Causal Variant Discovery in Familial Congenital Heart Disease - an Integrative -omic approach.
Completed to meet the requirements of Marquette University and The Medical College of Wisconsin MS Bioinformatics program.
Topics covered / applications utilized: Pathway analysis (Ingenuity pathway Tool), GeneMANIA, SIFT, PolyPhen-2, Exome Variant Server, dbSNP, Sanger sequencing, protein modeling (PyMOL), MODELLER, primer design (Primer3), Graphviz, UCSC LiftOver, Sequencher MAJEWSKI, W., Olivier, C.
2002, March).
Development and validation of a partial genomic library of Cyclospora cayetanensis, a newly emerging human parasite, National Conference for McNair Scholars and Undergraduate Researchers, College Park Maryland.
MAJEWSKI, W., Olivier, C.
2002, April).
Development and validation of a partial genomic library of Cyclospora cayetanensis, a newly emerging human parasite, National Conference for Undergraduate Research, Whitewater, Wisconsin.
Professional Summary
Secure a position in a diverse scientific environment in which I can investigate and apply bioinformatic, statistical, and analytical methods to Next Generation Sequence data to study disease susceptibility, contributory, and causal genetic factors in human disease.
Skills
biology and genetics, and be versed in the application of computers to solving biological or medical questions including the understanding and execution of the following software applications, databases, programming language, and operating systems:
Sequence Alignment, variant calling, and analysis: BWA, Picard, GATK, VarScan,
Project lead role in upgrade of tertiary analysis system.
Includes assessment, proposal, contact with sales, build, implementation, and future administrative duties.
Project lead role in upgrade and updated implementation of LIMS system in clinical laboratory.
Analysis of human genome and exome sequencing data through the utilization of bioinformatics and genomics software.
Primarily Illumina Next-Gen Sequence data, experience with Roche 454)
-Investigate and apply bioinformatic, statistical, and analytical methods to study the relationship of microbial composition to human disease, viral integration, and disease susceptibility.
Exploration of robust bioinformatics tools and NGS pipeline metrics; including pipeline development and optimization.
In-depth and cross sample analysis of NGS data with specific focus on the impact of genomic variants on pathogenesis of human disease.
Research projects include but not limited to: Cervical Cancer/HPV, PHACE syndrome, Sturge Weber Syndrome, myelodysplastic syndromes, breast cancer, neutropenia, multifocal lymphangioendotheliomatosis with thrombocytopenia (MLT), Warburg Micro Syndrome, exploration of Microbiome in pediatric IBD and Crohns patients, Morphea.
Primary Analyst for the Undiagnosed Disease Network Grant- comparison of pipelines developed and utilized by two sequencing centers.
Including optimization and comparisons at the primary, secondary, and tertiary stages of analysis.
Serve as intermediary between programmers and clinical/research professionals in regard to development needs, troubleshooting, and software acquisition.
Identify and define improvements for existing systems and tools for the development team.
Research and clinical data management, processing, and loading to tertiary analysis system.
Work to deadlines and handle multiple tasks in parallel.
Demonstrate flexibility and adaptability to changing needs of investigators, timelines, and project prioritization.
Research Technologist, 12/2005 - 01/2011 – , ,
Blood Research Institute BloodCenter of Wisconsin Milwaukee, WI
Responsibilities:
-Primary responsibility is the generation of genetic sequence data via Sanger or Roche 454
Sequencing methods to evaluate human immune response to Influenza.
Acquiring knowledge of theoretical basis of work being performed by reviewing research materials and literature.
Apply standard quality control procedures to assure the quality of test results and to correctly
modify experimental controls and variables.
Document experimental source, format, procedures, and modifications.
Record all data and observations accurately, neatly, and in a timely manner
-Communicate results of research at meetings.
Participate in development process of bioinformatic tools.
Liaison role between developers and
wet lab.
Work under guidelines of company standards; responsible for following and developing
experimental protocols, and overall good laboratory practices.
Development and validation of diagnostic assays using multi-plex Real Time PCR to detect both viral and bacterial agents of respiratory and gastrointestinal infectious disease and agents of bioterrorism.
Processing patient specimens in CLIA certified laboratory with Hexaplex, Adenoplex, and Pneumoplex Assays.
