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77 Durie Lane |
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(905)
881-6169 |
I am fascinated by the intersection of biology, mathematics and computers: bioinformatics and computational biology. My current interests include sequence alignments, modeling metabolic pathways, automated annotation, and statistical analysis of microarray data.
à Sequence alignments: local, global, multiple, scoring matrices
à Extensive statistical analysis of microarray expression data
à Resources: NCBI, RGD, MGI
à Contributor (patches, documentation) to BioPerl open-source project
à Promoter analysis
à Outstanding database design skills
à Databases: Oracle (DBA), MS Access
à Fluent Languages: PERL (CGI, DBI)
à Other Languages: HTML, VB/VBA, C/C++, and R
à Protocols: TCP/IP, ODBC
à Operating Systems: all major systems, including Windows, Linux, Unix, others
à Setup and administration of Windows networks
Personal Skills |
Laboratory Skills |
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à Innovative and highly creative à Proven problem-solving skills à Outstanding presentation skills à Lucid academic writing à Enthusiastic and ambitious |
à Plating & culturing, mini-preps, gels, columns, PCR à Spectrophotometry, GC/MS, HPLC à Extensive experience with SPR technology |
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Bioinformatics Researcher Dr. A.B. Okey, Department of Pharmacology University of Toronto – Toronto, Ontario |
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July 2002 to Unknown 2003 |
à Design and implementation of Oracle and MS-Access databases to facilitate analysis of DNA microarray experiments à Administration of Oracle and MS-Access databases à Setup, tuning, and maintenance of local BLAST facilities à Designed and performed experiments to validate inter-species usage of cDNA microarrays à Testing of genomic sequence for promoter elements à Enhanced primer-design efficiency with new software to automate and aggregate primer-homology searches à Researched and implemented microarray normalization techniques à Extensive statistical analysis of oligonucleotide (Affymetrix, Clontech) and cDNA microarray data à Developer and Win32 tester for BioPerl open-source project |
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Bioinformatics Researcher Dr. T.R. Zacharewski, Department of Biochemistry Michigan State University – East Lansing, Michigan |
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04/2001 to 09/2001 |
à
Extension of laboratory database to perform
clone-tracking and microarray data storage and analysis. à
Basic molecular biology, including protein
purification and PCR à
Designed and performed BIAcore-based studies of
coactivator-nuclear receptor interactions to evaluate ligand-dependent
kinetics and affinities. à
Extensive bioinformatics work, including automation
of BLASTs, inter-database communications, and numerical analysis à
Leader of the bio-informatics group (3 people),
including project-planning & specification, leading meetings, and
technology evaluations à
Designed and presented a 3-day bioinformatics
training course. à
Extensively involved in the analysis of microarray
data à
Presented an extensive literature review of
transcriptional coactivators |
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Biochemistry Researcher Zacharewski Laboratory, Department of Biochemistry Michigan State University – East Lansing, Michigan |
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04/2000 to 09/2000 |
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Design of an RDBMS to act as the repository for
functional annotation of genes of interest to the Zacharewski Laboratory à
Subcloning of the coactivator Tif2 à
General molecular biology lab work, including Western
blotting, chromatographic purifications, plating, and PCR |
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Research Assistant Zenon Environmental – Burlington, Ontario. |
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08/1999 to 12/1999 |
à
Designed and executed a study to identify candidates
for further study from a chemically diverse set of surfactants à
Aqueous analytical chemistry: colour, pH buffering,
TOC, turbidity à
Design and construction of apparatus for controlled
fouling of HF/SW membranes using PVC,
flow/pressure metering/regulation, and pumps à Development of a database for data storage and analysis |
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Process Engineering Assistant Petro-Canada Lubricants – Toronto, Ontario. |
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12/1998 to 04/1999 |
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Performed PID tuning of ~20 varied feed-back loops. à
Plant-wide implementation of a Honeywell LIMS à
Designed and implemented a Visual C++ program to
interface from a real-time QNX system to an Oracle DB using ODBC and TCP/IP |
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Programmer/Analyst Ontario Municipal Employee Retirement System – Toronto, Ontario. |
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05/1998 to 09/1998 |
à Analyzed and enhanced the security of a multi-user MS-Access database à Created and optimized database reports in C and embedded SQL à Utilized INGRES tools to modify screens, reports, and scripts for Y2K |
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Relational Database Programmer Alcatel Canada Wire – Markham, Ontario |
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09/1997 to 12/1997 |
à Implemented and enhanced a computerized labeling system used to create approximately 500 labels daily with concomitant cost savings à Designed a quality-tracking sub-system to an existing Oracle database, including JAD sessions, performance analysis, and process analysis. à Developed 50 ad-hoc SQL queries for custom data analysis |
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Development of a
Cross-Platform Microarray Search for Novel Dioxin-Responsive Genes
Boutros P.C., Franc M.A., Moffat I.M., Okey A.B.
o Visions
in Pharmacology 2003
Toronto, Ontario; Canada
May 22, 2003
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Modeling DNA
Mutation: Novel Substitution Matrices for Enhanced BLAST Searches
Boutros P.C., Karanassios, K.
o 31st
Southwestern Ontario Undergraduate Student Chemistry Conference (SOUSCC)
Hamilton, Ontario; Canada
March 22, 2003
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Assessment of
Rat-Mouse Sequence Homology in the NIA 15K Clone Library: Implications For Gene
Expression Studies In Toxicologically Important Species
Boutros P.C., Okey A.B.
o Society
of Toxicology of Canada 35th Annual Symposium (STC)
Montreal, Quebec; Canada
December 5-6, 2002
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Development of a
relational toxicogenomics database for the prediction of chemical toxicity.
