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					CURRICULUM VITAE

EXPERIENCE & EMPLOYMENT
2010 – Future       NIH Area Grant Application: “Spectrum-Agents: Clinical Decision Support for Autism and
                    Related Disorders” Principal Investigators: Drs. Susan Mabry and Betty Williams.

                       Head Bioinformatics/Genomics scientist
                       Prediction of autism based on karyotypes.
                       Prediction of autism based on triplet information in MIAME data sets.

07/2009 – Current   Visiting Assistant Professor of Computer Science
                    Whitworth University, Spokane, Wa.

                     Current research:
                           Data mining of an Ankylosing Spondylitis database.
                           Assisting student research into Celiac Disease.
                           Taught a course in Bioinformatics which included four student projects:
                                  o Protein extraction and filter algorithm in PERL.
                                  o Manual data mining of the Ankylosing Spondylitis database.
                                  o Comparative research into alignment algorithms.
                                  o File compression using a genomic analogy.
                           Moderator of the bioinformatics module at the 2010 Spokane Intercollegiate
                            Research Conference.

                     Teaching: Bioinformatics, Networks, C++, Ethics, Business Information Systems and
                    Software Engineering
                           Managed three student software engineering products.

                    Key Achievements:
                     Identified patterns of patient risk factor for Ankylosing Spondylitis.
                     Ankylosing Spondylitis research results presented at SIRC 2010.

03/2008 – 07/2009   Associate Lecturer
                    Deakin University, Waurn Ponds, Victoria, Australia

                     Research: PhD (Bioinformatics) “Statistical Properties and Taxonomies of Human
                       Untranslated Exons”.
                     Teaching: Fundamentals of I.T., Software Engineering, Practical Software Development,
                       I.T. Professional Practice, Database Fundamentals and Microbiology Techniques.

                    Key Achievements: Ranked among the top 25% of lecturers.

11/2004 - 03/2009   Research Assistant
                    Deakin University, Waurn Ponds, Victoria, Australia

                     System architect for the PORtable device VOting system, which improves teacher-
                      student interaction, utilizing cell phones to vote on multiple choice questions toll-free.

03/2000 - 12/2001   Documentation Engineer
                    Intec (Formerly Digiquant), Roskilde, Denmark

                     Engineered the Parameter Service Guide and Installation Manuals.

07/1999 - 01/2000   Software Developer
                    Wengberg's Furniture, Glumsø, Denmark

                     Programmed a networked database, “Joshua”, the electronic delivery scheduler.
FORMAL EDUCATION
03/2005 – 03/2009   Doctor of Philosophy (Bioinformatics)
                    Deakin University, Australia
                    Thesis: Statistical Properties and Taxonomies of Human Untranslated Exons
                    Key Achievements:
                        Identified a novel correlation of information content and change in energy for
                            human untranslated exons.
                        Developed comprehensive taxonomies for predicted and real exons.
                        Awarded IPR scholarship worth more than $100,000.
                        Awarded scholarship for the 2007 Australia/New Zealand Bioinformatics
                            Symposium

03/2004 - 11/2004   B. Computing (Cum Laude)
                    Deakin University, Australia
                    Thesis: Gene Expression and Computer Network Protocols: A Comparative
                    Investigation
                    Key Achievements:
                        Applied networking concepts to gene expression.
                        Awarded first class honors.

03/2001 - 11/2001   B. Computing (Info. Sys./Comp. Sci./Soft. Dev.)
                    Deakin University, Australia
                    Key Achievements:
                         Managed a group of five students for their final year project.
                         Invited to join the Golden Key Honour Society.

08/1997 - 12/1999   Datamatician (Advanced Diploma in Computer Science)
                    Næstved Business College, Denmark
                    Key Achievements: Developed and sold a final project to an industry partner.

01/1995 - 06/1996   A.A. and A.S. Foreign Languages
                    North Idaho College
                    Key Achievements: Member Phi Theta Kappa Honor Society
KEY SKILLS
Strong Teaching Abilities
 Taught in I.T. for 3 years at Deakin and Whitworth Universities.
 Led labs and demonstrations on an array of I.T. subject matter for 4.5 years.

