About
- Degree: MS Bioinformatics
- Email: patelsita009@gmail.com
- City: Boston, USA
I am recent Bioinformatics graduate student at Northeastern University with a knack for turning data into discoveries.
Armed with expertise in NGS pipeline processing, Python, R, Linux, and AWS, I thrive in the realm of high-throughput datasets, omics data integration, and machine learning. My background spans transcriptomics, biostatistics, pipeline building, and mining insights from multi-omics data.
I am eager to apply my multi-faceted bioinformatics skills to impactful research roles after graduation.
I'm on the lookout for exciting opportunities to apply my skills and contribute to cutting-edge research. If you're in search of a computational biologist/bioinformatician with a passion for unraveling the mysteries hidden in data, let's connect!
Skills
Resume
Education
Master of Science in Bioinformatics
Jan 2022- Dec 2023
Northeastern University, Boston, MA
College of Science
Bachelor of Pharmacy
Aug 2016 - Oct 2020
University of Mumbai, Mumbai, India
Vivekanand College of Pharmacy
Professional Experience
Bioinformatics Co-op
Jan 2023 - Aug 2023
Incendia Therpaeutics, Brighton, MA
-
Surrogate Signature Development
- Developed a surrogate signature for a target gene and validated it based on expression correlation through expression correlation analysis utilizing Fischer’s test, OS and DFS survival analysis, hazard ratio assessment, response to immune checkpoint therapy, and hallmark signature correlation parameters (single-cell and bulk RNA seq data). Surrogate Signature validation and elucidation of immune exclusion mechanisms through Spatial Transcriptomics Analysis
- Analyzed target gene's correlation with immune exclusion metric (CD8 density ratio stroma/epithelial).
- Identified the primary cancer-associated fibroblast (CAF) subtype expressing the target gene by examining its association with the surrogate signature and the four main subtypes of CAFs. Determination of target gene’s Cellular Composition and Mutation-Driven Expression Variability
- Determined mutation markers associated with both high and low target gene expression by hypothesis-based testing (CCLE & TCGA data). Investigated the impact of joint mutations on target gene's expression in NSCLC at the bulk tumor level (TCGA data).
- Executed pan-cancer analysis data to elucidate the cellular composition linked to the target gene and its receptor expression. Generating insightful visualizations through volcano plots, heatmaps, and scatterplots.
Safety Associate trainee – Medical Information
Mar 2021 – Oct 2021
Iqvia RDS, Mumbai, India
- Reviewed, assessed, and documented the medical safety data and information consisting of adverse events and medical inquiries.
- Conducted database entry and documented safety narratives.
Bioinformatics analyst intern
Sep 2020 2021 – Dec 2020
Genotypic Technology, Bangalore, India
- Contributed to the development of a command-line executable Gene Set Enrichment Analysis (GSEA) script in R to identify enriched biological pathways from differentially expressed genes (DEGs).
- Assisted in writing and implementing unit test cases to ensure the robustness of the script's functionality.
Research Assistant
May 2019 - Aug 2019
Central Research Laboratory-KIMS, Karnataka, India
- Assisted in the migration of an RNA splicing pipeline from DSL1 to DSL2, enhancing efficiency and accuracy in data processing.
- Pipeline highlights: containerization with Docker, modular pipeline design, compatibility with Java and Nextflow version.
Projects
Testimonials
Amy Mueller
Principal Scientist (Bioinforamtics) at Incendia Therapeutics
Sita worked as a bioinformatics coop student under my supervision at Parthenon Therapeutics. She is a self-motivated, curious and goal-oriented bioinformatician. She has accomplished a lot in the few months of her coop program including gaining valuable technical skills related to bioinformatics data analysis and supporting high impact bioinformatics and translational work instrumental in helping preclinical drug development. She would be a great addition to any group looking to add top bioinformatics or data analytics talent.
Ryan H Newton
Principal Scientist at Incendia Therapeutics
Sita worked diligently and adeptly to address important questions during her time at Incendia. Her accomplishments are appreciated, and it was a pleasure to work with her. She will no doubt be a valuable addition to a great bioinformatics team.