Alaina Shumate
Scientist II at Dana-Farber Cancer Institute
Boston, Massachusetts, United States
Summary
👤
Senior🎓
Top SchoolAlaina Shumate is a computational genomics scientist with nine years of experience translating genomic research into robust software and annotations, currently working as Scientist II at Dana-Farber Cancer Institute. A Johns Hopkins PhD candidate mentored by Dr. Steven Salzberg, she developed the open-source Liftoff tool to transfer gene annotations across assemblies and applied it to annotate genomes across diverse species. Her background blends bioengineering training from Stanford with industry software testing experience at Illumina, giving her a rare mix of wet-lab insight and production-quality software rigor. Previously an Assistant Principal Investigator at the National Biodefense and Countermeasures Center, she focuses on practical, reproducible genomic methods that scale to new and improved assemblies. Colleagues would note her ability to bridge academic openness and institutional needs—shipping tools that are both scientifically rigorous and broadly usable.
9 years of coding experience
2 years of employment as a software developer
Doctor of Philosophy - PhD, Bioinformatics, Doctor of Philosophy - PhD, Bioinformatics at The Johns Hopkins University School of MedicineHigh School, High School at Natrona County High SchoolBachelor's Degree, Bioengineering, Bachelor's Degree, Bioengineering at Stanford University
Github Skills (15)
lift10
bioinformatics10
variants10
structural-variation10
pipeline10
package-management9
conda9
genome8
sequence7
bioconda7
simulation7
simulator6
portable-database5
python1
assembly1
Programming languages (3)
Github contributions (5)
agshumate/Liftoff
Nov 2019 - Oct 2022
An accurate GFF3/GTF lift over pipeline
Contributions:15 releases, 178 commits, 10 PRs in 2 years 11 months
structural-variationpipelineliftgtfaccurate
agshumate/bioconda-recipes
Mar 2021 - Aug 2022
Conda recipes for the bioconda channel.
Contributions:7 pushes, 1 branch in 1 year 4 months
orangerecipescondabiocondabioinformatics
Find and Hire Top DevelopersWe’ve analyzed the programming source code of over 60 million software developers on GitHub and scored them by 50,000 skills. Sign-up on Prog,AI to search for software developers.