RIYA JAMES
Toronto,Canada
Summary
Bioinformatics graduate student with hands-on experience in RNA-seq analysis, genome assembly, and applied data science for biological datasets. Expertise in high-performance computing and automation of genomics workflows using SLURM and scripting languages such as Python, R, and Bash. Proven ability to apply computational tools to enhance reproducibility and support data-driven biological research.
Overview
1
1
year of professional experience
1
1
Certification
Work History
Research Trainee
Quick IsCool
11.2023 - 06.2024
- Predicted protein-ligand interactions using AlphaFold, AutoDock Vina, and PyMOL, improving accuracy in drug-target modeling.
- Performed Gene Ontology (GO) enrichment and pathway analysis, identifying key biological pathways for targeted drug interventions.
- Analyzed drug-target interactions and off-target effects using computational tools, optimizing drug repurposing strategies.
- Developed and validated machine learning models for disease risk prediction and drug sensitivity analysis in oncology, enhancing precision medicine approaches.
Data Science Intern
Solar Secure IT Solutions
12.2023 - 02.2024
- Designed and implemented machine learning models to analyze booking trends, increasing predictive accuracy.
- Preprocessed and cleaned large datasets, improving model performance and reliability for actionable insights.
- Automated data analysis workflows, reducing processing time by 30% and improving efficiency in decision-making.
Education
Master of Science - Bioinformatics
Northeastern University
Toronto, ON01.2026
PG Diploma - Bioinformatics
St. Xavier's College
Mumbai, India01.2023
Bachelor of Science - Biotechnology, Chemistry, Botany
St. Aloysius College
Mangalore, India01.2022
Skills
- NGS data processing
- RNA-Seq analysis
- Variant interpretation
- Pathway enrichment
- Predictive modeling
- Exploratory data analysis (EDA)
- Data visualization
- Python
- R
- Bash scripting
- MySQL
- Nextflow
- Docker
- Power BI
- Tableau
- Seaborn
- Ggplot2
- Problem-solving
- Team collaboration
- Adaptability
- Critical thinking
Projects
Genome Assembly and Quality Control – Bacillus subtilis
- Reproduced and evaluated the AssemblyQC pipeline, a Nextflow-based tool for genome assembly quality assessment, using Bacillus subtilis as a test case.
- Executed the pipeline on HPC using Singularity and Nextflow, troubleshooting errors and resolving environment-specific compatibility issues.
- Investigated discrepancies in assembly metrics and emphasized the importance of standardized, reproducible workflows in computational genomics.
Replication of RNA-seq Study in Hashimoto’s Thyroiditis
- Reproduced a published RNA-seq pipeline to investigate gene expression patterns in Hashimoto’s Thyroiditis.
- Implemented a full Bulk RNA-seq analysis workflow including quality filtering (fastp), rRNA removal (Bowtie2), alignment (HISAT2), and expression quantification (featureCounts).
- Identified immune-related genes with significant differential expression and enriched pathways, validating findings consistent with autoimmune signatures.
Multi-Omics Statistical Analysis of Diabetes Subtypes
- Analyzed high-dimensional RNA-seq and lipidomics data across diabetes subtypes to uncover disease-specific molecular patterns.
- Applied dimensionality reduction and unsupervised clustering to stratify patient groups and detect outlier profiles.
- Identified distinct biomarkers separating T2D from IGT and ND, and validated findings through clinical correlations.
Certification
- Python for Genomic Data Science, Johns Hopkins University - Coursera
- Data Analytics Virtual Internship, Deloitte Australia - Forage
- Python (Basic) Skills Certification Test, HackerRank
- Introduction to Machine Learning, Kaggle Learn
Workshops And Trainings
- Bioinformatics for Drug Discovery, 05/01/23, 06/01/23, Decode Life
- Bioinformatics Data Science with R & MySQL, 04/01/23, 05/01/23, Decode Life
- Cancer Genomics & Bioinformatics, 02/01/23, 03/01/23, Decode Life
Timeline
Data Science Intern
Solar Secure IT Solutions
12.2023 - 02.2024
Research Trainee
Quick IsCool
11.2023 - 06.2024
Master of Science - Bioinformatics
Northeastern University
PG Diploma - Bioinformatics
St. Xavier's College
Bachelor of Science - Biotechnology, Chemistry, Botany
St. Aloysius College
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