Data Analytics Approach for Rational Design of Nanomedicines with Programmable Drug Release.

Drug delivery vehicles can improve the functional efficacy of existing antimicrobial therapies by improving biodistribution and targeting. A critical property of such nanomedicine formulations is their ability to control the release kinetics of their payloads. The combination of (and interactions among) polymer, drug, and nanoparticle properties gives rise to nonlinear behavioral relationships and large data space. These factors complicate both first-principles modeling and screening of nanomedicine formulations. Predictive analytics may offer a more efficient approach toward the rational design of nanomedicines by identifying key descriptors and correlating them to nanoparticle release behavior. In this work, antibiotic release kinetics data were generated from polyanhydride nanoparticle formulations with varying copolymer compositions, encapsulated drug type, and drug loading. Four antibiotics, doxycycline, rifampicin, chloramphenicol, and pyrazinamide, were used. Linear manifold learning methods were used to relate drug release properties with polymer, drug, and nanoparticle properties, and key descriptors were identified that are highly correlated with release properties. However, these linear methods could not predict release behavior. Nonlinear multivariate modeling based on graph theory was then used to deconvolute the governing relationships between these properties, and predictive models were generated to rapidly screen lead nanomedicine formulations with desirable release properties with minimal nanoparticle characterization. Release kinetics predictions of two drugs containing atoms not included in the model showed good agreement with experimental results, validating the model and indicating its potential to virtually explore new polymer and drug pairs not included in the training data set. The models were shown to be robust after the inclusion of these new formulations, in that the new inclusions did not significantly change model regression. This approach provides the first step toward the development of a framework that can be used to rationally design nanomedicine formulations by selecting the appropriate carrier for a drug payload to program desirable release kinetics.

[1]  P. Chongtrakool,et al.  Antimicrobial resistance in Burkholderia pseudomallei. , 2000, Acta tropica.

[2]  Balaji Narasimhan,et al.  Design of an injectable system based on bioerodible polyanhydride microspheres for sustained drug delivery. , 2002, Biomaterials.

[3]  Balaji Narasimhan,et al.  Microsphere size, precipitation kinetics and drug distribution control drug release from biodegradable polyanhydride microspheres. , 2004, Journal of controlled release : official journal of the Controlled Release Society.

[4]  Adam S Mullis,et al.  Automated High-Throughput Synthesis of Protein-Loaded Polyanhydride Nanoparticle Libraries. , 2018, ACS combinatorial science.

[5]  Andrea M Binnebose,et al.  Polyanhydride Nanoparticle Delivery Platform Dramatically Enhances Killing of Filarial Worms , 2015, PLoS neglected tropical diseases.

[6]  S. Thomas,et al.  Overcoming transport barriers for interstitial-, lymphatic-, and lymph node-targeted drug delivery. , 2015, Current opinion in chemical engineering.

[7]  Olga Wodo,et al.  Microstructural informatics for accelerating the discovery of processing–microstructure–property relationships , 2016 .

[8]  Ghaleb A Husseini,et al.  Using Artificial Neural Networks and Model Predictive Control to Optimize Acoustically Assisted Doxorubicin Release from Polymeric Micelles , 2009, Technology in cancer research & treatment.

[9]  S. Broderick,et al.  Activation of innate immune responses in a pathogen-mimicking manner by amphiphilic polyanhydride nanoparticle adjuvants. , 2011, Biomaterials.

[10]  N. Sharma,et al.  An update on polysaccharide-based nanomaterials for antimicrobial applications , 2016, Applied Microbiology and Biotechnology.

[11]  S. Broderick,et al.  Rational Design of Pathogen-Mimicking Amphiphilic Materials as Nanoadjuvants , 2011, Scientific reports.

[12]  B. Narasimhan,et al.  Novel, high throughput method to study in vitro protein release from polymer nanospheres. , 2010, Journal of combinatorial chemistry.

[13]  B. Narasimhan,et al.  Rational Design of Targeted Next-Generation Carriers for Drug and Vaccine Delivery. , 2016, Annual review of biomedical engineering.

