Publications
Mardikoraem M, Woldring D. Protein Fitness Prediction Is Impacted by the Interplay of Language Models, Ensemble Learning, and Sampling Methods. Pharmaceutics 2023. Download PDF
Pascual N, Belecciu T, Schmidt S, Nakisa A, Huang X, Woldring DR. Single-Cell B-cell Sequencing to Generate Natively-paired scFab Yeast Surface Display Libraries. Genotype Phenotype Coupling. Methods in Molecular Biology 2023. Download PDF
Wang Z, Belecciu T, Eaves J, Reimers M, Bachmann M, Woldring DR. Phytochemical Drug Discovery for COVID-19 Using High-resolution Computational Docking and Machine Learning Assisted Binder Prediction. J Biomol Struc Dyn 2022. Download PDF
Komuro H, Aminova S, Lauro K, Woldring DR, Harada M. Design and Evaluation of Engineered Extracellular Vesicle (EV)-Based Targeting for EGFR-Overexpressing Tumor Cells Using Monobody Display. Bioengineering 2022. Download PDF
Traxlmayr MW. Yeast Surface Display. Book. Methods in Molecular Biology 2022
- VanAntwerp J, Finneran P, Dolgikh B, Woldring DR. Ancestral Sequence Reconstruction and Alternate Amino Acid States Guide Protein Library Design for Directed Evolution Download PDF
- Mardikoraem M, Woldring DR. Machine Learning-driven Protein Library Design: A Path Toward Smarter Libraries Download PDF
- Dolgikh B, Woldring DR. Site-wise Diversification of Combinatorial Libraries Using Insights from Structure-guided Stability Calculations. Download PDF
Woldring DR, Holec PV, Stern LA, Du Y & Hackel BJ. A gradient of sitewise diversity promotes evolutionary fitness for binder discovery in a three-helix bundle protein scaffold. Biochemistry 2017. Download PDF
Stern LA, Csizmar CM, Woldring DR, Wagner CR, Hackel BJ. Titratable avidity reduction enhances affinity discrimination in mammalian cellular selections of yeast-displayed ligands. ACS combinatorial science 2017. Download PDF
Hackel BJ, Woldring DR, Zhou H. Compositions and methods that involve protein scaffolds that specifically bind to hepatocyte growth factor receptor. US Patent App. 16/158,957
Woldring DR, Holec PV & Hackel BJ. ScaffoldSeq: Software for Characterization of Directed Evolution Populations. Proteins: Structure, Function and Bioinformatics 2016. Download PDF
Woldring DR, Holec PV, Zhou H & Hackel BJ. High-Throughput Ligand Discovery Reveals a Sitewise Gradient of Diversity in Broadly Evolved Hydrophilic Fibronectin Domains. PLoS One 2016. Download PDF
Kruziki MA, Bhatnagar S, Woldring DR, Duong VT, Hackel BJ. A 45-amino-acid scaffold mined from the PDB for high-affinity ligand engineering. Chemistry & biology. 2015. Download PDF
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