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Nicholas Tse
Boston, MA · U.S. Citizen
(617) 784-3939 · entssee@gmail.com
LinkedIn · GitHub

Summary

Bioinformatics M.S. graduate with training in RNA-seq analysis, scripting, and reproducible workflows. Interested in applying statistical and computational methods to biological questions, with experience in transcriptomics and structure-based drug discovery.

Skills

Programming & Workflow: R (basic), Python (basic), Bash (basic), KNIME (basic), Nextflow (basic); VS Code, RStudio
Bioinformatics & Data Tools: BLAST, IGV, Jalview, PyMOL, GEOquery, Pandas, ggplot2, RDKit, samtools, bedtools
RNA-seq: FASTQ-to-DE workflow (QC, alignment, quantification, differential expression); command-line manipulation and analysis

Education

Brandeis University — M.S. Bioinformatics (Apr 2024 – Jun 2025)
Relevant coursework: Bioinformatics Scripting & Databases (Python), Biomedical Statistics (R), Cheminformatics, Computational Systems Biology

University of Massachusetts Amherst (Commonwealth Honors College) — B.S. Biochemistry & Molecular Biology (Sep 2017 – May 2021)

Selected Projects

Structure-Based Drug Repurposing for MMP-13 Inhibition (Brandeis, Spring 2025)

  • Filtered and clustered ~20,000 compounds from the Broad Drug Repurposing Hub using RDKit, PCA, and K-means
  • Performed virtual screening with Smina; validated the docking method with ROC AUC
  • Prioritized candidates using docking score, binding pose, clinical status, and safety

Transcriptomic Analysis of Chronic Inflammatory Disease (Brandeis, Fall 2024)

  • Analyzed GSE156993 microarray data to identify DEGs across T2DM, dyslipidemia, and periodontitis subgroups
  • Applied linear modeling and empirical Bayes moderation using limma in R
  • Performed GO and KEGG enrichment to connect DEGs to inflammation and metabolic pathways

Work Experience

CVS Pharmacy — Pharmacy Technician (Braintree, MA | Feb 2021 – Feb 2022; Feb 2024 – Present)

  • Communicate with patients, dispense medications, and ensure dosage/instruction compliance

ProPharma Group — Pharmacovigilance Specialist (Contract) (Remote | Mar 2022 – Sep 2022)

  • Crafted case narratives using Oracle Argus while adapting to evolving SOPs
  • Followed ICSR guidelines and MedDRA coding principles

Sequencing Technician (Contract)
Quintara Biosciences · Cambridge, MA · Dec 2021 – Jan 2022

  • Performed PCR assays on client samples to amplify genetic material for downstream sequencing workflows.
  • Conducted gel electrophoresis to assess and verify customer sample quality and quantity.
  • Maintained accurate sample records and well-plate documentation

Laboratory Experience

Ma Lab — Research Assistant
University of Massachusetts Amherst · Jul 2020 – Dec 2020

  • Investigated genetic mechanisms underlying host specificity in the plant pathogen Fusarium oxysporum.
  • Studied the roles of heat shock proteins and heat shock factors in fungal pathogenicity.
  • Performed comparative genomic analyses, including genome alignment and phylogenetic tree construction, to explore genetic relationships and evolutionary patterns.

Skouta Lab — Research Assistant
University of Massachusetts Amherst · Jan 2020 – Apr 2020

  • Contributed to structure–activity relationship (SAR) studies of drug-like compounds and their predicted binding properties.
  • Conducted chemical compound analysis using thin-layer chromatography, column chromatography, and HNMR spectroscopy.
  • Assisted with reagent preparation, reaction setup, and execution to support efficient laboratory workflows.