Miguel Brown
Bioinformatics Engineer III
Philadelphia, Pennsylvania, United States
Summary
👤
Senior🎓
Top SchoolMiguel Brown is a bioinformatics engineer with 11 years of experience building and maintaining DNA/RNA sequencing pipelines and producing actionable genomic insights for clinical and research settings. Currently a Bioinformatics Engineer III at CHOP’s Center for Data Driven Discovery and relocating to Philadelphia, he combines hands-on pipeline development, variant calling, and RNA-seq differential expression with data visualization and HPC advocacy. His background spans academic labs at University of Chicago, Rockefeller, and Columbia, where he translated deep sequencing results into biologically meaningful interpretations and bespoke analysis tools. Comfortable bridging wet-lab needs and software solutions, he has repeatedly created custom pipelines for novel assays and led team development efforts in clinical research environments.
11 years of coding experience
9 years of employment as a software developer
M.A, Biomedical Informatics, M.A, Biomedical Informatics at COLUMBIA UNIVERSITYB.A, Biology, B.A, Biology at University of Rochester
Stackoverflow
1reputation
0reached
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Github Skills (50)
drc10
seq10
caller10
location10
rna-seq10
bioinformatics10
cancer-genomics9
nextflow9
atlas9
genome9
docker9
pipeline9
sequencing9
tsne9
genomics9
Programming languages (13)
Github contributions (5)
kids-first/kf-jointgenotyping-workflow
Oct 2018 - Dec 2022
:microscope: Joint genotyping workflow for Kids-First DRC
Contributions:7 releases, 16 reviews, 65 commits in 4 years 2 months
drcmicroscopedrc-harmonizationgenotypingkids
d3b-center/D3b-Pathogenicity-Preprocessing
Jun 2023 - Apr 2025
In collaboration with the Diskin lab, this repo houses a workflow designed to take in KF annotated vcf files, and further annotate for pathogenicity prediction
Contributions:3 releases, 6 reviews, 10 PRs in 1 year 9 months
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