Joelย Berendzen
Founder at GenerisBio, LLC
Santa Fe, New Mexico, United States
Summary
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Top SchoolJoel Berendzen is a founder and scientist with over a decade translating theoretical biophysics into practical biotech and drug-discovery tools, currently leading GenerisBio from Santa Fe. He discovered that proton and hydroxide โwiresโ in crystal waters dominate protein conformational energies and drug binding, a finding that reframes structure-based AI, molecular dynamics, and antibody epitope prediction. Joelโs career spans pioneering kinetic crystallography, structural genomics, metagenomics, and award-winning bioinformatics software development at Los Alamos, blending deep physics training (PhD Biophysics, UIUC) with hands-on computational invention. Pragmatic about translation, he has applied ML and translational informatics in both academic health and commercial settings to move this chemistry-driven insight toward actionable ligand and epitope design.
10 years of coding experience
25 years of employment as a software developer
Bachelor of Science (B.S.), Physics, Bachelor of Science (B.S.), Physics at Harvey Mudd CollegeUniversity of Illinois Urbana-Champaign
English
Github Skills (163)
dependency-management10
python10
mer10
dependency-manager10
amino10
phylogenetic-trees10
packaging10
overlay10
python-packaging9
science9
fossil9
taxonomy9
blast9
webserver9
bioinformatics9
Programming languages (8)
Github contributions (5)
hydrationdynamics/zeigen
May 2021 - Oct 2022
Show structures of protonated water species in atomic-resolution crystal structures
Contributions:64 PRs, 139 pushes, 31 branches in 1 year 5 months
chemoinformaticsquantum-mechanicscrystalresolutionhigh-energy-physics
joelb123/rafm
Nov 2021 - Feb 2023
Reliable AlphaFold Measures
Contributions:4 releases, 31 PRs, 67 pushes in 1 year 3 months
data-sciencealphafoldstructural-biologyreliablebioinformatics
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