Discovering design principles of collagen molecular stability using a genetic algorithm, deep learning, and experimental validation

Predicting the stability of homotrimeric and heterotrimeric collagen helices

(2021) Douglas R. Walker et al.   Nature Chemistry

SMILES Pair Encoding: A Data-Driven Substructure Tokenization Algorithm for Deep Learning

(2021) Xinhao Li et al.   Journal of Chemical Information and Modeling

ColGen: An end-to-end deep learning model to predict thermal stability of de novo collagen sequences

(2021) Chi-Hua Yu et al.   Journal of the Mechanical Behavior of Biomedical Materials

Wave Propagation and Energy Dissipation in Collagen Molecules

(2020) Mario Milazzo et al.   ACS Biomaterials-Science & Engineering

Additive Manufacturing Approaches for Hydroxyapatite‐Reinforced Composites

(2019) Mario Milazzo et al.   ADVANCED FUNCTIONAL MATERIALS

rawMSA: End-to-end Deep Learning using raw Multiple Sequence Alignments

(2019) Claudio Mirabello et al.   PLoS One

Collagen Structure–Function Relationships from Solid-State NMR Spectroscopy

(2018) Ieva Goldberga et al.   ACCOUNTS OF CHEMICAL RESEARCH

Single-Molecule Assay for Proteolytic Susceptibility: Force-Induced Collagen Destabilization

(2018) Michael W.H. Kirkness et al.   BIOPHYSICAL JOURNAL

The triple helix of collagens – an ancient protein structure that enabled animal multicellularity and tissue evolution

(2018) Aaron L. Fidler et al.   JOURNAL OF CELL SCIENCE

Collagen Gly missense mutations: Effect of residue identity on collagen structure and integrin binding

(2018) Yimin Qiu et al.   JOURNAL OF STRUCTURAL BIOLOGY

Computational Protein Design with Deep Learning Neural Networks

(2018) Jingxue Wang et al.   Scientific Reports

Effects of processing on structural, mechanical and biological properties of collagen-based substrates for regenerative medicine

(2018) A. Terzi et al.   Scientific Reports

Dissociated and Reconstituted Cartilage Microparticles in Densified Collagen Induce Local hMSC Differentiation

(2016) Tyler Novak et al.   ADVANCED FUNCTIONAL MATERIALS

Bacterial collagen-like proteins that form triple-helical structures

(2014) Zhuoxin Yu et al.   JOURNAL OF STRUCTURAL BIOLOGY

The Role of Cross-Chain Ionic Interactions for the Stability of Collagen Model Peptides

(2013) Neelam Keshwani et al.   BIOPHYSICAL JOURNAL

A review of combined experimental and computational procedures for assessing biopolymer structure–process–property relationships

(2012) Greta Gronau et al.   BIOMATERIALS

Structural Insights into Charge Pair Interactions in Triple Helical Collagen-like Proteins

(2011) Jorge A. Fallas et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Collagen V is a dominant regulator of collagen fibrillogenesis: dysfunctional regulation of structure and function in a corneal-stroma-specific Col5a1-null mouse model

(2011) M. Sun et al.   JOURNAL OF CELL SCIENCE

Viscoelastic properties of model segments of collagen molecules

(2011) Alfonso Gautieri et al.   MATRIX BIOLOGY

Tensile Properties of Human Collagen Fibrils and Fascicles Are Insensitive to Environmental Salts

(2010) René B. Svensson et al.   BIOPHYSICAL JOURNAL

Location of Glycine Mutations within a Bacterial Collagen Protein Affects Degree of Disruption of Triple-helix Folding and Conformation

(2010) Haiming Cheng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Collagen-Based Biomaterials for Tissue Engineering Applications

(2010) Rémi Parenteau-Bareil et al.   Materials

Collagen Structure and Stability

(2009) Matthew D. Shoulders et al.   Annual Review of Biochemistry

Aromatic Interactions Promote Self-Association of Collagen Triple-Helical Peptides to Higher-Order Structures

(2009) Karunakar Kar et al.   BIOCHEMISTRY

Injectable biodegradable hydrogels with tunable mechanical properties for the stimulation of neurogenesic differentiation of human mesenchymal stem cells in 3D culture

(2009) Li-Shan Wang et al.   BIOMATERIALS

Stress-Strain Experiments on Individual Collagen Fibrils

(2008) Zhilei L. Shen et al.   BIOPHYSICAL JOURNAL

Triple-helical peptides: An approach to collagen conformation, stability, and self-association

(2008) Barbara Brodsky et al.   BIOPOLYMERS

Mechanical Properties of Native and Cross-linked Type I Collagen Fibrils

(2007) Lanti Yang et al.   BIOPHYSICAL JOURNAL