Interaction of nanoparticles with biological macromolecules: a review of molecular docking studies

References

• Abou El-Nour, K. M. M., A. Eftaiha, A. Al-Warthan, and R. A. A. Ammar. 2010. “Synthesis and Applications of Silver Nanoparticles.” The Arabian Journal of Chemistry 3 (3): 135–140. doi:10.1016/j.arabjc.2010.04.008.
   Web of Science ®Google Scholar
• Acharya, C., A. Coop, J. E. Polli, and A. D. MacKerell. 2011. “Recent Advances in Ligand-Based Drug Design: Relevance and Utility of the Conformationally Sampled Pharmacophore Approach.” Current Computer-Aided Drug Design 7 (1): 10–22. doi:10.2174/157340911793743547.
   PubMed Web of Science ®Google Scholar
• Adams, J., M. Wright, H. Wagner, J. Valiente, D. Britt, and A. Anderson. 2017. “Cu from Dissolution of CuO Nanoparticles Signals Changes in Root Morphology.” Plant Physiology and Biochemistry 110: 108–117. doi:10.1016/j.plaphy.2016.08.005.
   PubMed Web of Science ®Google Scholar
• Aghili, Z., S. Taheri, H. A. Zeinabad, L. Pishkar, A. A. Saboury, A. Rahimi, and M. Falahati. 2016. “Investigating the Interaction of Fe Nanoparticles with Lysozyme by Biophysical and Molecular Docking Studies.” PLoS One 11 (10): e0164878. doi:10.1371/journal.pone.0164878.
   PubMed Web of Science ®Google Scholar
• Akter, M., M. T. Sikder, M. M. Rahman, A. K. M. A. Ullah, K. F. B. Hossain, S. Banik, T. Hosokawa, T. Saito, and M. Kurasaki. 2018. “A Systematic Review on Silver Nanoparticles-Induced Cytotoxicity: Physicochemical Properties and Perspectives.” Journal of Advanced Research 9: 1–16. doi:10.1016/j.jare.2017.10.008.
   PubMed Web of Science ®Google Scholar
• Ali, K., F. Abul Qais, S. Dwivedi, E. M. Abdel-Salam, S. M. Ansari, Q. Saquib, M. Faisal, A. A. Al-Khedhairy, M. Al-Shaeri, and J. Musarrat. 2018. “Titanium Dioxide Nanoparticles Preferentially Bind in Subdomains IB, IIA of HSA and Minor Groove of DNA.” Journal of Biomolecular Structure and Dynamics 36: 2530–2542. doi:10.1080/07391102.2017.1361339.
   PubMed Web of Science ®Google Scholar
• Ali, S. G., M. A. Ansari, Q. M. Sajid Jamal, H. M. Khan, M. Jalal, H. Ahmad, and A. A. Mahdi. 2017. “Antiquorum Sensing Activity of Silver Nanoparticles in P. aeruginosa: An in Silico Study.” Silico Pharmacology 5: 1–7. doi:10.1007/s40203-017-0031-3.
   Google Scholar
• Ambrosone, A., and C. Tortiglione. 2013. “Methodological Approaches for Nanotoxicology Using Cnidarian Models.” Toxicology Mechanisms and Methods 23: 207–216. doi:10.3109/15376516.2012.747117.
   PubMed Web of Science ®Google Scholar
• Anselmo, A. C., and S. Mitragotri. 2019. “Nanoparticles in the Clinic: An Update.” Bioengineering & Translational Medicine 4: 1–16. doi:10.1002/btm2.10143.
   Web of Science ®Google Scholar
• Arami, S., M. Mahdavi, M. R. Rashidi, R. Yekta, M. Rahnamay, L. Molavi, M. S. Hejazi, and N. Samadi. 2017. “Apoptosis Induction Activity and Molecular Docking Studies of Survivin siRNA Carried by Fe3O4-PEG-Lac-chitosan-PEI Nanoparticles in MCF-7 Human Breast Cancer Cells.” Journal of Pharmaceutical and Biomedical Analysis 142: 145–154. doi:10.1016/j.jpba.2017.04.025.
   PubMed Web of Science ®Google Scholar
• Arora, S., J. M. Rajwade, and K. M. Paknikar. 2012. “Nanotoxicology and in Vitro Studies: The Need of the Hour.” Toxicology and Applied Pharmacology 258: 151–165. doi:10.1016/j.taap.2011.11.010.
   PubMed Web of Science ®Google Scholar
• Asl, B. A., L. Mogharizadeh, N. Khomjani, B. Rasti, S. P. Pishva, K. Akhtari, F. Attar, and M. Falahati. 2018. “Probing the Interaction of Zero Valent Iron Nanoparticles with Blood System by Biophysical, Docking, Cellular, and Molecular Studies.” International Journal of Biological Macromolecules 109: 639–650. doi:10.1016/j.ijbiomac.2017.12.085.
   PubMed Web of Science ®Google Scholar
• Ates, S., E. Zor, I. Akin, H. Bingol, S. Alpaydin, and E. G. Akgemci. 2017. “Discriminative Sensing of DOPA Enantiomers by Cyclodextrin Anchored Graphene Nanohybrids.” Analytica Chimica Acta 970: 30–37. doi:10.1016/j.aca.2017.03.052.
   PubMed Web of Science ®Google Scholar
• Bañobre-López, M., L. García-Hevia, M. F. Cerqueira, F. Rivadulla, and J. Gallo. 2018. “Tunable Performance of Manganese Oxide Nanostructures as MRI Contrast Agents.” Chemistry—A European Journal 24: 1295–1303. doi:10.1002/chem.201704861.
   PubMed Web of Science ®Google Scholar
• Baranowska-Wójcik, E., D. Szwajgier, P. Oleszczuk, and A. Winiarska-Mieczan. 2020. “Effects of Titanium Dioxide Nanoparticles Exposure on Human Health—a Review.” Biological Trace Element Research 193: 118–129. doi:10.1007/s12011-019-01706-6.
   PubMed Web of Science ®Google Scholar
• Barbero, F., L. Russo, M. Vitali, J. Piella, I. Salvo, M. L. Borrajo, M. Busquets-Fité, et al. 2017. “Formation of the Protein Corona: The Interface between Nanoparticles and the Immune System.” Seminars in Immunology 34: 52–60. doi:10.1016/j.smim.2017.10.001.
   PubMed Web of Science ®Google Scholar
• Bayraktar, H., C. C. You, V. M. Rotello, and M. J. Knapp. 2007. “Facial Control of Nanoparticle Binding to Cytochrome c.” Journal of the American Chemical Society 129 (10): 2732–2733. doi:10.1021/ja067497i.
   PubMed Web of Science ®Google Scholar
• Bellah, S. F., H. Akbar, S. M. S. Billah, and D. M. Sedzro. 2018. “The Role of CCL18 Protein in Breast Cancer Development and Progression.” Cell Biology: Research & Therapy 07 (01): 1–10. doi:10.4172/2324-9293.1000138.
   Google Scholar
• Benyamini, H., A. Shulman-Peleg, H. J. Wolfson, B. Belgorodsky, L. Fadeev, and M. Gozin. 2006. “Interaction of C60-Fullerene and Carboxyfullerene with Proteins: Docking and Binding Site Alignment.” Bioconjugate Chemistry 17: 378–386. doi:10.1021/bc050299g.
   PubMed Web of Science ®Google Scholar
• Bertilsson, L., M. L. Dahl, P. Dalén, and A. Al-Shurbaji. 2002. “Molecular Genetics of CYP2D6: Clinical Relevance with Focus on Psychotropic Drugs.” British Journal of Clinical Pharmacology 53: 111–122. doi:10.1046/j.0306-5251.2001.01548.x.
   PubMed Web of Science ®Google Scholar
• Bertoli, F., D. Garry, M. P. Monopoli, A. Salvati, and K. A. Dawson. 2016. “The Intracellular Destiny of the Protein Corona: A Study on Its Cellular Internalization and Evolution.” ACS Nano 10 (11): 10471–10479. doi:10.1021/acsnano.6b06411.
   PubMed Web of Science ®Google Scholar
• Bobo, D., K. J. Robinson, J. Islam, K. J. Thurecht, and S. R. Corrie. 2016. “Nanoparticle-Based Medicines: A Review of FDA-Approved Materials and Clinical Trials to Date.” Pharmaceutical Research 33: 2373–2387. doi:10.1007/s11095-016-1958-5.
   PubMed Web of Science ®Google Scholar
• Brancolini, G., D. B. Kokh, L. Calzolai, R. C. Wade, and S. Corni. 2012. “Docking of Ubiquitin to Gold Nanoparticles.” ACS Nano 6 (11): 9863–9878. doi:10.1021/nn303444b.
   PubMed Web of Science ®Google Scholar
• Buchmeier, N., S. Bossie, C. Y. Chen, F. C. Fang, D. G. Guiney, and S. J. Libby. 1997. “SlyA, a Transcriptional Regulator of Salmonella Typhimurium, is Required for Resistance to Oxidative Stress and is Expressed in the Intracellular Environment of Macrophages.” Infection and Immunity 65 (9): 3725–3730. doi:10.1128/IAI.65.9.3725-3730.1997.
   PubMed Web of Science ®Google Scholar
• Burello, E., and A. Worth. 2011. “Predicting Toxicity of Nanoparticles.” Nature Nanotechnology 6: 138–139. doi:10.1038/nnano.2011.27.
   PubMed Web of Science ®Google Scholar
• Buzea, C., I. I. Pacheco, and K. Robbie. 2007. “Nanomaterials and Nanoparticles: Sources and Toxicity.” Biointerphases 2 (4): MR17–MR71. doi:10.1116/1.2815690.
   PubMed Web of Science ®Google Scholar
• Cao, J., Y. Pan, Y. Jiang, R. Qi, B. Yuan, Z. Jia, J. Jiang, and Q. Wang. 2020. “Computer-Aided Nanotoxicology: risk Assessment of Metal Oxide nanoparticlesvianano-QSAR.” Green Chemistry 22 (11): 3512–3521. doi:10.1039/d0gc00933d.
   Web of Science ®Google Scholar
• Carnal, F., A. Clavier, and S. Stoll. 2016. “Polypeptide-Nanoparticle Interactions and Corona Formation Investigated by Monte Carlo Simulations.” Polymers (Basel) 8 (6): 203. doi:10.3390/polym8060203.
   Web of Science ®Google Scholar
• Cedervall, T., I. Lynch, S. Lindman, T. Berggård, E. Thulin, H. Nilsson, K. A. Dawson, and S. Linse. 2007. “Understanding the Nanoparticle-Protein Corona Using Methods to Quntify Exchange Rates and Affinities of Proteins for Nanoparticles.” Proceedings of the National Academy of Sciences of the United States of America 104: 2050–2055. doi:10.1073/pnas.0608582104.
   PubMed Web of Science ®Google Scholar
• Chang, C. I., W. J. Lee, T. F. Young, S. P. Ju, C. W. Chang, H. L. Chen, and J. G. Chang. 2008. “Adsorption Mechanism of Water Molecules Surrounding Au Nanoparticles of Different Sizes.” Journal of Chemical Physics 128: 154703–154709. doi:10.1063/1.2897931.
