Northeastern University, Boston, MA

M.S., Bioinformatics

Sr. Bioinformatics Scientist,

Illumina, Inc., San Diego, CA

• Leading development of infectious disease bioinformatics applications

Bioinformatics Scientist 2,

Illumina, Inc., San Diego, CA

• Developed bioinformatics infectious disease applications for the MiSeq i100 instrument
• Possess extensive experience in designing, developing, and optimizing Nextflow pipelines for high-throughput analysis workflows
• Contributed to the development of multiple bioinformatics applications, including DRAGEN Microbial Enrichment Plus, 16S Metagenomics, Microbiome Metagenomics/Metatranscriptomics, DRAGEN COVID Lineage, DRAGEN Viral Lineage etc.
• Designed reusable Nextflow and Python modules which are integrated across various DRAGEN pipelines, improving functionality and performance of internal tools

Bioinformatics Software Developer, Harvard Program in Therapeutic Science (HiTS)

Harvard Medical School, Boston, MA

• Developed Neuro-immune interactome pipeline using Nextflow and Python to study the interactions in different mouse pain models between Immune cell ligands and Neuron receptors using INDRA network and cellphonedb (github.com/indralab/panacea_indra)
• Designed a work-flow using COSMOS to integrate and connect data from different omic (Transcription factors and Kinases) datasets to make network level causal reasoning for Phospho Proteomics and Transcriptomics CFA and Naïve sciatic nerve samples
• Designed workflows for pre-processing in-Drops and 10X single-cell RNA-Seq raw samples using bcbio pipelines and cellranger respectively and used Seurat to work on the downstream analysis to integrate various mouse pain model samples and performed pseudo-bulk analysis to study the gene expression profiles from samples for each cluster
• Maintained and improved bulk and single-cell RNA-Seq pipelines for the Boston Children’s Hospital bioinformatics core
• Maintained code and made significant improvements to CXP-lite (Profiling neuronal activity from fluorescence imaging data) tool which potentially saved hours of work for researchers at Woolf lab (github.com/samuelbunga/cxp-lite)

Graduate Teaching Assistant, Computational Methods-2

Northeastern University, Boston, MA

• Led weekly lab sessions and office hours, supporting a cohort of 30 students in computational techniques and programming concepts
• Provide comprehensive academic support and mentored students on individual basis
• Designed, conducted, and evaluated quizzes and assignments

Research Intern, Bhasin Lab

Harvard Medical School, Boston, MA

• Designed and developed Single Cell Wizard, a free web application for processing 10X, CEL-Seq, and Drop-Seq single-cell RNA-Seq data.
• Developed home brew tools for Single Cell Wizard pipeline like FASTQ demultiplexer and FASTQ cleaner to remove singleton nucleotides and low-quality reads from each sample
• Assembled and created a Database for Gene expression markers that define cell types which can be used to annotate clusters of single cells via Gene Set Enrichment Analysis