Zheng Ruan
Assistant Professor at Thomas Jefferson University
Athens-Clarke County Unified Government, Georgia, United States
Summary
🤩
Rockstar🎓
Top SchoolZheng Ruan is an Assistant Professor and computational biologist with 13 years of experience bridging bioinformatics research and software development. He earned a Ph.D. in Bioinformatics from the University of Georgia, completed a postdoc at Van Andel Institute, and now leads research and teaching at Thomas Jefferson University. Zheng has deep expertise in codon-aware sequence analysis and evolutionary genomics, exemplified by his contributions to Biopython’s codonalign module, dN/dS estimation, and McDonald–Kreitman test implementations. Comfortable moving between academia and open-source engineering, he combines rigorous methodological development with production-ready code for widely used bioinformatics tools. Colleagues value his ability to translate complex evolutionary questions into efficient algorithms and reusable software.
12 years of coding experience
9 years of employment as a software developer
University of GeorgiaBachelor’s Degree Biotechnology, Bachelor’s Degree Biotechnology at Huazhong Agricultural University
English, Chinese
Github Skills (9)
bioinformatics10
biopython10
sequence-alignment10
python10
data-structure9
algorithm9
data-structures9
algorithms9
phylogenetics8
Programming languages (3)
Github contributions (5)
biopython/biopython
Jun 2013 - Oct 2020
Official git repository for Biopython (originally converted from CVS)
Role in this project:
Back-end Developer
Back-end DeveloperContributions:1 review, 106 commits, 9 PRs in 7 years 4 months
Contributions summary:Zheng implemented core features and improvements for the Biopython library, specifically focused on codon alignment functionality. They developed a new CodonAlignment class, incorporating codon-aware slicing and translation capabilities. Furthermore, the user added dN/dS ratio estimation and McDonald-Kreitman test support, indicating work on evolutionary analysis tools. Several commits demonstrate the user's contributions to adding support for multiple frameshift, and more sophisticated sequence comparison algorithms.
git-repositoryphylogeneticspythondnagenomics
zruan/biopython
Oct 2015 - Oct 2020
Official git repository for Biopython (converted from CVS)
Contributions:2 PRs, 33 pushes, 3 branches in 5 years
git-repositorypythonconvertedbiopythoncvs
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