HangYing Dong 8851 N Oracle Rd. Apt. 135 Tucson, AZ 85737 (520) 877-1071 (Home) (520) 544-5892 (Work) (650) 814-0631 (Mobile) hangyingd@yahoo.com http://www.cs.wisc.edu/~hangying/hangying.html Visa Status: Permanent Resident SUMMARY OF QUALIFICATIONS: - Solid background in both biology and computer sciences. Extensive research experience in scientific research and software development. - Good understanding of drug discovery process. Very familiar with oracle databases and many novel bio/cheminformatics tools. - Good interpersonal and communication skills. Ability to work with a diverse group of customers in a cross-functional team environment. - Highly motivated, resourceful, and strong problem solving capability. WORKING EXPERIENCE AND PROFESSIONAL ACTIVITIES December 2002 - Present Informatics/IS Application Specialist, Aventis Pharmaceuticals, Tucson, AZ - ActivityBase administrator, responsible for protocols/templates design and implementation for lead discovery data management in both HTS and LTS databases. - Close collaboration with chemists and lead discovery biologists to identify key requirements for automated data capture, quality control, result analysis and sharing data globally across projects. - Daily problem solving, user training and documentations. August 2000 - August 2002 Informatics Research Scientist, Computational Drug Discovery Exelixis, Inc. South San Francisco, CA - Large cheminformatics database (IDBS ActivityBase) administrator, responsible for database setup, maintenance, trouble-shooting and customization. - Assay protocol design and implementation for efficient scientific data management, including automatic data import into the database, quality control, appropriate data analysis and result interpretation. Designed UHTS, HTS and other standard protocols for High Throughput Screening, Dose-response IC50/EC50 measurements with curve fitting, In vitro ADMET, In vivo PK/ADME and Efficacy assays. - Close collaboration with chemists and new leads biologists for software customization and new tool development by adding Excel Macros and the other web based applications. - Structure-Activity report generation, data mining and visualization using SARgen, Spotfire and other in-house software applications. - Web based application development for data analysis and retrieval with Python, SQL, Java/JavaScript, allowing users to get info from databases on the web. - Internal informatics user training and daily problem solving for scientific or technical issues. Identify, evaluate, deploy and test new software, databases and other informatics tools for new needs. August 1999 - August 2000 Software Engineer in the department of Web Information Technology, a subdivision of IBM AIX RS/6000 Server Group, Austin, TX. - Oracle database server administrator and application developer using Oracle PL/SQL Web Toolkit. Web based reporting system development for users to get info from databases on the web. - AIX program product packaging. January 1999 - July 1999 Software Engineer at DNASTAR Inc. Madison, WI. - Sequence analysis software development (LaserGene, SeqMan II) for genetic research on Windows and Apple Macintosh platforms using C programming language. June 1998 - August 1998 Software Engineer, Sanchez Computer Associates, Inc. Malvern, PA. - Established test suites using MUMPS programming language and Shell scripts for testing different features of GT.M database system (a Greystone Technology Corporation's implementation of standard MUMPS for UNIX and VAX/VMS systems) in UNIX and VMS platforms. November 1994 - January 1999 Assistant Researcher, Lab manager, Clinical Science Center, University of Wisconsin at Madison. - Research projects: "Regulation of tumor cell kinetics using in vitro and in vivo models". - Responsible for experiment design, supervising, assay data analysis using different software and scientific paper publication. January 1990 - May 1994 Research Assistant, INSERM U.139, CHU Henri Mondor, Créteil 94010, France. - Ph.D thesis study on mechanisms of cytotoxicity and DNA damage induced by asbestos and other chemicals using in vivo and in vitro models. EDUCATION May 1999 Master's Degree in Computer Sciences University of Wisconsin - Madison May 1994 Ph.D. in Cell Biology and Molecular Toxicology University of Paris XII, Créteil, France May 1989 Master's Degree in Toxicology and Pharmacology Nanjing Medical College, P.R China December 1982 Bachelor's Degree in Medicine Nanjing Medical College, P.R China COMPUTER TECHNICAL SKILLS Programming C/C++, Java, Python, VB/ABA, MUMPS, PL/SQL, QBE, UNIX Shell Languages: (C Shell and KornShell), PERL, HTML, XML, JavaScript Platforms: SUN/AIX/HP UNIX Workstations, X Window, VAX/VMS, LINUX, Windows 95/98/NT and Macintosh Programming Bioinformatics BLAST, sequence alignment, contig assembly, primer design, Tools: LIMS, Phred, Phrap, HMM, DANStar SegMan II, LaserGene Cheminformatics MDL ISIS database, ActivityBase, Scitegic Pipeline Pilot, Tools: Spotfire, XLFit OTHER PROGRAMMING PROJECTS Database Projects: - Implemented Buffer Manager (manages buffer pool), Heap File Manager, B+ Trees, Sort Merge Join on a DBMS in C++. - Designed and implemented Disk Space Manager (allocation and deallocation of pages within a database), Buffer Manager, Heap File Manager in Java. Operating System Projects: - Developed protocols for interprocess communication and synchronization using pipes, semaphores in C++. - Simulated and evaluated different page replacement algorithms using real memory trace data from UNIX systems in C++. - Measured kernel performance using extended lmbenchmark in C. - Developed a Prefetching protocol for Web access streams by using aged probability graphs in C. - Designed a parallel workload generator, an analyzer and a CPU scheduler for a parallel computer with a graphic user interface in Java. Networking Projects: - Developed a Client-Server protocol with UDP as its transport layer protocol using BSD Socket and Posix thread in C. - Built a reliable transport layer protocol over a virtual-circuit (VC) based network layer protocol in C++. File Transfer Application (FTP) was linked to protocols which supported reliable file transfers between nodes across an unreliable network. PUBLICATIONS Dong HY, Saint-Etienne L, Renier A, Billon-Galland MA, Brochard P and Jaurand MC. Air samples from a building with asbestos containing material: Asbestos content and in vitro toxicity on rat pleural mesothelial cells. Fundamental and Applied Toxicology, 22:178-185, 1994. Dong HY, Buard A, Renier A, Saint-Etienne L and Jaurand MC. Role of oxygen derivatives in the cytotoxicity and DNA damage produced by asbestos on rat pleural mesothelial cells in vitro. Carcinogenesis , 15:1251-1255, 1994. Dong HY, Yegles M, Renier A, Bignon J and Jaurand MC. Cytotoxic and genotoxic effects of vitreous microbeads with different iron content on rat pleural mesothelial cells in culture. ILSI (International Life Sciences Institute) Series, Eds by Mohr,U.; Dungworth,D.L.; Oberdorester,G. In: Toxic and carcinogenic effects of solid particles in the respiratory tract. ILSI Press, Washington D.C., p.419-422, 1994. Dong HY, Buard A, Levy F, Renier A, Laval F and Jaurand MC. Synthesis of poly(ADP-ribose) in asbestos-treated rat pleural mesothelial cells in culture. Mutation Research, 331:197-204, 1995. Yegles M, Janson X, Dong HY, Renier A, and Jaurand MC. Role of fibre characteristics on cytotoxicity and induction of anaphase/telophase aberrations in rat pleural mesothelial cells in vitro - Correlations with in vivo animal findings. Carcinogenesis, 16:1251-2758, 1995. Dong HY, Bertler C, Schneider E and Ritter MA. Assessment of cell proliferation by AgNOR scores and Ki-67 labeling indices and a comparison with potential doubling times. Cytometry, 28:280-288, 1997.