Literature DB >> 33450157

Machine Learning Applied to Determine the Molecular Descriptors Responsible for the Viscosity Behavior of Concentrated Therapeutic Antibodies.

Pin-Kuang Lai1, Amendra Fernando1, Theresa K Cloutier1, Yatin Gokarn2, Jifeng Zhang2, Walter Schwenger2, Ravi Chari2, Cesar Calero-Rubio2, Bernhardt L Trout1.   

Abstract

Predicting the solution viscosity of monoclonal antibody (mAb) drug products remains as one of the main challenges in antibody drug design, manufacturing, and delivery. In this work, the concentration-dependent solution viscosity of 27 FDA-approved mAbs was measured at pH 6.0 in 10 mM histidine-HCl. Six mAbs exhibited high viscosity (>30 cP) in solutions at 150 mg/mL mAb concentration. Combining molecular modeling and machine learning feature selection, we found that the net charge in the mAbs and the amino acid composition in the Fv region are key features which govern the viscosity behavior. For mAbs whose behavior was not dominated by charge effects, we observed that high viscosity is correlated with more hydrophilic and fewer hydrophobic residues in the Fv region. A predictive model based on the net charges of mAbs and a high viscosity index is presented as a fast screening tool for classifying low- and high-viscosity mAbs.

Entities:  

Keywords:  intermolecular interactions; machine learning; molecular modeling; therapeutic antibodies; viscosity

Year:  2021        PMID: 33450157     DOI: 10.1021/acs.molpharmaceut.0c01073

Source DB:  PubMed          Journal:  Mol Pharm        ISSN: 1543-8384            Impact factor:   4.939


  8 in total

Review 1.  Progress and challenges for the machine learning-based design of fit-for-purpose monoclonal antibodies.

Authors:  Rahmad Akbar; Habib Bashour; Puneet Rawat; Philippe A Robert; Eva Smorodina; Tudor-Stefan Cotet; Karine Flem-Karlsen; Robert Frank; Brij Bhushan Mehta; Mai Ha Vu; Talip Zengin; Jose Gutierrez-Marcos; Fridtjof Lund-Johansen; Jan Terje Andersen; Victor Greiff
Journal:  MAbs       Date:  2022 Jan-Dec       Impact factor: 5.857

2.  DeepSCM: An efficient convolutional neural network surrogate model for the screening of therapeutic antibody viscosity.

Authors:  Pin-Kuang Lai
Journal:  Comput Struct Biotechnol J       Date:  2022-04-29       Impact factor: 6.155

3.  Calculation of therapeutic antibody viscosity with coarse-grained models, hydrodynamic calculations and machine learning-based parameters.

Authors:  Pin-Kuang Lai; James W Swan; Bernhardt L Trout
Journal:  MAbs       Date:  2021 Jan-Dec       Impact factor: 5.857

4.  Machine learning prediction of antibody aggregation and viscosity for high concentration formulation development of protein therapeutics.

Authors:  Pin-Kuang Lai; Austin Gallegos; Neil Mody; Hasige A Sathish; Bernhardt L Trout
Journal:  MAbs       Date:  2022 Jan-Dec       Impact factor: 5.857

5.  Impact of IgG subclass on molecular properties of monoclonal antibodies.

Authors:  Yu Tang; Paul Cain; Victor Anguiano; James J Shih; Qing Chai; Yiqing Feng
Journal:  MAbs       Date:  2021 Jan-Dec       Impact factor: 5.857

6.  Structure-based charge calculations for predicting isoelectric point, viscosity, clearance, and profiling antibody therapeutics.

Authors:  Nels Thorsteinson; John R Gunn; Kenneth Kelly; Will Long; Paul Labute
Journal:  MAbs       Date:  2021 Jan-Dec       Impact factor: 5.857

7.  Differences in human IgG1 and IgG4 S228P monoclonal antibodies viscosity and self-interactions: Experimental assessment and computational predictions of domain interactions.

Authors:  Pin-Kuang Lai; Gaurav Ghag; Yao Yu; Veronica Juan; Laurence Fayadat-Dilman; Bernhardt L Trout
Journal:  MAbs       Date:  2021 Jan-Dec       Impact factor: 5.857

8.  Antibody apparent solubility prediction from sequence by transfer learning.

Authors:  Jiangyan Feng; Min Jiang; James Shih; Qing Chai
Journal:  iScience       Date:  2022-09-22
  8 in total

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