Laboratory Technician, 04/2003 - 11/2003 Iconma, L.L.C. – City, STATE,
Genotyping: Solution Preparation, DNA Extraction, PCR
- Animal handling (Rat), Drug Injections, Tail Clip Collection.
Education
Master of Science: Bioinformatics, Expected in May 2012 - - , GPA: Bioinformatics
Joint Degree: , Expected in - Marquette University and Medical College
of Wisconsin - Milwaukee, Wisconsin GPA:
Bachelor of Science: Cell Biology - Physiology Chemistry, Expected in May 2003 - University of Wisconsin at Whitewater - Whitewater, Wisconsin GPA: Cell Biology - Physiology Chemistry
Associate Degree: Photography, Expected in May 1996 - Madison Area Technical College - Madison, Wisconsin GPA: Photography
Publications
Schilter K, Steiner J, Claire W, Maheshwari M, Prokop J, Worthey E, Drolet B, Siegel D (2017) "RNF213 Variants in a Child with PHACE Syndrome and Moyamoya Vasculopathy" American Journal of Medical Genetics DOI:10.1002/ajmg.a.38258
*Yassai MB, Claire W, Gorski J. (2016) "CDR3 motif generation and selection in the BV19-utilizing subset of the human CD8 T cell repertoire." Mol Immunol. 2016 Apr;72:57-64.
*Yassai MB, Claire W, Janczak T, Naumova EN, Gorski J. (2016) "CDR3 clonotype and amino acid motif diversity of BV19 expressing circulating human CD8 T cells." Hum Immunol. 2016 Jan;77(1):137-45.
*Zhou, V., Yassai, M. B., Regunathan, J., Box, J., Bosenko, D., Vashishath, Y., Claire, W., Lee, F., & Gorski, J. (2013). The functional CD8 T cell memory recall repertoire responding to the influenza A M1 58-66 epitope is polyclonal and shows a complex clonotype distribution. Human immunology, 74(7), 809-817.
*Yassai, M., Bosenko, D., Unruh, M., Zacharias, G., Reed, E., Claire, W., Ferrante, A., & Gorski, J. (2011). Naive T cell repertoire skewing in HLA-A2 individuals by a specialized rearrangement mechanism results in public memory clonotypes. The Journal of Immunology, 186(5), 2970-2977.
*Brand, A. M., Varghese, G., MAJEWSKI, W., & Hawdon, J. M. (2005). Identification of a DAF-7 ortholog from the hookworm Ancylostoma caninum. International journal for parasitology, 35(14), 1489-1498.
CONFERENCE POSTERS
*Claire, W., Tsaih, S.W, Worthey, E. (2014, September) Making Good Data for Genomic Medicine, Medical College of Wisconsin 2014 Research Day, Milwaukee, WI
*Claire, W., Salzmann, N., Worthey, E. (2012, May). Microbiome Community Dynamics: Upstream Methodology and Translational Affects on Diversity, Great Lakes Bioinformatics Conference, Ann Arbor, Michigan.
*Khanna M, Harrington K.P., Gajewski A, MAJEWSKI W, Bahling S, Henrickson, K.J. (March, 2005). Simultaneous detection of CDC category "A" DNA bioterrorism agents and varicella in a single multiplex PCR-EHA assay, ASM Biodefense Meeting, Baltimore, Maryland.
*MAJEWSKI, W., Hawdon J.M. (2003, April). Identification and Stage Specificity of .daf-7 and daf-12, dauer regulating genes, in Ancylostoma caninum, National Conference for Undergraduate Research, Salt Lake City, Utah.
Interests
MAJEWSKI W. (2001, November). The Good Life, Ronald E. McNair National Conference, Delavan, Wisconsin.
*MAJEWSKI, W. (2001, April). Workplace Communication, National Conference for Undergraduate Research, Lexington, Kentucky.
Additional Information
MAJEWSKI W. (2001, November). The Good Life, Ronald E. McNair National Conference, Delavan, Wisconsin.
*MAJEWSKI, W. (2001, April). Workplace Communication, National Conference for Undergraduate Research, Lexington, Kentucky.
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School Attended
Marquette University and Medical College
of Wisconsin