   PubMed Web of Science ®Google Scholar
• Chau, K., A. Hennessy, and A. Makris. 2017. “Placental Growth Factor and Pre-Eclampsia.” Journal of Human Hypertension 31: 782–786. doi:10.1038/jhh.2017.61.
   PubMed Web of Science ®Google Scholar
• Chen, L., F. Chang, L. Meng, M. Li, and Z. Zhu. 2014. “A Novel Electrochemical Chiral Sensor for 3,4-Dihydroxyphenylalanine Based on the Combination of Single-Walled Carbon Nanotubes, Sulfuric Acid and Square Wave Voltammetry.” The Analyst 139 (9): 2243–2248. doi:10.1039/c4an00098f.
   PubMed Web of Science ®Google Scholar
• Chia, S. L., and D. T. Leong. 2016. “Reducing ZnO Nanoparticles Toxicity through Silica coating.” Heliyon 2 (10): e00177. doi:10.1016/j.heliyon.2016.e00177.
   PubMed Web of Science ®Google Scholar
• Chibber, S., and I. Ahmed. 2016. “Molecular Docking, a Tool to Determine Interaction of CuO and TiO2 Nanoparticles with Human Serum Albumin.” Biochemistry and Biophysics Reports 31: 782–786. doi:10.1016/j.bbrep.2016.03.004.
   Google Scholar
• Cho, D., K. C. Ko, O. Lamiel-García, S. T. Bromley, J. Y. Lee, and F. Illas. 2016. “Effect of Size and Structure on the Ground-State and Excited-State Electronic Structure of TiO2 Nanoparticles.” Journal of Chemical Theory and Computation 12 (8): 3751–3763. doi:10.1021/acs.jctc.6b00519.
   PubMed Web of Science ®Google Scholar
• Chowdhury, N., and A. Bagchi. 2016. “Molecular Insight into the Activity of LasR Protein from Pseudomonas aeruginosa in the Regulation of Virulence Gene Expression by This Organism.” Gene 580 (1): 80–87. doi:10.1016/j.gene.2015.12.067.
   PubMed Web of Science ®Google Scholar
• Clark, A. J., P. Tiwary, K. Borrelli, S. Feng, E. B. Miller, R. Abel, R. A. Friesner, and B. J. Berne. 2016. “Prediction of Protein-Ligand Binding Poses via a Combination of Induced Fit Docking and Metadynamics Simulations.” Journal of Chemical Theory and Computation 12 (6): 2990–2998. doi:10.1021/acs.jctc.6b00201.
   PubMed Web of Science ®Google Scholar
• Concu, R., V. V. Kleandrova, A. Speck-Planche, and M. N. D. S. Cordeiro. 2017. “Probing the Toxicity of Nanoparticles: A Unified in Silico Machine Learning Model Based on Perturbation Theory.” Nanotoxicology 11 (7): 891–906. doi:10.1080/17435390.2017.1379567.
   PubMed Web of Science ®Google Scholar
• D’Elios, M. M., F. Vallese, N. Capitani, M. Benagiano, M. L. Bernardini, M. Rossi, G. P. Rossi, et al. 2017. “The Helicobacter Cinaedi Antigen CAIP Participates in Atherosclerotic Inflammation by Promoting the Differentiation of Macrophages in Foam Cells.” Scientific Reports 7: 40515–40529. doi:10.1038/srep40515.
   PubMed Web of Science ®Google Scholar
• Darwish, K. M., I. Salama, S. Mostafa, M. S. Gomaa, E.-S. Khafagy, and M. A. Helal. 2018. “Synthesis, Biological Evaluation, and Molecular Docking Investigation of Benzhydrol- and Indole-Based Dual PPAR-γ/FFAR1 Agonists.” Bioorganic & Medicinal Chemistry Letters 28 (9): 1595–1602. doi:10.1016/j.bmcl.2018.03.051.
   Google Scholar
• De Kievit, T. R., R. Gillis, S. Marx, C. Brown, and B. H. Iglewski. 2001. “Quorum-Sensing Genes in Pseudomonas aeruginosa Biofilms: Their Role and Expression Patterns.” Applied and Environmental Microbiology 67 (4): 1865–1873. doi:10.1128/AEM.67.4.1865-1873.2001.
   PubMed Web of Science ®Google Scholar
• De Oliveira Freitas, L. B., L. de Melo Corgosinho, J. A. Q. A. Faria, V. M. dos Santos, J. M. Resende, A. S. Leal, D. A. Gomes, and E. M. B. de Sousa. 2017. “Multifunctional Mesoporous Silica Nanoparticles for Cancer-Targeted, Controlled Drug Delivery and Imaging.” Microporous and Mesoporous Materials 242: 271–283. doi:10.1016/j.micromeso.2017.01.036.
   Web of Science ®Google Scholar
• DeBofsky, A. R., R. H. Klingler, F. X. Mora-Zamorano, M. Walz, B. Shepherd, J. K. Larson, D. Anderson, et al. 2018. “Female Reproductive Impacts of Dietary Methylmercury in Yellow Perch (Perca Flavescens) and Zebrafish (Danio rerio).” Chemosphere 195: 301–311. doi:10.1016/j.chemosphere.2017.12.029.
   PubMed Web of Science ®Google Scholar
• Deeth, R. J., N. Fey, and B. Williams-Hubbard. 2005. “DommiMOE: An Implementation of Ligand Field Molecular Mechanics in the Molecular Operating Environment.” Journal of Computational Chemistry 26 (2): 123–130. doi:10.1002/jcc.20137.
   PubMed Web of Science ®Google Scholar
• Dinarello, C. A. 2018. “Overview of the IL-1 Family in Innate Inflammation and Acquired Immunity.” Immunological Reviews 281 (1): 8–27. doi:10.1111/imr.12621.
   PubMed Web of Science ®Google Scholar
• Rascher-Eggstein, G. R., S. Liebner, and H. Wolburg. 2003. “The Blood-Brain Barrier in the Human Glioma.” In Blood-Spinal Cord and Brain Barriers in Health and Disease. Amsterdam: Elsevier. doi:10.1016/B978-012639011-7/50031-0.
   Google Scholar
• Elkashif, A., and M. N. Seleem. 2020. “Investigation of Auranofin and Gold-Containing Analogues Antibacterial Activity Against Multidrug-Resistant Neisseria gonorrhoeae.” Scientific Reports 10: 5602. doi:10.1038/s41598-020-62696-3.
   Google Scholar
• Emami, F. S., V. Puddu, R. J. Berry, V. Varshney, S. V. Patwardhan, C. C. Perry, and H. Heinz. 2014. “Force Field and a Surface Model Database for Silica to Simulate Interfacial Properties in Atomic Resolution.” Chemistry of Materials 26 (8): 2647–2658. doi:10.1021/cm500365c.
   Web of Science ®Google Scholar
• Fako, V. E., and D. Y. Furgeson. 2009. “Zebrafish as a Correlative and Predictive Model for Assessing Biomaterial Nanotoxicity.” Advanced Drug Delivery Reviews 61: 478–486. doi:10.1016/j.addr.2009.03.008.
   PubMed Web of Science ®Google Scholar
• Fei Yin, Z., L. Wu, H. Gui Yang, and Y. Hua Su. 2013. “Recent Progress in Biomedical Applications of Titanium Dioxide.” Physical Chemistry Chemical Physics 15 (14): 4844. doi:10.1039/c3cp43938k.
   PubMed Web of Science ®Google Scholar
• Feingold, K. R., and C. Grunfeld. 2000. Introduction to Lipids and Lipoproteins. [Updated 2018 Feb 2]. South Dartmouth, MA: Endotext [Internet].
   Google Scholar
• Fleischer, C. C., and C. K. Payne. 2014. “Nanoparticle-Cell Interactions: Molecular Structure of the Protein Corona and Cellular Outcomes.” Accounts of Chemical Research 47 (8): 2651–2659. doi:10.1021/ar500190q.
   PubMed Web of Science ®Google Scholar
• Föger, F., W. Noonpakdee, B. Loretz, S. Joojuntr, W. Salvenmoser, M. Thaler, and A. Bernkop-Schnürch. 2006. “Inhibition of Malarial Topoisomerase II in Plasmodium falciparum by Antisense Nanoparticles.” International Journal of Pharmaceutics 319: 139–146. doi:10.1016/j.ijpharm.2006.03.034.
   PubMed Web of Science ®Google Scholar
• Folli, A. 2010. TiO2 Photocatalysis in Portland Cement Systems: Fundamentals of Self Cleaning Effect and Air Pollution Mitigation.
   Google Scholar
• Fraga, S., A. Brandão, M. E. Soares, T. Morais, J. A. Duarte, L. Pereira, L. Soares, et al. 2014. “Short- and Long-Term Distribution and Toxicity of Gold Nanoparticles in the Rat after a Single-Dose Intravenous Administration.” Nanomedicine: Nanotechnology, Biology and Medicine 10: 1757–1766. doi:10.1016/j.nano.2014.06.005.
   PubMed Web of Science ®Google Scholar
• Franklin, N. M., N. J. Rogers, S. C. Apte, G. E. Batley, G. E. Gadd, and P. S. Casey. 2007. “Comparative Toxicity of Nanoparticulate ZnO, Bulk ZnO, and ZnCl2 to a Freshwater Microalga (Pseudokirchneriella subcapitata): the Importance of Particle Solubility.” Environmental Science & Technology 41 (24): 8484–8490. doi:10.1021/es071445r.
   PubMed Web of Science ®Google Scholar
• Fuchs, E. L., E. D. Brutinel, A. K. Jones, N. B. Fulcher, M. L. Urbanowski, T. L. Yahr, and M. C. Wolfgang. 2010. “The Pseudomonas aeruginosa Vfr Regulator Controls Global Virulence Factor Expression through Cyclic AMP-Dependent and -Independent Mechanisms.” Journal of Bacteriology 192 (14): 3553–3564. doi:10.1128/JB.00363-10.
   PubMed Web of Science ®Google Scholar
• Gajewicz, A., N. Schaeublin, B. Rasulev, S. Hussain, D. Leszczynska, T. Puzyn, and J. Leszczynski. 2015. “Towards Understanding Mechanisms Governing Cytotoxicity of Metal Oxides Nanoparticles: Hints from nano-QSAR Studies.” Nanotoxicology 9 (3): 313–325. doi:10.3109/17435390.2014.930195.
   PubMed Web of Science ®Google Scholar
• Gandhi, S., and I. Roy. 2019. “Synthesis and Characterization of Manganese Ferrite Nanoparticles, and Its Interaction with Bovine Serum Albumin: A Spectroscopic and Molecular Docking Approach.” Journal of Molecular Liquids. 296: 111871. doi:10.1016/j.molliq.2019.111871.
   Web of Science ®Google Scholar
• Geetha, M., A. K. Singh, R. Asokamani, and A. K. Gogia. 2009. “Ti Based Biomaterials, the Ultimate Choice for Orthopaedic implants - A Review.” Progress in Materials Science 54: 397–425. doi:10.1016/j.pmatsci.2008.06.004.
   Web of Science ®Google Scholar
• Ghadari, R. 2016. “A Study on the Interactions of Amino Acids with Nitrogen Doped Graphene; Docking, MD Simulation, and QM/MM Studies.” Physical Chemistry Chemical Physics 18 (6): 4352–4361. doi:10.1039/c5cp06734k.
