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.
8 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 (19)
variants10
structural-variation10
lift10
bioinformatics10
package-management9
conda9
pipeline9
bioconda9
interpretation8
genome8
simulator6
sequence5
simulation5
portable-database3
marker3
Programming languages (3)
Github contributions (5)
agshumate/LiftoffTools
Jun 2022 - Oct 2022
Contributions:4 releases, 31 commits, 9 PRs in 4 months
agshumate/Liftoff
Nov 2019 - Oct 2022
Contributions:15 releases, 178 commits, 10 PRs in 2 years 11 months
structural-variationpipelineliftgtfaccurate
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