Burgoon L.D., Boutros, P.C., Dere E., Zacharewski T.R.
o The
Tenth International Conference on Intelligent Systems for Molecular Biology
(ISMB).
Edmonton, Alberta; Canada
August 3-7, 2002
·
Development of a
relational toxicogenomics database for the prediction of chemical toxicity.
Boutros P.C., Burgoon L.D., Zacharewski T.R.
o 41st
Annual Meeting of the Society of Toxicology (SOT)
Nashville, TN; U.S.A.
March 17-21, 2002
o MGED4
Annual Meeting, MGED
Boston, MA; U.S.A.
February 13-16, 2002
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dbTEST: a database of
transcripts expressed in spermatogenesis and testis.
Halgren R.G., Fielden M.R., Fong C.J., Boutros P.C., Zacharewski T.R.
o Environmental
Health Sciences Center for Molecular and Cellular Toxicology Annual Symposium
Institute Chemical Toxicology
Detroit, MI; U.S.A.
October 16, 2000
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Developing an
infrastructure to support toxicogenomic research for the study of male
endocrine disruptors.
Fielden M.R., Halgren R.G., Fong C.J., Boutros P.C., Chou K., Saama P., and
Zacharewski T.R.
o 58th
Annual EHS Center Directors' Meeting.
Functional Genomics, Proteomics and
High Through-put Technologies: Tools for the 21st Century
Detroit, Michigan; U.S.A.
October 16, 2000
o Environmental
Health Sciences Center for Molecular and Cellular Toxicology Annual Symposium
Institute Chemical Toxicology
Detroit, MI; U.S.A.
October 16, 2000
o Early
Toxicity Screening in Drug Discovery
Institute for Scientific Exchange
Baltimore, MD; U.S.A.
October 9-12, 2000
o Consortium
on Environmental and Drug Safety Workshop
Toronto, Ontario; Canada
September 29 - October 1, 2000
· Burgoon, L.D., Boutros, P.C. Dere, E., Zacharewski T. (2003) An introduction to database architecture, data-handling and storage infrastructure considerations in support of toxicogenomic studies, In preparation
· Boutros, P.C., Karanassios, K. (2003) Generation and Validation of DNA Substitution Matrices for Polymorphism Databases. In preparation
· Boutros, P.C., Okey, A.B. (2003) A scalable algorithm for enhanced cross-species cluster assignment, In preparation
à 2003: Second Prize, Biochemistry Division of Southwestern Ontario Undergraduate Student Chemistry Conference (SOUSCC)
à 2002: Dean’s Honours List in Science for academic excellence
à 2001: Dow Canada Environmental Chemistry Work-Term Report Award
à 1996: University of Toronto Scholarship for Dependents
à 1995: University of Toronto Scholarship for Dependents
à 1995: Certificates of Distinction and Achievement for finishing in top 25% of Canada in Descartes Mathematics Competition
à
University of Waterloo (2000-2003)
Chemistry, Honours Co-operative
à
University of Waterloo (1995-2000)
Chemical Engineering, Honours
Co-operative
Transferred in 2000 to Faculty of
Science
Completed 6/8 academic and 6/6
co-operative work terms
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Webmaster University of Waterloo Badminton Club |
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09/2000 to 12/2000 & 09/2001 to 04/2002 |
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Design and maintenance of club web-page à
Design, implementation, testing, and maintenance of
PERL/CGI scripts for online tournament registration (~250 entries in 10 days
3 times/year) à
Participation in tournament and social event planning
and execution à
Participated in the organization of two tournaments
(~120 participants), including interacting with University staff and external
sponsors à
Coordinated regular sessions, including training and
complaints |
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Sports Representative House West 1, Village 1 University of Waterloo |
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Summer 1997 |
à Planning, organizing, and promoting of sports teams and events for a varied group of 50 students |
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Treasurer House East 6, Village 1 University of Waterloo |
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Winter 1996 |
à Responsible for collecting, storing, and handling of house funds ($1000) à
Aided in the planning and execution of social events
for ~50 students |
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Organist/Pianist St. Luke’s Catholic Church Thornhill Ontario |
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Summer 1995 |
à Chose and accompanied hymns and psalms twice weekly à Performed a variety of liturgical and transitional music |
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