   PubMed Web of Science ®Google Scholar
• Ghazanfari, M. R., M. Kashefi, S. F. Shams, and M. R. Jaafari. 2016. “Perspective of Fe3O4 Nanoparticles Role in Biomedical Applications.” Biochemistry Research International 2016: 7840161. doi:10.1155/2016/7840161.
   PubMed Web of Science ®Google Scholar
• Gheshlaghi, Z. N., G. H. Riazi, S. Ahmadian, M. Ghafari, and R. Mahinpour. 2008. “Toxicity and Interaction of Titanium Dioxide Nanoparticles with Microtubule Protein.” Acta Biochimica et Biophysica Sinica (Shanghai) 40: 777–782. doi:10.1111/j.1745-7270.2008.00458.x.
   PubMed Web of Science ®Google Scholar
• Giacobini, E. 1956. “Histochemical Demonstration of AChE Activity in Isolated Nerve Cells.” Acta Physiologica Scandinavica 36: 276–290. doi:10.1111/j.1748-1716.1956.tb01325.x.
   PubMedGoogle Scholar
• Giannousi, K., G. Geromichalos, D. Kakolyri, S. Mourdikoudis, and C. Dendrinou-Samara. 2020. “Interaction of ZnO Nanostructures with Proteins: In Vitro Fibrillation/Antifibrillation Studies and in Silico Molecular Docking Simulations.” ACS Chemical Neuroscience 11 (3): 436–444. doi:10.1021/acschemneuro.9b00642.
   PubMed Web of Science ®Google Scholar
• González-Durruthy, M., A. K. Giri, I. Moreira, R. Concu, A. Melo, J. M. Ruso, and M. N. D. S. Cordeiro. 2020. “Computational Modeling on Mitochondrial Channel Nanotoxicity.” Nano Today. 34: 100913. doi:10.1016/j.nantod.2020.100913.
   Web of Science ®Google Scholar
• González-Durruthy, M., J. M. Monserrat, P. Viera De Oliveira, S. B. Fagan, A. V. Werhli, K. Machado, A. Melo, H. González-Díaz, R. Concu, and M. N. D. S. Cordeiro. 2019. “Computational MitoTarget Scanning Based on Topological Vacancies of Single-Walled Carbon Nanotubes with the Human Mitochondrial Voltage-Dependent Anion Channel (hVDAC1).” Chemical Research in Toxicology 32 (4): 566–577. doi:10.1021/acs.chemrestox.8b00266.
   PubMed Web of Science ®Google Scholar
• González-Durruthy, M., S. Manske Nunes, J. Ventura-Lima, M. A. Gelesky, H. González-Díaz, J. M. Monserrat, R. Concu, and M. N. D. S. Cordeiro. 2019. “MitoTarget Modeling Using ANN-Classification Models Based on Fractal SEM Nano-Descriptors: Carbon Nanotubes as Mitochondrial F0F1-ATPase Inhibitors.” Journal of Chemical Information and Modeling 59 (1): 86–97. doi:10.1021/acs.jcim.8b00631.
   PubMed Web of Science ®Google Scholar
• Gonzalez-Moragas, L., A. Roig, and A. Laromaine. 2015. “C. elegans as a Tool for in Vivo Nanoparticle Assessment.” Advances in Colloid and Interface Science 219: 10–26. doi:10.1016/j.cis.2015.02.001.
   PubMed Web of Science ®Google Scholar
• Greenlund, L. J. S., T. L. Deckwerth, and E. M. Johnson. 1995. “Superoxide Dismutase Delays Neuronal Apoptosis: A Role for Reactive Oxygen Species in Programmed Neuronal Death.” Neuron 14 (2): 303–315. doi:10.1016/0896-6273(95)90287-2.
   PubMed Web of Science ®Google Scholar
• Greish, K., G. Thiagarajan, and H. Ghandehari. 2012. “In Vivo Methods of Nanotoxicology.” Methods in Molecular Biology: 235–253. doi:10.1007/978-1-62703-2-1_17.
   PubMedGoogle Scholar
• Grigore, M. E., E. R. Biscu, A. M. Holban, M. C. Gestal, and A. M. Grumezescu. 2016. “Methods of Synthesis, Properties and Biomedical Applications of CuO Nanoparticles.” Pharmaceuticals 9 (4): 75. doi:10.3390/ph9040075.
   Web of Science ®Google Scholar
• Guessous, I., M. Dobrinas, Z. Kutalik, M. Pruijm, G. Ehret, M. Maillard, S. Bergmann, et al. 2012. “Caffeine Intake and CYP1A2 Variants Associated with High Caffeine Intake Protect Non-Smokers from Hypertension.” Human Molecular Genetics 21: 3283–3292. doi:10.1093/hmg/dds137.
   PubMed Web of Science ®Google Scholar
• Gulnik, S., J. W. Erickson, and D. Xie. 2000. “HIV Protease: Enzyme Function and Drug Resistance.” Vitamins and Hormones 58: 213–256. doi:10.1016/s0083-6729(00)58026-1.
   PubMed Web of Science ®Google Scholar
• Guo, Y. G., J. S. Hu, and L. J. Wan. 2008. “Nanostructured Materials for Electrochemical Energy Conversion and Storage Devices.” Advanced Materials 20 (15): 2878–2887. https://doi.org/10.1002/adma.200890061. doi:10.1002/adma.200800627.
   Web of Science ®Google Scholar
• Gupta, R., and H. Xie. 2018. “Nanoparticles in Daily Life: Applications, Toxicity and Regulations.” Journal of Environmental Pathology, Toxicology and Oncology 37: 209–230. doi:10.1615/JEnvironPatholToxicolOncol.2018026009.
   PubMed Web of Science ®Google Scholar
• Gurusamy, U., and D. G. Shewade. 2014. “Pharmacogenomics in India.” In Handbook of Pharmacogenomics and Stratified Medicine, 1037–1059. doi:10.1016/B978-0-12-386882-4.00046-3.
   Google Scholar
• Guttman, B., R. Raya, and E. Kutter. 2004. “Bacteriophages Biology and Applications.” Bacteriophages Biology and Applications: 29–66. doi:10.1201/9780203491751.ch3.
   Google Scholar
• Haider, A. J., R. H. Al-Anbari, G. R. Kadhim, and C. T. Salame. 2017. “Exploring Potential Environmental Applications of TiO2 Nanoparticles.” Energy Procedia. 119: 332–345. doi:10.1016/j.egypro.2017.07.117.
   Google Scholar
• Halder, A. K., A. Melo, and M. N. D. S. Cordeiro. 2020. “A Unified in Silico Model Based on Perturbation Theory for Assessing the Genotoxicity of Metal Oxide Nanoparticles.” Chemosphere 244: 125489. doi:10.1016/j.chemosphere.2019.125489.
   PubMed Web of Science ®Google Scholar
• Haley, B., and E. Frenkel. 2008. “Nanoparticles for Drug Delivery in Cancer Treatment.” Urologic Oncology: Seminars and Original Investigations 26: 57–64. doi:10.1016/j.urolonc.2007.03.015.
   PubMed Web of Science ®Google Scholar
• Handral, H. K., H. J. Tong, I. Islam, G. Sriram, V. Rosa, and T. Cao. 2016. “Pluripotent Stem Cells: An in Vitro Model for Nanotoxicity Assessments.” Journal of Applied Toxicology 36 (10): 1250–1258. doi:10.1002/jat.3347.
   PubMed Web of Science ®Google Scholar
• Hansen-Wester, I., B. Stecher, and M. Hensel. 2002. “Type III Secretion of Salmonella enterica Serovar Typhimurium Translocated Effectors and SseFG.” Infection and Immunity 70 (3): 1403–1409. doi:10.1128/iai.70.3.1403-1409.2002.
   PubMed Web of Science ®Google Scholar
• Harada, A., N. Sekido, T. Akahoshi, T. Wada, N. Mukaida, and K. Matsushima. 1994. “Essential Involvement of Interleukin-8 (IL-8) in Acute Inflammation.” Journal of Leukocyte Biology 56 (5): 559–564. doi:10.1002/jlb.56.5.559.
   PubMed Web of Science ®Google Scholar
• He, P., B. G. Ng, M. E. Losfeld, W. Zhu, and H. H. Freeze. 2012. “Identification of Intercellular Cell Adhesion Molecule 1 (ICAM-1) as a Hypoglycosylation Marker in Congenital Disorders of Glycosylation Cells.” The Journal of Biological Chemistry 287 (22): 18210–18217. doi:10.1074/jbc.M112.355677.
   PubMed Web of Science ®Google Scholar
• Heinz, H.,. R. A. Vaia, B. L. Farmer, and R. R. Naik. 2008. “Accurate Simulation of Surfaces and Interfaces of Face-Centered Cubic Metals Using 12-6 and 9-6 Lennard-Jones Potentials.” The Journal of Physical Chemistry C 112 (44): 17281–17290. doi:10.1021/jp801931d.
   Web of Science ®Google Scholar
• Heinz, H.,. T. J. Lin, R. Kishore Mishra, and F. S. Emami. 2013. “Thermodynamically Consistent Force Fields for the Assembly of Inorganic, Organic, and Biological Nanostructures: The INTERFACE Force Field.” Langmuir : The ACS Journal of Surfaces and Colloids 29 (6): 1754–1765. doi:10.1021/la3038846.
   PubMed Web of Science ®Google Scholar
• Heit, C., H. Dong, Y. Chen, D. C. Thompson, R. A. Deitrich, and V. K. Vasiliou. 2013. “The Role of CYP2E1 in Alcohol Metabolism and Sensitivity in the Central Nervous System.” Subcellular Biochemistry 67: 235–247. doi:10.1007/978-94-007-5881-0_8.
   PubMedGoogle Scholar
• Helal, M. A., S. Khalifa, and S. Ahmed. 2013. “Differential Binding of Latrunculins to G-Actin: A Molecular Dynamics Study.” Journal of Chemical Information and Modeling 53 (9): 2369–2375. doi:10.1021/ci400317j.
   PubMed Web of Science ®Google Scholar
• Her, S., D. A. Jaffray, and C. Allen. 2017. “Gold Nanoparticles for Applications in Cancer Radiotherapy: Mechanisms and Recent Advancements.” Advanced Drug Delivery Reviews: 84–101. doi:10.1016/j.addr.2015.12.012.
   Web of Science ®Google Scholar
• Hola, K., Z. Markova, G. Zoppellaro, J. Tucek, and R. Zboril. 2015. “Tailored Functionalization of Iron Oxide Nanoparticles for MRI, Drug Delivery, Magnetic Separation and Immobilization of Biosubstances.” Biotechnology Advances 33: 1162–1176. doi:10.1016/j.biotechadv.2015.02.003.
   PubMed Web of Science ®Google Scholar
• Huang, H., X. Shao, Y. Xie, T. Wang, Y. Zhang, X. Wang, and X. Deng. 2019. “An Integrated Genomic Regulatory Network of Virulence-Related Transcriptional Factors in Pseudomonas aeruginosa.” Nature Communications 1–13. doi:10.1038/s41467-019-10778-w.
