Synthetic Systems (Nash)

Ali, Intizar et al. (2024) ‘Nano-newton scale hydrodynamic force measurement through CFD modeling of spinning disc’, in Ul Ahad, Inam (ed.) 4th International Conference on Key Enabling Technologies (KEYTECH 2024). Dublin, Ireland: Atlantis Press (4th International Conference on Key Enabling Technologies (KEYTECH 2024)). Available at: https://doi.org/10.2991/978-94-6463-602-4_15.

Harandi, Danial, Walsh-Korb, Zarah and Moradienayat, Monireh (2024) ‘CNCs and CeO 2 as organic–inorganic additives to enhance HPC bio-polymer wood coatings against photochemical degradation’, Journal of Coatings Technology and Research [Preprint]. 15.10.2024. Available at: https://doi.org/10.1007/s11998-024-00999-0.

Heiniger, Malvina et al. (2024) ‘Functionalized Polysaccharides Improve Sensitivity of Tyramide/Peroxidase Proximity Labeling Assays through Electrostatic Interactions’, ACS Biomaterials Science and Engineering. 09.08.2024, 10(9), pp. 5869–5880. Available at: https://doi.org/10.1021/acsbiomaterials.4c00895.

Goossens, Eline et al. (2024) ‘From Gel to Crystal: Mechanism of HfO 2 and ZrO 2 Nanocrystal Synthesis in Benzyl Alcohol’, Journal of the American Chemical Society, 146, pp. 10723–10734. Available at: https://doi.org/10.1021/jacs.4c00678.

Heiniger, Malvina et al. (2024) ‘Functionalized polysaccharides improve sensitivity of tyramide/peroxidase proximity labeling assays through electrostatic interactions’, ChemRXiv [Preprint]. Cambridge University Press. Available at: https://doi.org/10.26434/chemrxiv-2024-crr79.

Kueng, Christoph et al. (2024) ‘Decoding Stability and Epistasis in Human Myoglobin by Deep Mutational Scanning and Codon-level Machine Learning’, Biorxiv [Preprint]. Cold Spring Harbor Laboratory. Available at: https://doi.org/10.1101/2024.02.24.581358.

Vanella, Rosario et al. (2024) ‘Understanding activity-stability tradeoffs in biocatalysts by enzyme proximity sequencing’, Nature Communications. 28.02.2024, 15. Available at: https://doi.org/10.1038/s41467-024-45630-3.

Walsh–Korb, Zarah (2024) ‘Rationally designing dynamic protein cross–linked hydrogels across length scales’, in SPIE Smart Structures and Non-Destructive Evaluation. Long Beach, CA (SPIE Smart Structures and Non-Destructive Evaluation). Available at: https://doi.org/10.1117/12.3013714.

Moradienayat, Monireh, Walsh-Korb, Zarah and Harandi, Danial (2023) ‘CNCs and CeO2 as organic-inorganic additives to enhance HPC bio-polymer wood coatings against photochemical degradation’, Chemrxiv [Preprint]. Cambridge University Press. Available at: https://doi.org/10.26434/chemrxiv-2023-c7xgw.

Zarah Walsh-Korb and Michael A. Nash (2023) ‘CatchGel—A Molecular to Macroscale Investigation of Catch Bond-Crosslinked Polysaccharide Hydrogels’, in 2022 MRS Fall Meeting. Virtuell (2022 MRS Fall Meeting).

Narciso, Joan Oñate and Walsh-Korb, Zarah (2023) ‘Teaching cross-disciplinarity in the natural sciences – a case for Natural Philosophy’, ETH Teaching and Learning Journal. 01.08.2023, 4(1), pp. 79–88. Available at: https://doi.org/10.16906/lt-eth.v4i1.228.

Fernández De Santaella, Jaime et al. (2023) ‘Enzyme Cascade with Horseradish Peroxidase Readout for High-Throughput Screening and Engineering of Human Arginase-1’, Analytical Chemistry. 24.04.2023, 95(18), pp. 7150–7157. Available at: https://doi.org/10.1021/acs.analchem.2c05429.