[14]  Danh V. Nguyen,et al.  Tumor classification by partial least squares using microarray gene expression data , 2002, Bioinform..

[15]  B. Narasimhan,et al.  High throughput cell-based screening of biodegradable polyanhydride libraries. , 2009, Combinatorial chemistry & high throughput screening.

[16]  J. Sousa,et al.  Unstructured Formulation Data Analysis for the Optimization of Lipid Nanoparticle Drug Delivery Vehicles , 2018, AAPS PharmSciTech.

[17]  Balaji Narasimhan,et al.  Synthesis and characterization of novel polyanhydrides with tailored erosion mechanisms. , 2006, Journal of biomedical materials research. Part A.

[18]  S. Broderick,et al.  Computational discovery of stable M 2 A X phases , 2016 .

[19]  Adam S Mullis,et al.  Nanotherapeutic provides dose sparing and improved antimicrobial activity against Brucella melitensis infections. , 2019, Journal of controlled release : official journal of the Controlled Release Society.

[20]  S. Kalra,et al.  DRUG RESISTANT TUBERCULOSIS. , 1997, Medical journal, Armed Forces India.

[21]  Krishna Rajan,et al.  Identifying the ‘inorganic gene’ for high-temperature piezoelectric perovskites through statistical learning , 2011, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences.

[22]  David S. Wishart,et al.  DrugBank 5.0: a major update to the DrugBank database for 2018 , 2017, Nucleic Acids Res..

[23]  Amanda S Barnard,et al.  Challenges in modelling nanoparticles for drug delivery , 2016, Journal of physics. Condensed matter : an Institute of Physics journal.

[24]  S. Broderick,et al.  Functionalization promotes pathogen-mimicking characteristics of polyanhydride nanoparticle adjuvants. , 2017, Journal of biomedical materials research. Part A.

[25]  B. Bellaire,et al.  Cellular Internalization Mechanisms of Polyanhydride Particles: Implications for Rational Design of Drug Delivery Vehicles. , 2016, Journal of biomedical nanotechnology.

[26]  B. Narasimhan,et al.  Microphase separation in bioerodible copolymers for drug delivery. , 2001, Biomaterials.

[27]  Krishna Rajan,et al.  Mapping Chemical Selection Pathways for Designing Multicomponent Alloys: an informatics framework for materials design , 2015, Scientific Reports.

[28]  B. Narasimhan,et al.  Evaluation of Biocompatibility and Administration Site Reactogenicity of Polyanhydride‐Particle‐Based Platform for Vaccine Delivery , 2013, Advanced healthcare materials.

[29]  Johannes E. Schindelin,et al.  Fiji: an open-source platform for biological-image analysis , 2012, Nature Methods.

[30]  Julio C. Facelli,et al.  A review of the applications of data mining and machine learning for the prediction of biomedical properties of nanoparticles , 2016, Comput. Methods Programs Biomed..

[31]  Giulia Bonacucina,et al.  Determination of factors controlling the particle size and entrapment efficiency of noscapine in PEG/PLA nanoparticles using artificial neural networks , 2014, International journal of nanomedicine.

[32]  R. Howe,et al.  Application of principal component analysis to a full profile correlative analysis of FTIR spectra , 2012 .

[33]  B. Narasimhan,et al.  Sustained release and stabilization of therapeutic antibodies using amphiphilic polyanhydride nanoparticles , 2015 .

[34]  B. Narasimhan,et al.  Mechanistic relationships between polymer microstructure and drug release kinetics in bioerodible polyanhydrides. , 2002, Journal of controlled release : official journal of the Controlled Release Society.

[35]  S. Wold,et al.  PLS-regression: a basic tool of chemometrics , 2001 .

[36]  B. Narasimhan,et al.  Functionalization of polyanhydride microparticles with di-mannose influences uptake by and intracellular fate within dendritic cells. , 2013, Acta biomaterialia.

[37]  B. Prasanthi,et al.  Development and validation of RP-HPLC method for simultaneous estimation of rifampicin, isoniazid and pyrazinamide in human plasma , 2015, Journal of Analytical Chemistry.