   Web of Science ®Google Scholar
• Iram, N. E., M. S. Khan, R. Jolly, M. Arshad, M. Alam, P. Alam, R. H. Khan, and F. Firdaus. 2015. “Interaction Mode of Polycarbazole-Titanium Dioxide Nanocomposite with DNA: Molecular Docking Simulation and In-Vitro Antimicrobial Study.” Journal of Photochemistry and Photobiology B: Biology 153: 20–32. doi:10.1016/j.jphotobiol.2015.09.001.
   PubMed Web of Science ®Google Scholar
• Jaiswal, P. K., A. Goel, and R. D. Mittal. 2015. “Survivin: A Molecular Biomarker in Cancer.” Indian Journal of Medical Research 141 (4): 389–397.
   PubMed Web of Science ®Google Scholar
• Jasiecki, J., and B. Wasąg. 2019. “Butyrylcholinesterase Protein Ends in the Pathogenesis of Alzheimer’s Disease—Could BCHE Genotyping Be Helpful in Alzheimer’s Therapy?” Biomolecules 9 (10): 592. doi:10.3390/biom9100592.
   PubMed Web of Science ®Google Scholar
• Java, A., M. K. Liszewski, D. E. Hourcade, F. Zhang, and J. P. Atkinson. 2015. “Role of Complement Receptor 1 (CR1; CD35) on Epithelial Cells: A Model for Understanding Complement-Mediated Damage in the Kidney.” Molecular Immunology 67: 584–595. doi:10.1016/j.molimm.2015.07.016.
   PubMed Web of Science ®Google Scholar
• Jo, S., T. Kim, V. G. Iyer, and W. Im. 2008. “CHARMM-GUI: A Web-Based Graphical User Interface for CHARMM.” Journal of Computational Chemistry 29 (11): 1859–1865. doi:10.1002/jcc.20945.
   PubMed Web of Science ®Google Scholar
• Jorgensen, W. L., and J. Tirado-Rives. 1988. “The OPLS Potential Functions for Proteins. Energy Minimizations for Crystals of Cyclic Peptides and Crambin.” Journal of the American Chemical Society 110 (6): 1657–1666. doi:10.1021/ja00214a001.
   PubMed Web of Science ®Google Scholar
• Józsi, M., J. Prechl, Z. Bajtay, and A. Erdei. 2002. “Complement Receptor Type 1 (CD35) Mediates Inhibitory Signals in Human B Lymphocytes.” Journal of Immunology 168 (6): 2782–2788. doi:10.4049/jimmunol.168.6.2782.
   PubMed Web of Science ®Google Scholar
• Karakoti, A. S., L. L. Hench, and S. Seal. 2006. “The Potential Toxicity of nanomaterials - The Role of Surfaces.” Jom Journal of the Minerals Metals and Materials Society. 58 (7): 77–82. doi:10.1007/s11837-006-0147-0.
   Web of Science ®Google Scholar
• Karlsson, H. L., M. S. Toprak, and B. Fadeel. 2015. "Toxicity of Metal and Metal Oxide Nanoparticles." In Handbook on the Toxicology of Metals: Toxicity of Metal and Metal Oxide Nanoparticles. 4th ed. Vol. 1, 75–112. doi:10.1016/B978-0-444-59453-2.00004-4.
   Google Scholar
• Karmali, P. P., and D. Simberg. 2011. “Interactions of Nanoparticles with Plasma Proteins: Implication on Clearance and Toxicity of Drug Delivery Systems.” Expert Opinion on Drug Delivery 8: 343–357. doi:10.1517/17425247.2011.554818.
   PubMed Web of Science ®Google Scholar
• Kaushik, A. C., Y. J. Wang, X. Wang, A. Kumar, S. P. Singh, C. T. Pan, Y. L. Shiue, and D. Q. Wei. 2019. “Evaluation of Anti-EGFR-iRGD Recombinant Protein with GOLD Nanoparticles: Synergistic Effect on Antitumor Efficiency Using Optimized Deep Neural Networks.” RSC Advances 9 (34): 19261–19270. doi:10.1039/c9ra01975h.
   Web of Science ®Google Scholar
• Ke, P. C., S. Lin, W. J. Parak, T. P. Davis, and F. Caruso. 2017. “A Decade of the Protein Corona.” ACS Nano 11 (12): 11773–11776. doi:10.1021/acsnano.7b08008.
   PubMed Web of Science ®Google Scholar
• Keighron, J. D., S. Åkesson, and A. S. Cans. 2014. “Coimmobilization of Acetylcholinesterase and Choline Oxidase on Gold Nanoparticles: Stoichiometry, Activity, and Reaction Efficiency.” Langmuir 30 (38): 11348–11355. doi:10.1021/la502538h.
   PubMed Web of Science ®Google Scholar
• Khalil, A. T., M. Ayaz, M. Ovais, A. Wadood, M. Ali, Z. K. Shinwari, and M. Maaza. 2018. “In Vitro Cholinesterase Enzymes Inhibitory Potential and in Silico Molecular Docking Studies of Biogenic Metal Oxides Nanoparticles.” Inorganic and Nano-Metal Chemistry 48: 441–448. doi:10.1080/24701556.2019.1569686.
   Web of Science ®Google Scholar
• Khan, M. R., K. M. Fromm, T. F. Rizvi, B. Giese, F. Ahamad, R. J. Turner, M. Füeg, and E. Marsili. 2020. “Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects, Part.” Particle & Particle Systems Characterization 37 (5): 1900419. doi:10.1002/ppsc.201900419.
   Web of Science ®Google Scholar
• Kim, Y. G., J. H. Kim, and K. J. Kim. 2009. “Crystal Structure of the Salmonella enterica Serovar Typhimurium Virulence Factor SrfJ, a Glycoside Hydrolase Family Enzyme.” Journal of Bacteriology 191 (21): 6550–6554. doi:10.1128/JB.00641-09.
   PubMed Web of Science ®Google Scholar
• Kohl, N. E., E. A. Emini, W. A. Schleif, L. J. Davis, J. C. Heimbach, R. A. F. Dixon, E. M. Scolnick, and I. S. Sigal. 1988. “Active Human Immunodeficiency Virus Protease is Required for Viral infectivity.” Proceedings of the National Academy of Sciences of the United States of America 85 (13): 4686–4690. doi:10.1073/pnas.85.13.4686.
   PubMed Web of Science ®Google Scholar
• Kolarova, M., F. García-Sierra, A. Bartos, J. Ricny, and D. Ripova. 2012. “Structure and Pathology of Tau Protein in Alzheimer Disease.” International Journal of Alzheimer's Disease 2012: 731526. doi:10.1155/2012/731526.
   PubMedGoogle Scholar
• Kotzabasaki, M. I., I. Sotiropoulos, and H. Sarimveis. 2020. “QSAR Modeling of the Toxicity Classification of Superparamagnetic Iron Oxide Nanoparticles (SPIONs) in Stem-Cell Monitoring Applications: An Integrated Study from Data Curation to Model Development.” RSC Advances 10 (9): 5385–5391. doi:10.1039/c9ra09475j.
   Web of Science ®Google Scholar
• Krug, H. F., and P. Wick. 2011. “Nanotoxicology: An Interdisciplinary Challenge.” Angewandte Chemie International Edition 50: 1260–1278. doi:10.1002/anie.201001037.
   PubMed Web of Science ®Google Scholar
• Kumar, A., A. Dhawan, and R. Shanker. 2011. “The Need for Novel Approaches in Ecotoxicity of Engineered Nanomaterials.” Journal of Biomedical Nanotechnology. doi:10.1166/jbn.2011.1211.
   Web of Science ®Google Scholar
• Kumar, S., I. Yadav, V. K. Aswal, and J. Kohlbrecher. 2018. “Structure and Interaction of Nanoparticle-Protein Complexes.” Langmuir : The ACS Journal of Surfaces and Colloids 34 (20): 5679–5695. doi:10.1021/acs.langmuir.8b00110.
   PubMed Web of Science ®Google Scholar
• Kumari, P., P. K. Panda, E. Jha, K. Kumari, K. Nisha, M. A. Mallick, and S. K. Verma. 2017. “Mechanistic Insight to ROS and Apoptosis Regulated Cytotoxicity Inferred by Green Synthesized CuO Nanoparticles from Calotropis Gigantea to Embryonic Zebrafish.” Scientific Reports 7: 1–17. doi:10.1038/s41598-017-16581-1.
   PubMed Web of Science ®Google Scholar
• Kyriakides, T. R., D. Wulsin, E. A. Skokos, P. Fleckman, A. Pirrone, J. M. Shipley, R. M. Senior, and P. Bornstein. 2009. “Mice That Lack Matrix Metalloproteinase-9 Display Delayed Wound Healing Associated with Delayed Reepithelization and Disordered Collagen Fibrillogenesis.” Matrix Biology 28: 65–73. doi:10.1016/j.matbio.2009.01.001.
   PubMed Web of Science ®Google Scholar
• Lawrence, T. 2009. “The Nuclear Factor NF-kappaB Pathway in Inflammation.” Cold Spring Harbor Perspectives in Biology 1 (6): a001651. doi:10.1101/cshperspect.a001651.
   PubMed Web of Science ®Google Scholar
• Ledesma, A. E., D. M. Chemes, M. de los, A. Frías, and M. del P. Guauque Torres. 2017. “Spectroscopic Characterization and Docking Studies of ZnO Nanoparticle Modified with BSA.” Applied Surface Science 412: 177–188. doi:10.1016/j.apsusc.2017.03.202.
   Web of Science ®Google Scholar
• Leifert, A., Y. Pan, A. Kinkeldey, F. Schiefer, J. Setzler, O. Scheel, H. Lichtenbeld, et al. 2013. “Differential hERG Ion Channel Activity of Ultrasmall Gold Nanoparticles.” Proceedings of the National Academy of Sciences of the United States of America 110: 8004–8009. doi:10.1073/pnas.1220143110.
   PubMed Web of Science ®Google Scholar
• Lewinski, N., V. Colvin, and R. Drezek. 2008. “Cytotoxicity of Nanopartides.” Small 4 (1): 26–49. doi:10.1002/smll.200700595.
   PubMed Web of Science ®Google Scholar
• Li, J., Y. Song, R. D. Vogt, Y. Liu, J. Luo, and T. Li. 2020. “Bioavailability and Cytotoxicity of Cerium- (IV), Copper- (II), and Zinc Oxide Nanoparticles to Human Intestinal and Liver Cells THROUGH FOOD.” The Science of the Total Environment 702: 134700. doi:10.1016/j.scitotenv.2019.134700.
   PubMed Web of Science ®Google Scholar
• Li, Y., M. Hong, Y. Lin, Q. Bin, Z. Lin, Z. Cai, and G. Chen. 2012. “Highly Sensitive Electrochemical Immunoassay for H1N1 Influenza Virus Based on Copper-Mediated Amplification.” Chemical Communications (Cambridge, England) 48 (52): 6562–6564. doi:10.1039/c2cc31990j.
