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Zvereva MV, Zhmurova AV. The use of a chemiluminescence in the assessment of the nanomaterials antioxidant activity. Biophys Rev 2023; 15:963-969. [PMID: 37974973 PMCID: PMC10643622 DOI: 10.1007/s12551-023-01148-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Accepted: 09/11/2023] [Indexed: 11/19/2023] Open
Abstract
Nanomaterials are one of the most promising classes of advanced materials with fine-tuned biological activities. This is evidenced by the presence of redox activity of a number of nanoparticles aimed at inhibiting free radicals and/or mimicking the functions of enzymes. At the same time, it is impossible to study the expression of these biological properties without the use of well-standardized, representative techniques that provide availability, high precision, sensitivity, and selectivity of the measured characteristics. A method that satisfies these requirements is chemiluminescence analysis, which is widely used both in clinical analysis and to characterize the antioxidant activity of substances of natural or synthetic origin. Recently, a trend of using chemiluminescence analysis to study the biological activity of nanomaterials has appeared as a suitable alternative to spectroscopic and electrochemical techniques. This review briefly describes the examples of successful applications of chemiluminescence methods to study radical-binding and enzyme-like activities of nanomaterials. We discuss the data about the effect of the used reagents (radical-generating systems, chemiluminescence activators) and experimental conditions on the obtained values characterizing the nanomaterials activity. Graphical Abstract
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Affiliation(s)
- Marina V. Zvereva
- A.E. Favorsky Irkutsk Institute of Chemistry of the Siberian Branch of the Russian Academy of Sciences, Irkutsk, Russia
| | - Anna V. Zhmurova
- A.E. Favorsky Irkutsk Institute of Chemistry of the Siberian Branch of the Russian Academy of Sciences, Irkutsk, Russia
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2
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Yan X, Yue T, Winkler DA, Yin Y, Zhu H, Jiang G, Yan B. Converting Nanotoxicity Data to Information Using Artificial Intelligence and Simulation. Chem Rev 2023. [PMID: 37262026 DOI: 10.1021/acs.chemrev.3c00070] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Decades of nanotoxicology research have generated extensive and diverse data sets. However, data is not equal to information. The question is how to extract critical information buried in vast data streams. Here we show that artificial intelligence (AI) and molecular simulation play key roles in transforming nanotoxicity data into critical information, i.e., constructing the quantitative nanostructure (physicochemical properties)-toxicity relationships, and elucidating the toxicity-related molecular mechanisms. For AI and molecular simulation to realize their full impacts in this mission, several obstacles must be overcome. These include the paucity of high-quality nanomaterials (NMs) and standardized nanotoxicity data, the lack of model-friendly databases, the scarcity of specific and universal nanodescriptors, and the inability to simulate NMs at realistic spatial and temporal scales. This review provides a comprehensive and representative, but not exhaustive, summary of the current capability gaps and tools required to fill these formidable gaps. Specifically, we discuss the applications of AI and molecular simulation, which can address the large-scale data challenge for nanotoxicology research. The need for model-friendly nanotoxicity databases, powerful nanodescriptors, new modeling approaches, molecular mechanism analysis, and design of the next-generation NMs are also critically discussed. Finally, we provide a perspective on future trends and challenges.
