.-M., Lin, J.-H., Chiu, S.-C., and Lai, Y.-K. (2004), "Coupling Multiplex RT-PCR to a Gene Chip Assay for Sensitive and Semiquantitative Detection of Severe Acute Respiratory Syndrome-Coronavirus," *Laboratory Investigation*, **84**(9), 1085--1091. </li> </ol> #### *Conference Presentations* <ol id="custom" style="counter-reset: item 8"> <li id="ref"> **Chen, W.-C.** and Lu, N. (2017), "A Bayesian Approach Developed for Single Arm Studies using Performance Goals with Subgroups," Section on Medical Devices and Diagnostics, JSM2017, Baltimore, MD, USA. </li> <li id="ref"> **Chen, W.-C.**, Schmidt, D., and Ostrouchov, G. (2016), "Interactive Terabytes with pbdR," UseR! 2016, Stanford, CA, USA. <a href="https://github.com/snoweye/user2016.demo" target="_blank"><span class="badge" style="background-color:#333399;color:white">Demo</span></a> </li> <li id="ref"> **Chen, W.-C.**, Ostrouchov, G., Pugmire, D., Prabhat, and Wehner, M. (2012), "Model-Based Clustering Analysis of Large Climate Simulation Datasets," Section on Statistical Computing, JSM2012, San Diego, CA, USA. </li> <li id="ref"> **Chen, W.-C.** and Maitra, R. (2011), "A New AECM Algorithm Tuned to A Faster Beat for Model-Based Clustering of Regression Time Series Data," Section on Statistical Learning and Data Mining, JSM2011, Miami, FL, USA. (<span style="color:darkred">Student Paper Competition Winner</span>). </li> <li id="ref"> **Chen, W.-C.**, Dorman, K.S., Lunney, J.K., and Rowland, R.R.R. (2011), "Model-Based Functional Clustering for Porcine Reproductive and Respiratory Syndrome Virus Data," SCVMMI, Clarke University, Dubuque, IA, USA. </li> <li id="ref"> Melnykov, V., **Chen, W.-C.**, and Maitra, R. (2010), "Model-Based Semisupervised Clustering," Biometrics Section, JSM2010, Vancouver, BC, Canada. </li> <li id="ref"> **Chen, W.-C.** and Dorman, K.S. (2009), "Twisted Sisters: Disentangling Selection in Overlapping Reading Frames," Section on Statistical Computing, JSM2009, Washington, DC, USA. (<span style="color:darkred">Student Paper Competition Winner</span>). </li> </ol> #### *Posters* <ol id="custom" style="counter-reset: item 9"> <li id="ref"> **Chen, W.-C.**, Li, J., and Scott, J. (2016), "Subgroup Analyses for Count Data using Bayesian Empirical Meta-Analytical Predictive Priors," 2016 ASA Biopharmaceutical Section Regulatory-Industry Statistics Workshop, Washington D.C., USA. </li> <li id="ref"> **Chen, W.-C.**, Li, J., and Scott, J. (2016), "Subgroup Analyses for Count Data using Bayesian Empirical Meta-Analytical Predictive Priors," Biopharmaceutical Section, JSM2016, Chicago, IL, USA. </li> <li id="ref"> **Chen, W.-C.** and Maitra, R. (2016), "A Novel Model-based Segmentation Approach for Improved Activation Detection in fMRI Studies," ISMRM 24th Annual Meeting, Singapore. </li> <li id="ref"> **Chen, W.-C.**, Li, J., Scott, J., and Mintz, P. (2015), "Bayesian-Commensurate Approach for Safety Assessment in Clinical Studies with Count Outcomes," Biopharmaceutical Section, JSM2015, Seattle, WA, USA. </li> <li id="ref"> **Chen, W.-C.**, Zaretzki, R., and Gilchrist, M. (2014), "cubfits: an R package for codon usage bias fits," Society for Molecular Biology and Evolution, SMBE2014, San Juan, Puerto Rico. </li> <li id="ref"> **Chen, W.-C.**, Ostrouchov, G., Pugmire, D., Prabhat, and Wehner, M. (2012), "Applying model-based clustering for analysis of Community Atmospheric Model output," Conference on Data Analysis (CoDA), Statistical Sciences Group, Los Alamos National Laboratory, Santa Fe, NM, USA. </li> <li id="ref"> Dorman, K.S. and **Chen, W.-C.** (2008), "Overlapping Codon Model for Detecting Selection Effects in Overlapping Reading Frames," Fall Conference on Statistics in Biology 2008, Iowa State University, Ames, Iowa, USA. </li> <li id="ref"> **Chen, W.-C.**, Lin, C.-Y., Huang, Y.-S., Chang, I.