   PubMed Web of Science ®Google Scholar
• Lin, A. H. M., B. H. Lee, B. L. Nichols, R. Quezada-Calvillo, D. R. Rose, H. Y. Naim, and B. R. Hamaker. 2012. “Starch Source Influences Dietary Glucose Generation at the Mucosal α-Glucosidase Level.” The Journal of Biological Chemistry 287 (44): 36917–36921. doi:10.1074/jbc.M112.378331.
   PubMed Web of Science ®Google Scholar
• Lin, S. L., T. X. Le, and D. S. Cowen. 2003. “SptP, a Salmonella Typhimurium Type III-Secreted Protein, Inhibits the Mitogen-Activated Protein Kinase Pathway by Inhibiting Raf Activation.” Cellular Microbiology. 5: 267–275. doi:10.1046/j.1462-5822.2003.t01-1-00274.x.
   PubMed Web of Science ®Google Scholar
• Lin, T. J., and H. Heinz. 2016. “Accurate Force Field Parameters and pH Resolved Surface Models for Hydroxyapatite to Understand Structure, Mechanics, Hydration, and Biological Interfaces.” The Journal of Physical Chemistry C 120 (9): 4975–4992. doi:10.1021/acs.jpcc.5b12504.
   Web of Science ®Google Scholar
• Lintz, M. J., K. I. Oinuma, C. L. Wysoczynski, E. P. Greenberg, and M. E. A. Churchill. 2011. “Crystal Structure of QscR, a Pseudomonas aeruginosa Quorum Sensing Signal Receptor.” Proceedings of the National Academy of Sciences of the United States of America 108: 15763–15768. doi:10.1073/pnas.1112398108.
   PubMedGoogle Scholar
• Liu, T., L. Zhang, D. Joo, and S. C. Sun. 2017. “NF-κB Signaling in Inflammation.” Signal Transduction and Targeted Therapy. doi:10.1038/sigtrans.2017.23.
   Web of Science ®Google Scholar
• Liu, Y., B. Yan, D. A. Winkler, J. Fu, and A. Zhang. 2017. “Competitive Inhibition Mechanism of Acetylcholinesterase Without Catalytic Active Site Interaction: Study on Functionalized C60 Nanoparticles via In Vitro and In Silico Assays.” ACS Applied Materials & Interfaces 9 (22): 18626–44954. doi:10.1021/acsami.7b05459.
   PubMed Web of Science ®Google Scholar
• Luan, F., L. Tang, L. Zhang, S. Zhang, M. C. Monteagudo, and M. N. D. S. Cordeiro. 2018. “A Further Development of the QNAR Model to Predict the Cellular Uptake of Nanoparticles by Pancreatic Cancer Cells.” Food and Chemical Toxicology 112: 571–580. doi:10.1016/j.fct.2017.04.010.
   PubMed Web of Science ®Google Scholar
• Lundqvist, M., J. Stigler, G. Elia, I. Lynch, T. Cedervall, and K. A. Dawson. 2008. “Nanoparticle Size and Surface Properties Determine the Protein Corona with Possible Implications for Biological Impacts.” Proceedings of the National Academy of Sciences of the United States of America 105: 14265–14270. doi:10.1073/pnas.0805135105.
   PubMed Web of Science ®Google Scholar
• Ma, Y., R. P. Iyer, L. E. de Castro Brás, H. Toba, A. Yabluchanskiy, K. Y. Deleon-Pennell, M. E. Hall, R. A. Lange, and M. L. Lindsey. 2015. “Cross Talk between Inflammation and Extracellular Matrix following Myocardial Infarction.” In Inflammation in Heart Failure 4: 67. doi:10.1016/b978-0-12-800039-7.00004-9.
   Google Scholar
• MacCormack, T. J., R. J. Clark, M. K. M. Dang, G. Ma, J. A. Kelly, J. G. C. Veinot, and G. G. Goss. 2012. “Inhibition of Enzyme Activity by Nanomaterials: Potential Mechanisms and Implications for Nanotoxicity Testing.” Nanotoxicology 6 (5): 514–525. doi:10.3109/17435390.2011.587904.
   PubMed Web of Science ®Google Scholar
• Mahendra, R., G. Aniket, A. P. Ingle, G. Indarchand, P. Raksha, and C. A. dos Santos. 2018. “Nanotoxicity to Agroecosystem: Impact on Soil and Agriculture.” In Emerging Trends in Agri-Nanotechnology: Fundamental and Applied Aspects: 102–117. doi:10.1079/9781786391445.0102.
   Google Scholar
• Makarucha, A. J., N. Todorova, and I. Yarovsky. 2011. “Nanomaterials in Biological Environment: A Review of Computer Modelling Studies.” European Biophysics Journal: 103–115. doi:10.1007/s00249-010-0651-6.
   PubMed Web of Science ®Google Scholar
• Makridis, A., K. Topouridou, M. Tziomaki, D. Sakellari, K. Simeonidis, M. Angelakeris, M. P. Yavropoulou, J. G. Yovos, and O. Kalogirou. 2014. “In Vitro Application of Mn-Ferrite Nanoparticles as Novel Magnetic Hyperthermia Agents.” Journal of Materials Chemistry. B 2 (47): 8390–8398. doi:10.1039/c4tb01017e.
   PubMed Web of Science ®Google Scholar
• Malekshah, R. E., B. Fahimirad, and A. Khaleghian. 2020. “Synthesis, Characterization, Biomedical Application, Molecular Dynamic Simulation and Molecular Docking of Schiff Base Complex of Cu(II) Supported on Fe3O4/SiO2/APTS.” International Journal of Nanomedicine 15: 2583–2603. doi:10.2147/IJN.S231062.
   PubMed Web of Science ®Google Scholar
• Manke, A., L. Wang, and Y. Rojanasakul. 2013. “Mechanisms of Nanoparticle-Induced Oxidative Stress and Toxicity.” BioMed Research International 2013: 942916. doi:10.1155/2013/942916.
   PubMed Web of Science ®Google Scholar
• Matejczyk, A. 2013. “Analysis of the Minimal Promoter from the Hatching Enzyme a Gene.” Loyola eCommons. Master Thesis, 1462.
   Google Scholar
• McShan, D., P. C. Ray, and H. Yu. 2014. “Molecular Toxicity Mechanism of Nanosilver.” Journal of Food and Drug Analysis  22:116–127. doi:10.1016/j.jfda.2014.01.010.
   PubMed Web of Science ®Google Scholar
• Medina, G., K. Juárez, R. Díaz, and G. Soberón-Chávez. 2003. “Transcriptional Regulation of Pseudomonas aeruginosa rhlR, Encoding a Quorum-Sensing Regulatory Protein.” Microbiology (Reading, England) 149 (Pt 11): 3073–3081. doi:10.1099/mic.0.26282-0.
   PubMedGoogle Scholar
• Mehdizadeh, P., S. S. H. Fesharaki, M. Nouri, M. Ale-Ebrahim, K. Akhtari, K. Shahpasand, A. A. Saboury, and M. Falahati. 2019. “Tau Folding and Cytotoxicity of Neuroblastoma Cells in the Presence of Manganese Oxide Nanoparticles: Biophysical, Molecular Dynamics, Cellular, and Molecular Studies.” International Journal of Biological Macromolecules 125: 674–668. doi:10.1016/j.ijbiomac.2018.11.191.
   PubMed Web of Science ®Google Scholar
• Memarpoor-Yazdi, M., A. Asoodeh, and J. K. Chamani. 2012. “A Novel Antioxidant and Antimicrobial Peptide from Hen Egg White Lysozyme Hydrolysates.” Journal of Functional Foods 4: 278–286. doi:10.1016/j.jff.2011.12.004.
   Web of Science ®Google Scholar
• Mirza, S., M. S. Ahmad, M. I. A. Shah, and M. Ateeq. 2020. “Magnetic Nanoparticles: Drug Delivery and Bioimaging Applications.” In Metal Nanoparticles for Drug Delivery and Diagnostic Applications: 189–213. doi:10.1016/b978-0-12-816960-5.00011-2.
   Google Scholar
• Monopoli, M. P., C. Åberg, A. Salvati, and K. A. Dawson. 2012. “Biomolecular Coronas Provide the Biological Identity of Nanosized Materials.” Nature Nanotechnology 7: 779–786. doi:10.1038/nnano.2012.207.
   PubMed Web of Science ®Google Scholar
• Mortensen, N. P., G. B. Hurst, W. Wang, C. M. Foster, P. D. Nallathamby, and S. T. Retterer. 2013. “Dynamic Development of the Protein Corona on Silica Nanoparticles: Composition and Role in Toxicity.” Nanoscale 5 (14): 6372–6380. doi:10.1039/c3nr33280b.
   PubMed Web of Science ®Google Scholar
• Moye, A. L., K. C. Porter, S. B. Cohen, T. Phan, K. G. Zyner, N. Sasaki, G. O. Lovrecz, J. L. Beck, and T. M. Bryan. 2015. “Telomeric G-Quadruplexes Are a Substrate and Site of Localization for Human Telomerase.” Nature Communications 6: 7643. doi:10.1038/ncomms8643.
   PubMed Web of Science ®Google Scholar
• Mu, Q., G. Jiang, L. Chen, H. Zhou, D. Fourches, A. Tropsha, and B. Yan. 2014. “Chemical Basis of Interactions between Engineered Nanoparticles and Biological Systems.” Chemical Reviews 114 (15): 7740–7781. doi:10.1021/cr400295a.
   PubMed Web of Science ®Google Scholar
• Mu, Y., F. Wu, Q. Zhao, R. Ji, Y. Qie, Y. Zhou, Y. Hu, et al. 2016. “Predicting Toxic Potencies of Metal Oxide Nanoparticles by Means of Nano-QSARs.” Nanotoxicology 10 (9): 1207–1214. doi:10.1080/17435390.2016.1202352.
   PubMed Web of Science ®Google Scholar
• Muoth, C., A. Wichser, M. Monopoli, M. Correia, N. Ehrlich, K. Loeschner, A. Gallud, et al. 2016. “A 3D Co-Culture Microtissue Model of the Human Placenta for Nanotoxicity Assessment.” Nanoscale 8 (39): 17322–17332. doi:10.1039/c6nr06749b.
   PubMed Web of Science ®Google Scholar
• Nami, S. A. A., M. Arshad, M. S. Khan, M. Alam, D. U. Lee, S. Park, and N. Sarikavakli. 2015. “Morphological, Structural, Molecular Docking and Biocidal Studies of Newly Synthesized Ppy-MA/TiO2 Nanocomposites.” Polymers for Advanced Technologies 26 (12): 1627–1638. doi:10.1002/pat.3591.
   Web of Science ®Google Scholar
• Nel, A., T. Xia, L. Mädler, and N. Li. 2006. “Toxic Potential of Materials at the Nanolevel.” Science (New York, N.Y.) 311 (5761): 622–627. doi:10.1126/science.1114397.
   PubMed Web of Science ®Google Scholar
• Nishio, M., N. Okada, T. Miki, T. Haneda, and H. Danbara. 2005. “Identification of the Outer-Membrane Protein PagC Required for the Serum Resistance Phenotype in Salmonella enterica Serovar Choleraesuis.” Microbiology (Reading, England) 151 (Pt 3): 863–873. doi:10.1099/mic.0.27654-0.
