30 December 2008 Database for protein adsorption: update on developments
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Abstract
Protein adsorption at solid-liquid interfaces is critical to many applications, including biomaterials, protein microarrays and lab-on-a-chip devices. Despite this general interest, and a large amount of research in the last half a century, protein adsorption cannot be predicted with an engineering level, design-orientated accuracy. Here we describe a Biomolecular Adsorption Database (BAD), freely available online, which archives the published protein adsorption data. Piecewise linear regression with breakpoint applied to the data in the BAD suggests that the input variables to protein adsorption, i.e., protein concentration in solution; protein descriptors derived from primary structure (number of residues, protein hydrophobicity and spread of amino acid hydrophobicity, isoelectric point); surface descriptors (contact angle); and fluid environment descriptors (pH, ionic strength), correlate well with the output variable - the protein concentration on the surface. Furthermore, neural network analysis revealed that the size of the BAD makes it sufficiently representative, with a neural network-based predictive error of 5% or less. Interestingly, a consistently better fit is obtained if the BAD is divided into two separate subsets representing protein adsorption on hydrophilic and hydrophobic surfaces. Based on these findings, selected entries from the BAD have been used to construct neural network-based estimation routines, which predict the amount of adsorbed protein, the thickness of the absorbed layer and the surface tension of the proteincovered surface. While the BAD is of general interest, the prediction of the thickness and the surface tension of the protein-covered layers are of particular relevance to the design of microfluidics devices.
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Ewa Paszek, Elena N. Vasina, Dan V. Nicolau, "Database for protein adsorption: update on developments", Proc. SPIE 7270, Biomedical Applications of Micro- and Nanoengineering IV and Complex Systems, 727003 (30 December 2008); doi: 10.1117/12.816739; https://doi.org/10.1117/12.816739
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