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Affiliation(s)
- Xiliang Yan
- Institute of Environmental Research at the Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China
| | - Tongtao Yue
- Key Laboratory of Marine Environment and Ecology, Ministry of Education, Institute of Coastal Environmental Pollution Control, Ocean University of China, Qingdao 266100, China
| | - David A Winkler
- Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, Victoria 3052, Australia
- School of Pharmacy, University of Nottingham, Nottingham NG7 2QL, U.K
- Department of Biochemistry and Chemistry, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria 3086, Australia
| | - Yongguang Yin
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Hao Zhu
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, New Jersey 08028, United States
| | - Guibin Jiang
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Bing Yan
- Institute of Environmental Research at the Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China
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3
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Loukhovitski BI, Pelevkin AV, Sharipov AS. Toward size-dependent thermodynamics of nanoparticles from quantum chemical calculations of small atomic clusters: a case study of (B 2O 3) n. Phys Chem Chem Phys 2022; 24:13130-13148. [PMID: 35587125 DOI: 10.1039/d2cp01672a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present a method for obtaining canonical partition functions and, accordingly, temperature-dependent thermodynamics of arbitrary-sized (nano) particles from electronic structure calculations of the corresponding small size atomic clusters. The guiding idea here is to extrapolate the basic properties underlying the thermochemistry of clusters (electronic energies, rotational constants, and vibrational frequencies) rather than the thermodynamic functions themselves. The thus obtained scaling dependences for these basic properties expressed in a simple analytical form provide an efficient tool for fast evaluation of the size-selected thermochemical data for particles of any nuclearity. To exemplify the performance of the methodology, neutral stoichiometric boron oxide clusters are considered. To this end, the geometry and various physical properties of the energetically lowest-lying (B2O3)n (n = 1,…,8) structures are found using density functional theory and the authors' multistage hierarchical procedure customized for global optimization of quite large cluster structures. With these data and based on the physically consistent scaling regularities for the principal cluster properties, the size-selected thermodynamic functions of boron oxide particles in the gas phase, such as enthalpy, entropy, and specific heat capacity, are derived. The variation of these characteristics with increasing cluster size is discussed in detail as well. To facilitate handling of the temperature and size dependences we have found here in further chemical kinetic and equilibrium modeling, the tabulated thermodynamic functions of interest are fitted for n = 1,…,1000 to the standard seven-parameter Chemkin polynomials.
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Affiliation(s)
- Boris I Loukhovitski
- Central Institute of Aviation Motors, Aviamotornaya 2, Moscow 111116, Russia. .,Joint Institute for High Temperatures of the Russian Academy of Sciences, Izhorskaya 13 Bldg. 2, Moscow 125412, Russia
| | - Alexey V Pelevkin
- Central Institute of Aviation Motors, Aviamotornaya 2, Moscow 111116, Russia. .,Prokhorov General Physics Institute of the Russian Academy of Sciences, Vavilova 38, Moscow 119991, Russia
| | - Alexander S Sharipov
- Central Institute of Aviation Motors, Aviamotornaya 2, Moscow 111116, Russia. .,Joint Institute for High Temperatures of the Russian Academy of Sciences, Izhorskaya 13 Bldg. 2, Moscow 125412, Russia
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4
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Jara N, Milán NS, Rahman A, Mouheb L, Boffito DC, Jeffryes C, Dahoumane SA. Photochemical Synthesis of Gold and Silver Nanoparticles-A Review. Molecules 2021; 26:4585. [PMID: 34361738 PMCID: PMC8348930 DOI: 10.3390/molecules26154585] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2021] [Revised: 07/26/2021] [Accepted: 07/27/2021] [Indexed: 01/08/2023] Open
Abstract
Nanomaterials have supported important technological advances due to their unique properties and their applicability in various fields, such as biomedicine, catalysis, environment, energy, and electronics. This has triggered a tremendous increase in their demand. In turn, materials scientists have sought facile methods to produce nanomaterials of desired features, i.e., morphology, composition, colloidal stability, and surface chemistry, as these determine the targeted application. The advent of photoprocesses has enabled the easy, fast, scalable, and cost- and energy-effective production of metallic nanoparticles of controlled properties without the use of harmful reagents or sophisticated equipment. Herein, we overview the synthesis of gold and silver nanoparticles via photochemical routes. We extensively discuss the effect of varying the experimental parameters, such as the pH, exposure time, and source of irradiation, the use or not of reductants and surfactants, reagents' nature and concentration, on the outcomes of these noble nanoparticles, namely, their size, shape, and colloidal stability. The hypothetical mechanisms that govern these green processes are discussed whenever available. Finally, we mention their applications and insights for future developments.