   PubMed Web of Science ®Google Scholar
• Oksel, C., D. A. Winkler, C. Y. Ma, T. Wilkins, and X. Z. Wang. 2016. “Accurate and Interpretable nanoSAR Models from Genetic Programming-Based Decision Tree Construction Approaches.” Nanotoxicology 10 (7): 1001–1012. doi:10.3109/17435390.2016.1161857.
   PubMed Web of Science ®Google Scholar
• Olivier, M., M. Hollstein, and P. Hainaut. 2010. “TP53 Mutations in Human Cancers: origins, Consequences, and Clinical Use.” Cold Spring Harbor Perspectives in Biology 2 (1): a001008. doi:10.1101/cshperspect.a001008.
   PubMed Web of Science ®Google Scholar
• Ong, C., L. Y. L. Yung, Y. Cai, B. H. Bay, and G. H. Baeg. 2015. “Drosophila melanogaster as a Model Organism to Study Nanotoxicity.” Nanotoxicology 9 (3): 396–403. doi:10.3109/17435390.2014.940405.
   PubMed Web of Science ®Google Scholar
• Ottmann, A., M. Scholz, M. Haft, E. Thauer, P. Schneider, M. Gellesch, C. Nowka, S. Wurmehl, S. Hampel, and R. Klingeler. 2017. “Electrochemical Magnetization Switching and Energy Storage in Manganese Oxide Filled Carbon Nanotubes.” Scientific Reports 7: 13625.  doi:10.1038/s41598-017-14014-7.
   PubMed Web of Science ®Google Scholar
• Pagadala, N. S., K. Syed, and J. Tuszynski. 2017. “Software for Molecular Docking: A Review.” Biophysical Reviews 9: 91–102. doi:10.1007/s12551-016-0247-1.
   PubMedGoogle Scholar
• Page, T. C., W. R. Light, C. B. McKay, and J. D. Hellums. 1998. “Oxygen Transport by Erythrocyte/Hemoglobin Solution Mixtures in an in Vitro Capillary as a Model of Hemoglobin-Based Oxygen Carrier Performance.” Microvascular Research 55: 54–64. doi:10.1006/mvre.1997.2055.
   Web of Science ®Google Scholar
• Pan, K., and Q. Zhong. 2016. “Organic Nanoparticles in Foods: Fabrication, Characterization, and Utilization.” Annual Review of Food Science and Technology 7 (1): 245–266. doi:10.1146/annurev-food-041715-033215.
   PubMedGoogle Scholar
• Pan, Y., T. Li, J. Cheng, D. Telesca, J. I. Zink, and J. Jiang. 2016. “Nano-QSAR Modeling for Predicting the Cytotoxicity of Metal Oxide Nanoparticles Using Novel Descriptors.” RSC Advances 6 (31): 25766–25775. doi:10.1039/c6ra01298a.
   Web of Science ®Google Scholar
• Pandurangan, M., and D. H. Kim. 2015. “In Vitro Toxicity of Zinc Oxide Nanoparticles: A Review.” Journal of Nanoparticle Research 17: 158. doi:10.1007/s11051-015-2958-9.
   Web of Science ®Google Scholar
• Panneerselvam, S., and S. Choi. 2014. “Nanoinformatics: Emerging Databases and Available tools.” International Journal of Molecular Sciences 15 (5): 7158–7182. doi:10.3390/ijms15057158.
   PubMed Web of Science ®Google Scholar
• Pareek, V., A. Bhargava, V. Bhanot, R. Gupta, N. Jain, and J. Panwar. 2018. “Formation and Characterization of Protein Corona Around Nanoparticles: A Review.” Journal of Nanoscience and Nanotechnology 18: 6653–6670. doi:10.1166/jnn.2018.15766.
   PubMed Web of Science ®Google Scholar
• Patel, P.,. P. K. Panda, P. Kumari, P. K. Singh, A. Nandi, M. A. Mallick, B. Das, M. Suar, and S. K. Verma. 2020. “Selective in Vivo Molecular and Cellular Biocompatibility of Black Peppercorns by Piperine-Protein Intrinsic Atomic Interaction with Elicited Oxidative Stress and Apoptosis in Zebrafish Eleuthero Embryos.” Ecotoxicology and Environmental Safety 192: 110321. doi:10.1016/j.ecoenv.2020.110321.
   PubMed Web of Science ®Google Scholar
• Pegues, D. A., M. J. Hantman, I. Behlau, and S. I. Miller. 1995. “PhoP/PhoQ Transcriptional Repression of Salmonella Typhimurium Invasion Genes: Evidence for a Role in Protein Secretion.” Molecular Microbiology 17 (1): 169–181. doi:10.1111/j.1365-2958.1995.mmi_17010169.x.
   PubMed Web of Science ®Google Scholar
• Pelkonen, O., M. Turpeinen, J. Hakkola, P. Honkakoski, J. Hukkanen, and H. Raunio. 2008. “Inhibition and Induction of Human Cytochrome P450 Enzymes: Current Status.” Archives of Toxicology: 667–715. doi:10.1007/s00204-008-0332-8.
   PubMed Web of Science ®Google Scholar
• Pérez-Morales, D., M. M. Banda, N. Y. E. Chau, H. Salgado, I. Martínez-Flores, J. A. Ibarra, B. Ilyas, B. K. Coombes, and V. H. Bustamante. 2017. “The Transcriptional Regulator SsrB is Involved in a Molecular Switch Controlling Virulence Lifestyles of Salmonella.” PLoS Pathogens 13 (7): e1006497. doi:10.1371/journal.ppat.1006497.
   PubMed Web of Science ®Google Scholar
• Prasad, A. R., S. M. Basheer, L. Williams, and A. Joseph. 2019. “Highly Selective Inhibition of α-Glucosidase by Green Synthesised ZnO nanoparticles - In-Vitro Screening and in-Silico Docking Studies.” International Journal of Biological Macromolecules 139: 712–718. doi:10.1016/j.ijbiomac.2019.08.033.
   PubMed Web of Science ®Google Scholar
• Puzyn, T., B. Rasulev, A. Gajewicz, X. Hu, T. P. Dasari, A. Michalkova, H. M. Hwang, A. Toropov, D. Leszczynska, and J. Leszczynski. 2011. “Using nano-QSAR to Predict the Cytotoxicity of Metal Oxide Nanoparticles.” Nature Nanotechnology 6: 175–178. doi:10.1038/nnano.2011.10.
   PubMed Web of Science ®Google Scholar
• Qi, R., Y. Pan, J. Cao, Z. Jia, and J. Jiang. 2020. “The Cytotoxicity of Nanomaterials: Modeling Multiple Human Cells Uptake of Functionalized Magneto-Fluorescent Nanoparticles via nano-QSAR.” Chemosphere 249: 126175. doi:10.1016/j.chemosphere.2020.126175.
   PubMed Web of Science ®Google Scholar
• Ranjan, S., N. Dasgupta, S. Chinnappan, C. Ramalingam, and A. Kumar. 2017. “A Novel Approach to Evaluate Titanium Dioxide Nanoparticle–Protein Interaction through Docking: An Insight into Mechanism of Action.” The Proceedings of the National Academy of Sciences, India, Section B: Biological Sciences 87: 937–943. doi:10.1007/s40011-015-0673-z.
   Google Scholar
• Ravindran, A., A. Singh, A. M. Raichur, N. Chandrasekaran, and A. Mukherjee. 2010. “Studies on Interaction of Colloidal Ag Nanoparticles with Bovine Serum Albumin (BSA).” Colloids Surfaces B Biointerfaces 67: 32–37. doi:10.1016/j.colsurfb.2009.10.005.
   Google Scholar
• Riccio, A. A., M. J. Schellenberg, and R. S. Williams. 2020. “Molecular Mechanisms of Topoisomerase 2 DNA–Protein Crosslink Resolution.” Cellular and Molecular Life Sciences : CMLS 77 (1): 81–91. doi:10.1007/s00018-019-03367-z.
   PubMed Web of Science ®Google Scholar
• Riederer, P., K. W. Lange, J. Kornhuber, and W. Danielczyk. 1992. “Glutamatergic-Dopaminergic Balance in the Brain. Its Importance in Motor Disorders and Schizophrenia.” Arzneimittel-Forschung/Drug Research 42: 265–268.
   PubMed Web of Science ®Google Scholar
• Ritchie, D. W. 2003. “Evaluation of Protein Docking Predictions Using Hex 3.1 in CAPRI Rounds 1 and 2.” Proteins: Structure, Function, and Genetics 52 (1): 98–106. doi:10.1002/prot.10379.
   PubMed Web of Science ®Google Scholar
• Ruiz, P., A. Katsumiti, J. A. Nieto, J. Bori, A. Jimeno-Romero, P. Reip, I. Arostegui, A. Orbea, and M. P. Cajaraville. 2015. “Short-Term Effects on Antioxidant Enzymes and Long-Term Genotoxic and Carcinogenic Potential of CuO Nanoparticles Compared to Bulk CuO and Ionic Copper in Mussels Mytilus Galloprovincialis.” Marine Environment Research: 1103–1111. doi:10.1016/j.marenvres.2015.07.018.
   Web of Science ®Google Scholar
• Ruiz-Albert, J., R. Mundy, X. J. Yu, C. R. Beuzón, and D. W. Holden. 2003. “SseA is a Chaperone for the SseB and SseD Translocon Components of the Salmonella Pathogenicity-Island-2-Encoded Type III Secretion System.” Microbiology (Reading, England) 149 (Pt 5): 1103–1111. doi:10.1099/mic.0.26190-0.
   PubMedGoogle Scholar
• Ruttkay-Nedecky, B., O. Krystofova, L. Nejdl, and V. Adam. 2017. “Nanoparticles Based on Essential Metals and Their Phytotoxicity.” Journal of Nanobiotechnology 15: 33. doi:10.1186/s12951-017-0268-3.
   PubMed Web of Science ®Google Scholar
• Sabir, S.,. M. Arshad, and S. K. Chaudhari. 2014. “Zinc Oxide Nanoparticles for Revolutionizing Agriculture: Synthesis and Applications.” TheScientificWorldJournal 2014: 925494. doi:10.1155/2014/925494.
   PubMedGoogle Scholar
• Sadrieh, N., A. M. Wokovich, N. V. Gopee, J. Zheng, D. Haines, D. Parmiter, P. H. Siitonen, et al. 2010. “Lack of Significant Dermal Penetration of Titanium Dioxide from Sunscreen Formulations Containing Nano- and Submicron-Size TiO2 Particles.” Toxicological Sciences 115(1): 156–166. doi:10.1093/toxsci/kfq041.
   PubMed Web of Science ®Google Scholar
• Saptarshi, S. R., A. Duschl, and A. L. Lopata. 2013. “Interaction of Nanoparticles with Proteins: Relation to Bio-Reactivity of the Nanoparticle.” Journal of Nanobiotechnology 11: 26. doi:10.1186/1477-3155-11-26.
   PubMed Web of Science ®Google Scholar
• Sawant, K. V., K. M. Poluri, A. K. Dutta, K. M. Sepuru, A. Troshkina, R. P. Garofalo, and K. Rajarathnam. 2016. “Chemokine CXCL1 Mediated Neutrophil Recruitment: Role of Glycosaminoglycan Interactions.” Scientific Reports. doi:10.1038/srep33123.