-S., and, Hsiung, C.A. (2004), "Microarray On Line Analysis System (MOLAS): A web platform for array data management and analysis," Intelligent Systems for Molecular Biology, ISMB2004, Glasgow, Scotland, UK. </li> </ol> --- ### TEACHING &amp; MENTORING EXPERIENCE #### *Short Course and Tutorial* <ol id="custom" style="counter-reset: item 3"> <li id="rev"> **Chen, W.-C.** and Ostrouchov, G. (2017), "Essentials of High Performance and Parallel Statistical Computing with R," Continuing Education Course, JSM2017, Baltimore, MD, USA. </li> <li id="rev"> **Chen, W.-C.**, Zaretzki, R., and Gilchrist, M. (2014), "Fitting Complex Mixed Models using HPC," in NIMBioS Tutorial (Computing in the Cloud: What Every Computational Life Scientist Should Know), University of Tennessee, Knoxville, TN, USA. <a href="https://snoweye.github.io/pbdr/tutorial3.html" target="_blank"><span class="badge" style="background-color:#333399;color:white">Material</span></a> </li> </ol> #### *Mentorship and Student Supervision* <ol id="custom" style="counter-reset: item 9"> <li id="rev"> Chunxiao Wang, Stat PhD, Oregon State University. 2017 Summer at FDA/CDRH/OSB/DBS. </li> <li id="rev"> Baosheng He, Industrial Engineering PhD, University of Iowa. 2016 Summer at ORNL/JICS. </li> <li id="rev"> Yuping Lu, EE&amp;CS PhD, University of Tennessee, Knoxville. 2016 Summer at ORNL. </li> <li id="rev"> Christian Heckendorf, CS MS, Boston University. 2014 Summer at Google Summer of Code. </li> <li id="rev"> Gaurav Sehrawat, BS, Jaypee Institute of Information Technology, India. 2013 Summer at Google Summer of Code. </li> <li id="rev"> Cristian Capdevila, CS BS, University of Tennessee, Knoxville. 2012 Summer at ORNL. </li> <li id="rev"> John Aidoo, Applied Stat MS, Wright State University. 2010 Summer at Iowa State University. </li> <li id="rev"> Benjamin Deonovic, BCB&amp;Math BS, Iowa State University. 2010 Summer at Iowa State University. </li> </ol> --- ### PROFESSIONAL SERVICES #### *Journal Manuscript Reviews* - *Pharmaceutical Statistics* (2017, 2016 (&times;2), 2015). - *Methods in Ecology and Evolution* (2015 (&times;2), 2011). - *Statistics in Biopharmaceutical Research* (2015). - *Journal of Statistical Software* (2015, 2012). - *Technometrics* (2013). #### *Conference Manuscript and Poster Reviews* - *Biopharmaceutical Section Joint Statistical Meeting Poster Competition* (2016 (&times;2), 2015 (&times;4)). - *IEEE International Conference on Networking, Architecture, and Storage* (2012). #### *Conference Organizing Activity* - Session Chair: "Clustering Methods for Big Data Problems," Section on Statistical Learning and Data Science, JSM2017, Baltimore, MD, USA. - Session Organizer: "Personalized Medicine: How Bayesian Subgroup Analysis Plays Its Role," 2016 ASA Biopharmaceutical Section Regulatory-Industry Statistics Workshop, Washington D.C., USA. - Session Chair: "Dimension Reduction and Semiparametric Modeling," IMS, JSM2011, Miami Beach, FL, USA. --- ### HONORS &amp; AWARDS <ol id="custom" style="counter-reset: item 6"> <li id="rev"> 2016 Significant Event Award (SEA) at the Oak Ridge National Laboratory for "Harnessing HPC Capability at OLCF with the R Language for Deep Data Science" on HPCwire. <a href="https://www.hpcwire.com/2016/07/06/olcf-researchers-scale-r-tackle-big-science-data-sets/" target="_blank"><span class="badge" style="background-color:#333399;color:white">Public Media</span></a> </li> <li id="rev"> 2011 Vince Sposito Award for Excellence in Statistical Computing, Department of Statistics, Iowa State University. </li> <li id="rev"> 2011 ASA Statistical Learning and Data Mining Student Paper Competition Award. </li> <li id="rev"> 2010 Preparing Future Faculty, Iowa State University. </li> <li id="rev"> 2009 ASA Statistical Computing/Statistical Graphics Student Paper Competition Award. </li> </ol> --- <b><font color="#333399" size=-1> Maintained: Wei-Chen Chen <br> E-Mail: wccsnow at gmail dot com <br> Last Updated: March 30, 2017 <br> Created: July 25, 2016 <br> </font></b>