CollagenTransformer: End-to-End Transformer Model to Predict Thermal Stability of Collagen Triple Helices Using an NLP Approach

End-to-End Deep Learning Model to Predict and Design Secondary Structure Content of Structural Proteins

(2022) Chi-Hua Yu et al.   ACS Biomaterials-Science & Engineering

HLAB: learning the BiLSTM features from the ProtBert-encoded proteins for the class I HLA-peptide binding prediction

(2022) Yaqi Zhang et al.   BRIEFINGS IN BIOINFORMATICS

FieldPerceiver: Domain agnostic transformer model to predict multiscale physical fields and nonlinear material properties through neural ologs

(2022) Markus J. Buehler   Materials Today

Fine-tuning of BERT Model to Accurately Predict Drug–Target Interactions

(2022) Hyeunseok Kang et al.   Pharmaceutics

Predicting the stability of homotrimeric and heterotrimeric collagen helices

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

Charge-Free, Stabilizing Amide−π Interactions Can Be Used to Control Collagen Triple-Helix Self-Assembly

(2021) Douglas R. Walker et al.   BIOMACROMOLECULES

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

BERT-Kcr: prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models

(2021) Yanhua Qiao et al.   BIOINFORMATICS

Understanding mutation hotspots for the SARS-CoV-2 spike protein using Shannon Entropy and K-means clustering

(2021) Baishali Mullick et al.   COMPUTERS IN BIOLOGY AND MEDICINE

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

Effect of Solvent on the Hydrodynamic Properties of Collagen

(2021) Katarzyna Lewandowska et al.   Polymers

Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence

(2020) Zhao Qin et al.   Extreme Mechanics Letters

Probing short and long-range interactions in native collagen inside the bone matrix by BioSolids CryoProbe

(2020) Nidhi Tiwari et al.   MAGNETIC RESONANCE IN CHEMISTRY

Effects of flexibility of the α2 chain of type I collagen on collagenase cleavage

(2018) Arya Mekkat et al.   JOURNAL OF STRUCTURAL BIOLOGY

Computational Protein Design with Deep Learning Neural Networks

(2018) Jingxue Wang et al.   Scientific Reports

Bioinspired hierarchical composite design using machine learning: simulation, additive manufacturing, and experiment

(2018) Grace X. Gu et al.   Materials Horizons

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

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

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

Deformation and failure of protein materials in physiologically extreme conditions and disease

(2009) Markus J. Buehler et al.   NATURE MATERIALS

Predicting the Clinical Lethality of Osteogenesis Imperfecta from Collagen Glycine Mutations†

(2008) Dale L. Bodian et al.   BIOCHEMISTRY

Stress-Strain Experiments on Individual Collagen Fibrils

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

Stabilization of the Collagen Triple Helix byO-Methylation of Hydroxyproline Residues

(2008) Frank W. Kotch et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Role of solvents in stability of collagen

(2008) R. Usha et al.   JOURNAL OF THERMAL ANALYSIS AND CALORIMETRY

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

(2007) Lanti Yang et al.   BIOPHYSICAL JOURNAL