   PubMed Web of Science ®Google Scholar
• Schaefer, L., and R. V. Iozzo. 2008. “Biological Functions of the Small Leucine-Rich Proteoglycans: From Genetics to Signal Transduction.” The Journal of Biological Chemistry 283 (31): 21305–21309. doi:10.1074/jbc.R800020200.
   PubMed Web of Science ®Google Scholar
• Schäfer, B. W., J. M. Fritschy, P. Murmann, H. Troxler, I. Durussel, C. W. Heizmann, and J. A. Cox. 2000. “Brain S100A5 is a Novel Calcium-, Zinc-, and Copper Ion-Binding Protein of the EF-Hand Superfamily.” The Journal of Biological Chemistry 275 (39): 30623–30630. doi:10.1074/jbc.M002260200.
   PubMed Web of Science ®Google Scholar
• Schmid, G. 2010. Nanoparticles: From Theory to Application. 2nd ed. Weinheim: Wiley-VCH Verlag. doi:10.1002/9783527631544.
   Google Scholar
• Schmutz, M., O. Borges, S. Jesus, G. Borchard, G. Perale, M. Zinn, Ä. A. J. A. M. Sips, L. G. Soeteman-Hernandez, P. Wick, and C. Som. 2020. “A Methodological Safe-by-Design Approach for the Development of Nanomedicines.” Frontiers in Bioengineering and Biotechnology 8: 258. doi:10.3389/fbioe.2020.00258.
   PubMed Web of Science ®Google Scholar
• Selvaraj, V., N. Nepal, S. Rogers, N. D. P. K. Manne, R. Arvapalli, K. M. Rice, S. Asano, et al. 2015. “Inhibition of MAP Kinase/NF-kB Mediated Signaling and Attenuation of Lipopolysaccharide Induced Severe Sepsis by Cerium Oxide Nanoparticles.” Biomaterials 59: 160–171. doi:10.1016/j.biomaterials.2015.04.025.
   PubMed Web of Science ®Google Scholar
• Shakir, M., M. S. Khan, S. I. Al-Resayes, U. Baig, P. Alam, R. H. Khan, and M. Alam. 2014. “In Vitro DNA Binding, Molecular Docking and Antimicrobial Studies on a Newly Synthesized Poly(o-Toluidine)-Titanium Dioxide Nanocomposite.” RSC Advances. 4 (74): 39174. doi:10.1039/c4ra05173d.
   Web of Science ®Google Scholar
• Shariati, B., E. Yektadoost, E. Behzadi, E. Azmoodeh, F. Attar, S. Sari, K. Akhtari, and M. Falahati. 2018. “Interaction of Silica Nanoparticles with Tau Proteins and PC12 Cells: Colloidal Stability, Thermodynamic, Docking, and Cellular Studies.” International Journal of Biological Macromolecules 118: 1963–1973. doi:10.1016/j.ijbiomac.2018.07.041.
   PubMed Web of Science ®Google Scholar
• Shin, J., R. M. Anisur, M. K. Ko, G. H. Im, J. H. Lee, and I. S. Lee. 2009. “Hollow Manganese Oxide Nanoparticles as Multifunctional Agents for Magnetic Resonance Imaging and Drug Delivery.” Angewandte Chemie International Edition 48: 321–324. doi:10.1002/anie.200802323.
   PubMed Web of Science ®Google Scholar
• Shin, S. W., I. H. Song, and S. H. Um. 2015. “Role of Physicochemical Properties in Nanoparticle Toxicity.” Nanomaterials (Basel, Switzerland) 5 (3): 1351–1365. doi:10.3390/nano5031351.
   PubMedGoogle Scholar
• Simon, R., J. Y. Wang, M. A. Boyd, M. E. Tulapurkar, G. Ramachandran, S. M. Tennant, M. Pasetti, J. E. Galen, and M. M. Levine. 2013. “Sustained Protection in Mice Immunized with Fractional Doses of Salmonella Enteritidis Core and O Polysaccharide-Flagellin Glycoconjugates.” PLoS One 8 (5): e64680. doi:10.1371/journal.pone.0064680.
   PubMed Web of Science ®Google Scholar
• Simon, R., S. M. Tennant, J. Y. Wang, P. J. Schmidlein, A. Lees, R. K. Ernst, M. F. Pasetti, J. E. Galen, and M. M. Levine. 2011. “Salmonella enterica Serovar Enteritidis Core O Polysaccharide Conjugated to H:g,m Flagellin as a Candidate Vaccine for Protection against Invasive Infection with S. Enteritidis.” Infection and Immunity 79 (10): 4240–4249. doi:10.1128/IAI.05484-11.
   PubMed Web of Science ®Google Scholar
• Singh, K. P., A. Dhasmana, and Q. Rahman. 2018. “Elucidation the Toxicity Mechanism of Zinc Oxide Nanoparticle Using Molecular Docking Approach with Proteins.” Asian Journal of Pharmaceutical and Clinical Research 11: 441–446. doi:10.22159/ajpcr.2018.v11i3.23384.
   Google Scholar
• Sivakumar, D., C. Lahiri, and D. Chakravortty. 2013. “Computational Studies on Histidine Kinase Protein BaeS to Target Multidrug-Resistant Salmonella.” Medicinal Chemistry Research 22: 1804–1811. doi:10.1007/s00044-012-0188-6.
   Web of Science ®Google Scholar
• Skariyachan, S., A. Parveen, and S. Garka. 2017. “Nanoparticle Fullerene (C60) Demonstrated Stable Binding with Antibacterial Potential Towards Probable Targets of Drug Resistant Salmonella Typhi – a Computational Perspective and In Vitro Investigation.” Journal of Biomolecular Structure and Dynamics. 35: 3449–3468. doi:10.1080/07391102.2016.1257441.
   PubMed Web of Science ®Google Scholar
• Speck-Planche, A., V. V. Kleandrova, F. Luan, and M. N. Ds Cordeiro. 2015. “Computational Modeling in Nanomedicine: Prediction of Multiple Antibacterial Profiles of Nanoparticles Using a Quantitative Structure-Activity Relationship Perturbation Model.” Nanomedicine (London, England) 10 (2): 193–204. doi:10.2217/nnm.14.96.
   PubMed Web of Science ®Google Scholar
• Steindler, L., I. Bertani, L. De Sordi, S. Schwager, L. Eberl, and V. Venturi. 2009. “LasI/R and RhlI/R Quorum Sensing in a Strain of Pseudomonas aeruginosa Beneficial to Plants.” Applied and Environmental Microbiology 75 (15): 5131–5140. doi:10.1128/AEM.02914-08.
   PubMed Web of Science ®Google Scholar
• Sturtz, L. A., K. Diekert, L. T. Jensen, R. Lill, and V. C. Culotta. 2001. “A Fraction of Yeast Cu,Zn-Superoxide Dismutase and Its Metallochaperone, CCS, Localize to the Intermembrane Space of Mitochondria. A Physiological Role for SOD1 in Guarding against Mitochondrial Oxidative Damage.” Journal of Biological Chemistry 276: 38084–38089. doi:10.1074/jbc.M105296200.
   PubMed Web of Science ®Google Scholar
• Takahashi, S., J. Sakai, T. Fujino, H. Hattori, Y. Zenimaru, J. Suzuki, I. Miyamori, and T. T. Yamamoto. 2004. “The Very Low-Density Lipoprotein (VLDL) Receptor: characterization and Functions as a Peripheral Lipoprotein Receptor.” Journal of Atherosclerosis and Thrombosis 11 (4): 200–208. doi:10.5551/jat.11.200.
   PubMedGoogle Scholar
• Takaya, A., H. Takeda, S. Tashiro, H. Kawashima, and T. Yamamoto. 2019. “Chaperone-Mediated Secretion Switching from Early to Middle Substrates in the Type III Secretion System Encoded by Salmonella Pathogenicity Island 2.” The Journal of Biological Chemistry 294 (10): 3783–3793. doi:10.1074/jbc.RA118.005072.
   PubMed Web of Science ®Google Scholar
• Tavakoli, M., M. H. Malakooti, H. Paisana, Y. Ohm, D. Green Marques, P. Alhais Lopes, A. P. Piedade, A. T. de Almeida, and C. Majidi. 2018. “EGaIn-Assisted Room-Temperature Sintering of Silver Nanoparticles for Stretchable.” Advanced Materials 30 (29): 1801852. doi:10.1002/adma.201801852.
   Web of Science ®Google Scholar
• Thamir, A. D., A. J. Haider, and G. A. Ali. 2016. “Preparation of NanostructureTiO2 at Different Temperatures by Pulsed Laser Deposition as Solar Cell.” Journal of Engineering Technology 34: 193–204.
   Google Scholar
• Tonel, M. Z., M. González-Durruthy, I. Zanella, and S. B. Fagan. 2019. “Interactions of Graphene Derivatives with Glutamate-Neurotransmitter: A Parallel First principles - Docking Investigation.” Journal of Molecular Graphics and Modelling 88: 121–127. doi:10.1016/j.jmgm.2019.01.007.
   PubMed Web of Science ®Google Scholar
• Tong, T.,. K. Fang, S. A. Thomas, J. J. Kelly, K. A. Gray, and J. F. Gaillard. 2014. “Chemical Interactions between nano-ZnO and nano-TiO2 in a Natural Aqueous Medium.” Environmental Science & Technology 48 (14): 7924–7932. doi:10.1021/es501168p.
   PubMed Web of Science ®Google Scholar
• Tripathy, S., S. R. Krishna Vanjari, V. Singh, S. Swaminathan, and S. G. Singh. 2017. “Electrospun Manganese (III) Oxide Nanofiber Based Electrochemical DNA-Nanobiosensor for Zeptomolar Detection of Dengue Consensus Primer.” Biosensors and Bioelectronics 90: 378–387. doi:10.1016/j.bios.2016.12.008.
   PubMed Web of Science ®Google Scholar
• Trott, O., and A. J. Olson. 2009. “AutoDock Vina: Improving the Speed and Accuracy of Docking with a New Scoring Function, Efficient Optimization, and Multithreading.” Journal of Computational Chemistry 31: 455-461.doi:10.1002/jcc.21334.
   Web of Science ®Google Scholar
• Troxell, B., M. L. Sikes, R. C. Fink, A. Vazquez-Torres, J. Jones-Carson, and H. M. Hassan. 2011. “Fur Negatively Regulates Hns and is Required for the Expression of Hila and Virulence in salmonella enterica Serovar Typhimurium.” Journal of Bacteriology 193: 497–505. doi:10.1128/JB.00942-10.
   PubMed Web of Science ®Google Scholar
• Tsai, D. H., F. W. Delrio, A. M. Keene, K. M. Tyner, R. I. MacCuspie, T. J. Cho, M. R. Zachariah, and V. A. Hackley. 2011. “Adsorption and Conformation of Serum Albumin Protein on Gold Nanoparticles Investigated Using Dimensional Measurements and In Situ Spectroscopic Methods.” Langmuir 27 (6): 2464–2477. doi:10.1021/la104124d.
   PubMed Web of Science ®Google Scholar
• Urquhart, B. L., and T. D. Nolin. 2020. “Drug Metabolism in Chronic Kidney Disease.” Chronic Kidney Disease. doi:10.1016/b978-0-12-815876-0.00063-2.