Commitment to Student Success
 Volunteer mentor in the Lilly vocation mentoring program at Whitworth.
 Consultant for multiple undergraduate student research projects.
 Participated in pedagogical and personal development programs.
 Encouraged students to join in Industry-Based Learning projects at Deakin.

Dedication to Research
 Since August 2009, I have spearheaded a project mining patterns of information related to Ankylosing
  Spondylitis in conjunction with Arthritis Northwest,
 In conjunction with my PhD I have developed numerous datasets stored both in relational databases
  (MySQL) and flatfile format.
 I have assisted students in researching artificial protein synthesis to fight the effects of Celiac Disease.
 I taught an introductory course in bioinformatics and managed four student research projects.
 Upon acceptance of an NIH area grant, I will be coordinating a genomic data mining analysis as part of
  a suite of software related to Autism Spectrum Disorder.
 I am a testing partner on a software development project which attempts to correctly identify HTTP-
  DDoS attacks from legitimate data with a research group at Deakin University in Australia.

Solid and Diverse Computer Science Knowledge
 Wrote numerous C++ programs for multiple different Linux-based platforms investigating bioinformatics.
 Installed, configured and run data mining algorithms on MS SQL Server.
 Engineered programs to acquire, filter, store and query genetic data in MySQL databases.
 Built and installed the networked database, “Joshua” using Borland Delphi to access Paradox
  databases.
 Wrote numerous PERL programs including web service clients.
 Developed plug-ins for web applications, e.g. Mozilla Firefox.
 Developed web services in C#.
 Engineered and implemented software testing plans with frameworks such as Nunit.
 Developed software using assertions for rapid error identification and resolution.

Excellent Communication Skills
 Being bilingual (Danish & English) I precisely select wording and grammar to improve understanding.
 As a former radio Disc-Jockey, I understand the effects of tonal inflections upon the listener
  comprehension and use this knowledge to optimize communication experiences.
 Having comprehensive experience as a documentation engineer I use information mapping techniques
   to communicate both technical and non-technical concepts in journals, user manuals and online help
   systems.
 As a former technical support technician I clearly communicated technical information via telephone
  and email to lay-users to troubleshoot and resolve issues.
REFERENCES
Professor and Chair of Computer Science Yi-Ping     Dr. Kent Jones
“Phoebe” Chen                                       (Assoc. Prof. Computer Science)

La Trobe University                                 Whitworth University
Room BG 238                                         300 W. Hawthorne
Victoria 3086                                       Spokane, Wa. 99251
Australia

Tel: +61 3 9479 2598                                Tel +1 509 777 4248
Email: phoebe.chen@latrobe.edu.au                   Email: kjones@whitworth.edu



Dr. Susan Mabry                                     Dr. Josette Coldwell
(Assoc. Prof. Computer Science)                     (Assoc. Head of School)

Whitworth University                                Deakin University
300 W. Hawthorne                                    Pigdons Road
Spokane, Wa. 99251                                  Geelong Victoria 3217
                                                    Australia

Tel +1 509 777 4686                                 Tel: +61 3 5227 1417
Email: smabry@whitworth.edu                         Email: jo.coldwell@deakin.edu.au




PUBLICATIONS
      Chonka, A., Zhou, W., Knapp, K. and Xiang, Y. Protecting Information Systems from DDoS Attack
       Using Multicore Methodology. IEEE 8th International Conference on Computer and Information
       Technology (2008).

      Knapp, K. and Chen, Y-P.P., Highly Variant Energy Levels In POEM Exons Accepted Current
       Bioinformatics.

      Knapp, K. and Chen, Y-P.P. The Information Content of Exons in the Human Genome. Submitted
       BMC Genomics.

      Knapp, K., A. Rahaman, and Y-P.P. Chen, Non-Quantized Minimum Free Energy in Untranslated
       Region Exons. The Proceedings of the IEEE International Conference on Bioinformatics and
       Biomedical Workshops: p. 32-36 (2007).

      Knapp, K. and Y-P.P. Chen, An evaluation of contemporary hidden Markov model genefinders
       with a predicted exon taxonomy. Nucl. Acids Res., 2007. 35(1): p. 317-324.

				
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