Vanella, Rosario et al. (2023) ‘Understanding Activity-Stability Tradeoffs in Biocatalysts by Enzyme Proximity Sequencing’, Biorxiv [Preprint]. Cold Spring Harbor Laboratory. Available at: https://doi.org/10.1101/2023.02.24.529916.

Küng, Christoph, Vanella, Rosario and Nash, Michael A. (2023) ‘Directed evolution of Rhodotorula gracilisd-amino acid oxidase using single-cell hydrogel encapsulation and ultrahigh-throughput screening’, Reaction Chemistry and Engineering, (8), pp. 1960–1968. Available at: https://doi.org/10.1039/d3re00002h.

Walsh-Korb, Zarah (2023) ‘Designing sustainable consolidants: An evaluation of two bio-based consolidants’, in Stelzner, I.; Hovmand, I. C. (ed.). ICOM: ICOM.

Muff, Julian L. et al. (2022) ‘Surgical Treatment of Short Bowel Syndrome—The Past, the Present and the Future, a Descriptive Review of the Literature’, Children. 10.07.2022, 9(7), p. 1024. Available at: https://doi.org/10.3390/children9071024.

Liu, Haipei et al. (2022) ‘Optimal Sacrificial Domains in Mechanical Polyproteins: S. epidermidis Adhesins Are Tuned for Work Dissipation’, JACS Au, 2(6), pp. 1417–1427. Available at: https://doi.org/10.1021/jacsau.2c00121.

Liu, Zhaowei et al. (2022) ‘Mapping Mechanostable Pulling Geometries of a Therapeutic Anticalin/CTLA-4 Protein Complex’, Nano Letters, 22(1), pp. 179–187. Available at: https://doi.org/10.1021/acs.nanolett.1c03584.

Nash, Michael A. (2022) ‘Elastin-like Polypeptides: Protein-based Polymers for Biopharmaceutical Development’, Chimia, 76(5), pp. 478–479. Available at: https://doi.org/10.2533/chimia.2022.478.

Risser, Fanny, López-Morales, Joanan and Nash, Michael A. (2022) ‘Adhesive Virulence Factors of Staphylococcus aureus Resist Digestion by Coagulation Proteases Thrombin and Plasmin’, ACS Bio & Med Chem Au, 2(6), pp. 586–599. Available at: https://doi.org/10.1021/acsbiomedchemau.2c00042.

Risser, Fanny et al. (2022) ‘Engineered Molecular Therapeutics Targeting Fibrin and the Coagulation System: a Biophysical Perspective’, Biophysical reviews, 14(2), pp. 427–461. Available at: https://doi.org/10.1007/s12551-022-00950-w.

Santos, Mariana Sá et al. (2022) ‘Correlating single-molecule rupture mechanics with cell population adhesion by yeast display’, Biophysical reports, 2(1), p. None. Available at: https://doi.org/10.1016/j.bpr.2021.100035.

Vanella, Rosario et al. (2022) ‘High-throughput screening, next generation sequencing and machine learning: advanced methods in enzyme engineering’, Chemical Communications, 58(15), pp. 2455–2467. Available at: https://doi.org/10.1039/d1cc04635g.

Walsh-Korb, Z. (2022) ‘Sustainability in Heritage Wood Conservation: Challenges and Directions for Future Research’, Forests, 13(1). Available at: https://doi.org/10.3390/f13010018.

Huo, Zihe et al. (2021) ‘Metastatic Esophageal Carcinoma Cells Exhibit Reduced Adhesion Strength and Enhanced Thermogenesis’, Cells, 10(5), p. 1213. Available at: https://doi.org/10.3390/cells10051213.

Nash, Michael A. (2021) ‘Scalable Online Learning in Physical Chemistry’, Chimia, 75(1), pp. 64–66. Available at: https://doi.org/10.2533/chimia.2021.64.