   Google Scholar
• Vaitheeswaran, S., and A. E. Garcia. 2011. “Protein Stability at a Carbon Nanotube Interface.” Journal of Chemical Physics: 1035–1051. doi:10.1063/1.3558776.
   PubMed Web of Science ®Google Scholar
• Van Booven, D., S. Marsh, H. McLeod, M. W. Carrillo, K. Sangkuhl, T. E. Klein, and R. B. Altman. 2010. “Cytochrome P450 2C9-CYP2C9.” Pharmacogenetics and Genomics: 277–281. doi:10.1097/FPC.0b013e3283349e84.
   PubMed Web of Science ®Google Scholar
• Van De Walle, A. 2008. “A Complete Representation of Structure-Property Relationships in Crystals.” Nature Materials. doi:10.1038/nmat2200.
   PubMed Web of Science ®Google Scholar
• Ventola, C. L. 2017. Progress in Nanomedicine: Approved and Investigational Nanodrugs. P T. 42: 742–755.
   PubMedGoogle Scholar
• Verma, M. L., R. Chaudhary, T. Tsuzuki, C. J. Barrow, and M. Puri. 2013. “Immobilization of β-Glucosidase on a Magnetic Nanoparticle Improves Thermostability: Application in Cellobiose Hydrolysis.” Bioresource Technology 135: 2–6. doi:10.1016/j.biortech.2013.01.047.
   PubMed Web of Science ®Google Scholar
• Verma, S. K., E. Jha, P. K. Panda, A. Thirumurugan, S. K. S. Parashar, S. Patro, and M. Suar. 2018. “Mechanistic Insight into Size-Dependent Enhanced Cytotoxicity of Industrial Antibacterial Titanium Oxide Nanoparticles on Colon Cells Because of Reactive Oxygen Species Quenching and Neutral Lipid Alteration.” ACS Omega 3 (1): 1244–1262. doi:10.1021/acsomega.7b01522.
   PubMed Web of Science ®Google Scholar
• Verma, S. K., E. Jha, P. K. Panda, M. Mukherjee, A. Thirumurugan, H. Makkar, B. Das, S. K. S. Parashar, and M. Suar. 2018. “Mechanistic Insight into ROS and Neutral Lipid Alteration Induced Toxicity in the Human Model with Fins (Danio rerio) by Industrially Synthesized Titanium Dioxide Nanoparticles.” Toxicology Research 7 (2): 244–257. doi:10.1039/c7tx00300e.
   Web of Science ®Google Scholar
• Volgin, I. V., S. V. Larin, A. V. Lyulin, and S. V. Lyulin. 2018. “Coarse-Grained Molecular-Dynamics Simulations of Nanoparticle Diffusion in Polymer Nanocomposites.” Polymer (Guildf) 145: 80–87. doi:10.1016/j.polymer.2018.04.058.
   Web of Science ®Google Scholar
• Vyshnava, S. S., D. K. Kanderi, S. P. Panjala, K. Pandian, R. R. Bontha, P. K. R. Goukanapalle, and B. Banaganapalli. 2016. “Effect of Silver Nanoparticles Against the Formation of Biofilm by Pseudomonas aeruginosa an in Silico Approach.” Applied Biochemistry and Biotechnology 180: 426–437. doi:10.1007/s12010-016-2107-7.
   PubMed Web of Science ®Google Scholar
• Walczyk, D., F. B. Bombelli, M. P. Monopoli, I. Lynch, and K. A. Dawson. 2010. “What the Cell “Sees” in Bionanoscience.” Journal of the American Chemical Society 132 (16): 5761–5768. doi:10.1021/ja910675v.
   PubMed Web of Science ®Google Scholar
• Walters, C. R., V. S. Somerset, and E. Pool. 2017. Chapter 8. Freshwater Crabs Potamonautes spp. (Malacostraca, Potamonautidae) as a Model in Nanotoxicity Studies 180–195. doi:10.1039/9781782629887-00180.
   Google Scholar
• Wang, G., Y. Ma, L. Zhang, J. Mu, Z. Zhang, X. Zhang, H. Che, Y. Bai, and J. Hou. 2016. “Facile Synthesis of Manganese Ferrite/Graphene Oxide Nanocomposites for Controlled Targeted Drug Delivery.” Journal of Magnetism and Magnetic Materials 401: 647–650. doi:10.1016/j.jmmm.2015.10.096.
   Web of Science ®Google Scholar
• Wang, H., R. Ma, K. Nienhaus, and G. U. Nienhaus. 2019. “Formation of a Monolayer Protein Corona around Polystyrene Nanoparticles and Implications for Nanoparticle Agglomeration.” Small 15 (22): 1900974. doi:10.1002/smll.201900974.
   Web of Science ®Google Scholar
• Wang, L. Y., Y. F. Tu, Y. C. Lin, and C. C. Huang. 2016. “CXCL5 Signaling is a Shared Pathway of Neuroinflammation and Blood-Brain Barrier Injury Contributing to White Matter Injury in the Immature Brain.” Journal of Neuroinflammation 13: 6. doi:10.1186/s12974-015-0474-6.
   Web of Science ®Google Scholar
• Wang, L., Y. Liu, W. Li, X. Jiang, Y. Ji, X. Wu, L. Xu, et al. 2011. “Selective Targeting of Gold Nanorods at the Mitochondria of Cancer Cells: Implications for Cancer Therapy.” Nano Letters 11 (2): 772–780. doi:10.1021/nl103992v.
   PubMed Web of Science ®Google Scholar
• Wang, Y., and E. Mandelkow. 2016. “Tau in Physiology and Pathology.” Nature Reviews Neuroscience: 5–21. doi:10.1038/nrn.2015.1.
   Web of Science ®Google Scholar
• Wang, Z., P. Zhao, J. Yu, Z. Jiang, and X. Guo. 2018. “Experimental and Molecular Docking Study on Graphene/Fe3O4 Composites as a Sorbent for Magnetic Solid-Phase Extraction of Seven Imidazole Antifungals in Environmental Water Samples Prior to LC-MS/MS for Enantiomeric Analysis.” Microchemical Journal 140: 222–231. doi:10.1016/j.microc.2018.04.027.
   Web of Science ®Google Scholar
• Wasukan, N., M. Kuno, and R. Maniratanachote. 2019. “Molecular Docking as a Promising Predictive Model for Silver Nanoparticle-Mediated Inhibition of Cytochrome P450 Enzymes.” Journal of Chemical Information and Modeling 59 (12): 5126–5134. doi:10.1021/acs.jcim.9b00572.
   PubMed Web of Science ®Google Scholar
• Wehrens, R., and E. Willighagen. 2006. Mapping Databases of X-Ray Powder Patterns. RNews 6: 24–28.
   Google Scholar
• Whiteley, C. G., C. Y. Shing, C. C. Kuo, and D. J. Lee. 2016. “Docking of HIV Protease to Silver Nanoparticles.” Journal of the Taiwan Institute of Chemical Engineers 60: 83–91. doi:10.1016/j.jtice.2015.10.029.
   Web of Science ®Google Scholar
• Winkler, D. A. 2016. “Recent Advances, and Unresolved Issues, in the Application of Computational Modelling to the Prediction of the Biological Effects of Nanomaterials.” Toxicology and Applied Pharmacology 299: 96–100. doi:10.1016/j.taap.2015.12.016.
   PubMed Web of Science ®Google Scholar
• Wu, Y., H. Zhang, and Y. Wang. 2017. “Conformational and Functional Changes of Bovine Serum Albumin Induced by TiO2 Nanoparticles Binding.” Journal of Molecular Liquids 243: 358–368. doi:10.1016/j.molliq.2017.07.116.
   Web of Science ®Google Scholar
• Xia, T., M. Kovochich, J. Brant, M. Hotze, J. Sempf, T. Oberley, C. Sioutas, J. I. Yeh, M. R. Wiesner, and A. E. Nel. 2006. “Comparison of the Abilities of Ambient and Manufactured Nanoparticles to Induce Cellular Toxicity according to an Oxidative Stress Paradigm.” Nano Letters 6 (8): 1794–1807. doi:10.1021/nl061025k.
   PubMed Web of Science ®Google Scholar
• Yadav, P., A. Bandyopadhyay, A. Chakraborty, and K. Sarkar. 2018. “Enhancement of Anticancer Activity and Drug Delivery of Chitosan-Curcumin Nanoparticle via Molecular Docking and Simulation Analysis.” Carbohydrate Polymers 182: 188–198. doi:10.1016/j.carbpol.2017.10.102.
   PubMed Web of Science ®Google Scholar
• Yang, F., Y. Zhang, and H. Liang. 2014. “Interactive Association of Drugs Binding to Human Serum albumin.” International Journal of Molecular Sciences 15 (3): 3580–3595. doi:10.3390/ijms15033580.
   PubMed Web of Science ®Google Scholar
• Yu, Q., M. Sun, Y. Wang, M. Li, and L. Liu. 2014. “The Interaction between Lead Sulfide Nano-Dendrites and Saccharomyce cerevisiae is Involved in Nanotoxicity.” RSC Advances. 4 (39): 20371–20378. doi:10.1039/c4ra01861c.
   Web of Science ®Google Scholar
• Zarubin, T., and J. Han. 2005. “Activation and Signaling of the p38 MAP Kinase Pathway.” Cell Research 15 (1): 11–18. doi:10.1038/sj.cr.7290257.
   PubMed Web of Science ®Google Scholar
• Zhang, M., C. Xu, L. Jiang, and J. Qin. 2018. “A 3D Human Lung-on-a-Chip Model for Nanotoxicity Testing.” Toxicology Research 7 (6): 1048–1060. doi:10.1039/c8tx00156a.
   Web of Science ®Google Scholar
• Zhang, Q., K. Zhang, D. Xu, G. Yang, H. Huang, F. Nie, C. Liu, and S. Yang. 2014. “CuO Nanostructures: Synthesis, Characterization, Growth Mechanisms, Fundamental Properties, and Applications.” Progress in Materials Science: 208–337. doi:10.1016/j.pmatsci.2013.09.003.
   Web of Science ®Google Scholar
• Zhang, Z.,. H. Qian, J. Huang, H. Sha, H. Zhang, L. Yu, B. Liu, D. Hua, and X. Qian. 2018. “Anti-EGFR-iRGD Recombinant Protein Modified Biomimetic Nanoparticles Loaded with Gambogic Acid to Enhance Targeting and Antitumor Ability in Colorectal Cancer Treatment.” International Journal of Nanomedicine 13: 4961–4975. doi:10.2147/IJN.S170148.
   PubMed Web of Science ®Google Scholar
• Zhdanov, V. P. 2019. “Formation of a Protein Corona around Nanoparticles.” Current Opinion in Colloid and Interface Science: 95–103. doi:10.1016/j.cocis.2018.12.002.
   Web of Science ®Google Scholar
• Zhdanov, V. P., and N. J. Cho. 2016. “Kinetics of the Formation of a Protein Corona around Nanoparticles.” Mathematical Biosciences 282: 82–90. doi:10.1016/j.mbs.2016.09.018.
   PubMed Web of Science ®Google Scholar