Data Analyst and R Shiny developer
|Career Status:||Actively looking|
|Willing to relocate:|
Bioinformatics professional with a master’s degree in bioinformatics, four years of postgraduate experience in data analysis and programming, and background in life sciences.
M.S. Bioinformatics, San Diego State University, August 2013, GPA 3.86
Life Sciences Information Technology Certificate, UCSD extension, December 2013
B.S. Biochemistry, University of California, San Diego, June 2006
Bioinformatics Scientist, Rancho Biosciences December 2016 – present
- Analyzed expression data to find possible gene interactions.
- Developed R Shiny applications.
- Data cleaning and management
Data Analyst, Bioinformatics and Biostatistics, Gensignia Life Sciences May 2014 – April 2016
- Contributed to development of microRNA Signature Classifier, an early detection test for lung cancer from bl
- Wrote programs to process, manipulate, and analyze miRNA qPCR data to support the functions of Research & Development and Clinical Operations teams.
- Performed univariate and multivariate statistical analysis of data to aid in the interpretation of laboratory results.
- Developed models using machine learning algorithms to predict diagnosis of lung cancer from miRNA signature.
- Developed R Shiny user interfaces for R&D and clinical use to process raw data and obtain final results and re
- Created reports on analysis performed using reproducible research tools to aid in presentation of the result
- Created intuitive and informative figures and tables to convey results visually to assay team and aid in laboratory decision making.
- Wrote and executed test cases to perform software verification and validation.
- Wrote software design specification for clinical trials software.
- Contributed to writing clinical study protocols.
Research Associate, University of California, San Diego December 2013 – May 2014
- Wrote programs for computational analysis of next generation sequencing data, RNA-seq, ChIP-se
- Organized and managed data for the laborator
Bioinformatics Internship, Sequenom Center for Molecular Medicine May 2013 – August 2013
- Wrote programs to manipulate and test large datasets to analyze Illumina sequencing data for the effect of methylation on fetal fraction enrichment in maternal plasma.
- Processed large data sets of Illumina sequencing data for variant calling through GATK pipeline.
- Wrote programs to analyze the effect of Illumina cycle reduction on quality scores and alig
Graduate Research: San Diego State University, Dr. Faramarz Valafar lab and Global Consortium for Drug-resistant TB Diagnostics (GCDD) January 2012 – May 2013
- Analyzed whole genome sequencing data of tuberculosis causing bacteria for better understanding of drug resistance to injectable antibiot
- Identified mutations associated with drug resistance in tuberculosi Processed NGS data of ~400 isolates using Pacific Biosciences platform.
- Standard bioinformatics practices, databases and tools.
- Statistical analysis including univariate and multivariate, regression models, linear mixed models, machine learning, and data visualization.
- NGS and qPCR data analysis.
- Wet lab in the fields of immunology, molecular biology.
- UNIX command line and UNIX clusters.
- Programming: R, R Shiny, git, knitr, PERL, UNIX Shell, JIRA.
- English, Russian