Jensen, Mikkel Herholdt et al. (2020) ‘Stochastic ordering of complexoform protein assembly by genetic circuits’, PLoS Computational Biology, 16(6), p. e1007997. Available at: https://doi.org/10.1371/journal.pcbi.1007997.

Liu, Zhaowei et al. (2020) ‘High force catch bond mechanism of bacterial adhesion in the human gut’, Nature Communications, 11(1), p. 4321. Available at: https://doi.org/10.1038/s41467-020-18063-x.

Nash, Michael A. (2020) ‘Single-molecule and Single-cell Approaches in Molecular Bioengineering’, Chimia, 74(9), pp. 704–709. Available at: https://doi.org/10.2533/chimia.2020.704.

Nash, Michael A. (2020) ‘Zig Zag AFM Protocol Reveals New Intermediate Folding States of Bacteriorhodopsin’, Biophysical journal, 118(3), pp. 538–540. Available at: https://doi.org/10.1016/j.bpj.2019.12.004.

Urosev, Ivan, Lopez Morales, Joanan and Nash, Michael A. (2020) ‘Phase Separation of Intrinsically Disordered Protein Polymers Mechanically Stiffens Fibrin Clots’, Advanced Functional Materials, 30(51), p. 2005245. Available at: https://doi.org/10.1002/adfm.202005245.

Yang, Byeongseon et al. (2020) ‘Influence of Fluorination on Single-Molecule Unfolding and Rupture Pathways of a Mechanostable Protein Adhesion Complex’, Nano Letters, 20(12), pp. 8940–8950. Available at: https://doi.org/10.1021/acs.nanolett.0c04178.

Yang, Byeongseon et al. (2020) ‘Next Generation Methods for Single-Molecule Force Spectroscopy on Polyproteins and Receptor-Ligand Complexes’, Frontiers in Molecular Biosciences, 7, p. 85. Available at: https://doi.org/10.3389/fmolb.2020.00085.

Bernardi, Rafael C. et al. (2019) ‘Mechanisms of Nanonewton Mechanostability in a Protein Complex Revealed by Molecular Dynamics Simulations and Single-Molecule Force Spectroscopy’, Journal of the American Chemical Society, 141(37), pp. 14752–14763. Available at: https://doi.org/10.1021/jacs.9b06776.

Nash, Michael A., Liu, Haipei and Schittny, Valentin (2019) ‘Removal of a Conserved Disulfide Bond Does Not Compromise Mechanical Stability of a VHH Antibody Complex’, Nano letters, 19(8), pp. 5524–5529. Available at: https://doi.org/10.1021/acs.nanolett.9b02062.

Vanella, Rosario et al. (2019) ‘Genetically encoded stimuli-responsive cytoprotective hydrogel capsules for single cells provide novel genotype-phenotype linkage’, Chemistry of Materials, 31(6), pp. 1899–1907. Available at: https://doi.org/10.1021/acs.chemmater.8b04348.

Vanella, Rosario, Ta, Duy Tien and Nash, Michael A. (2019) ‘Enzyme-mediated hydrogel encapsulation of single cells for high-throughput screening and directed evolution of oxidoreductases’, Biotechnology and bioengineering, 116(8), pp. 1878–1886. Available at: https://doi.org/10.1002/bit.27002.

Gunnoo, Melissabye et al. (2018) ‘Steered molecular dynamics simulations reveal the role of Ca2+ in regulating mechanostability of cellulose-binding proteins’, Physical Chemistry Chemical Physics, 20(35), pp. 22674–22680. Available at: https://doi.org/10.1039/c8cp00925b.

Lewis, Daniel D. et al. (2018) ‘Engineered Stochastic Adhesion Between Microbes as a Protection Mechanism Against Environmental Stress’, Cellular and Molecular Bioengineering, 11(5), pp. 367–382. Available at: https://doi.org/10.1007/s12195-018-0552-9.

Liu, Haipei, Ta, Duy Tien and Nash, Michael A. (2018) ‘Mechanical Polyprotein Assembly Using Sfp and Sortase‐Mediated Domain Oligomerization for Single‐Molecule Studies’, Small Methods, 2(6), p. 1800039. Available at: https://doi.org/10.1002/smtd.201800039.

Ta, Duy Tien, Vanella, Rosario and Nash, Michael A. (2018) ‘Bioorthogonal Elastin-like Polypeptide Scaffolds for Immunoassay Enhancement’, ACS Applied Materials and Interfaces, 10(36), pp. 30147–30154. Available at: https://doi.org/10.1021/acsami.8b10092.

Durner, Ellis et al. (2017) ‘Post-translational Sortase-mediated Attachment of High-strength Force Spectroscopy Handles’, ACS Omega, 2(6), pp. 3064–3069. Available at: https://doi.org/10.1021/acsomega.7b00478.

Milles, Lukas Frederik et al. (2017) ‘Mechanical Stability of a High-Affinity Toxin Anchor from the Pathogen Clostridium perfringens’, Journal of Physical Chemistry B, 121(15), pp. 3620–3625. Available at: https://doi.org/10.1021/acs.jpcb.6b09593.

Ott, Wolfgang et al. (2017) ‘Elastin-like Polypeptide Linkers for Single-Molecule Force Spectroscopy’, ACS Nano, 11(6), pp. 6346–6354. Available at: https://doi.org/10.1021/acsnano.7b02694.

Ott, Wolfgang et al. (2017) ‘Single-molecule force spectroscopy on polyproteins and receptor-ligand complexes: The current toolbox’, Journal of Structural Biology, 197(1), pp. 3–12. Available at: https://doi.org/10.1016/j.jsb.2016.02.011.

Ta, Duy Tien, Vanella, Rosario and Nash, Michael A. (2017) ‘Magnetic Separation of Elastin-like Polypeptide Receptors for Enrichment of Cellular and Molecular Targets’, Nano Letters, 17(12), pp. 7932–7939. Available at: https://doi.org/10.1021/acs.nanolett.7b04318.

Verdorfer, Tobias et al. (2017) ‘Combining in Vitro and in Silico Single-Molecule Force Spectroscopy to Characterize and Tune Cellulosomal Scaffoldin Mechanics’, Journal of the American Chemical Society, 139(49), pp. 17841–17852. Available at: https://doi.org/10.1021/jacs.7b07574.

Malinowska, Klara H and Nash, Michael A (2016) ‘Enzyme- and affinity biomolecule-mediated polymerization systems for biological signal amplification and cell screening’, Current Opinion in Biotechnology, 39, pp. 68–75. Available at: https://doi.org/10.1016/j.copbio.2016.01.007.

Nash, Michael A. and Shoseyov, Oded (2016) ‘Editorial overview: Nanobiotechnology at a crossroads: moving beyond proof of concept’, Current Opinion in Biotechnology, 39, pp. vii–ix. Available at: https://doi.org/10.1016/j.copbio.2016.04.024.

Nash, Michael A. et al. (2016) ‘Single versus dual-binding conformations in cellulosomal cohesin-dockerin complexes’, Current Opinion in Structural Biology, 40, pp. 89–96. Available at: https://doi.org/10.1016/j.sbi.2016.08.002.

Ott, Wolfgang et al. (2016) ‘Sequence-Independent Cloning and Post-Translational Modification of Repetitive Protein Polymers through Sortase and Sfp-Mediated Enzymatic Ligation’, Biomacromolecules, 17(4), pp. 1330–8. Available at: https://doi.org/10.1021/acs.biomac.5b01726.

Schoeler, Constantin et al. (2016) ‘Biasing effects of receptor-ligand complexes on protein-unfolding statistics’, Physical review E, 94(4-1), p. 042412. Available at: https://doi.org/10.1103/physreve.94.042412.