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Affiliation(s)
- Nicole Jara
- School of Biological Sciences and Engineering, Yachay Tech University, Hacienda San José s/n, San Miguel de Urcuquí 100119, Ecuador; (N.J.); (N.S.M.)
| | - Nataly S. Milán
- School of Biological Sciences and Engineering, Yachay Tech University, Hacienda San José s/n, San Miguel de Urcuquí 100119, Ecuador; (N.J.); (N.S.M.)
| | - Ashiqur Rahman
- Center for Midstream Management and Science, Lamar University, Beaumont, TX 77710, USA; (A.R.); (C.J.)
| | - Lynda Mouheb
- Laboratoire de Recherche de Chimie Appliquée et de Génie Chimique, Hasnaoua I, Université Mouloud Mammeri B.P.17 RP, Tizi-Ouzou 15000, Algeria;
| | - Daria C. Boffito
- Department of Chemical Engineering, Polytechnique Montréal, C.P. 6079, Succ. Centre-Ville, Montréal, QC H3C 3A7, Canada;
| | - Clayton Jeffryes
- Center for Midstream Management and Science, Lamar University, Beaumont, TX 77710, USA; (A.R.); (C.J.)
- Center for Advances in Water and Air Quality, The Dan F. Smith Department of Chemical Engineering, Lamar University, Beaumont, TX 77710, USA
| | - Si Amar Dahoumane
- School of Biological Sciences and Engineering, Yachay Tech University, Hacienda San José s/n, San Miguel de Urcuquí 100119, Ecuador; (N.J.); (N.S.M.)
- Department of Chemical Engineering, Polytechnique Montréal, C.P. 6079, Succ. Centre-Ville, Montréal, QC H3C 3A7, Canada;
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5
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Designing of Nanomaterials-Based Enzymatic Biosensors: Synthesis, Properties, and Applications. ELECTROCHEM 2021. [DOI: 10.3390/electrochem2010012] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
Abstract
Among the many biological entities employed in the development of biosensors, enzymes have attracted the most attention. Nanotechnology has been fostering excellent prospects in the development of enzymatic biosensors, since enzyme immobilization onto conductive nanostructures can improve characteristics that are crucial in biosensor transduction, such as surface-to-volume ratio, signal response, selectivity, sensitivity, conductivity, and biocatalytic activity, among others. These and other advantages of nanomaterial-based enzymatic biosensors are discussed in this work via the compilation of several reports on their applications in different industrial segments. To provide detailed insights into the state of the art of this technology, all the relevant concepts around the topic are discussed, including the properties of enzymes, the mechanisms involved in their immobilization, and the application of different enzyme-derived biosensors and nanomaterials. Finally, there is a discussion around the pressing challenges in this technology, which will be useful for guiding the development of future research in the area.
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Papadiamantis AG, Jänes J, Voyiatzis E, Sikk L, Burk J, Burk P, Tsoumanis A, Ha MK, Yoon TH, Valsami-Jones E, Lynch I, Melagraki G, Tämm K, Afantitis A. Predicting Cytotoxicity of Metal Oxide Nanoparticles using Isalos Analytics Platform. NANOMATERIALS (BASEL, SWITZERLAND) 2020; 10:E2017. [PMID: 33066094 PMCID: PMC7601995 DOI: 10.3390/nano10102017] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/13/2020] [Revised: 10/03/2020] [Accepted: 10/07/2020] [Indexed: 02/07/2023]
Abstract
A literature curated dataset containing 24 distinct metal oxide (MexOy) nanoparticles (NPs), including 15 physicochemical, structural and assay-related descriptors, was enriched with 62 atomistic computational descriptors and exploited to produce a robust and validated in silico model for prediction of NP cytotoxicity. The model can be used to predict the cytotoxicity (cell viability) of MexOy NPs based on the colorimetric lactate dehydrogenase (LDH) assay and the luminometric adenosine triphosphate (ATP) assay, both of which quantify irreversible cell membrane damage. Out of the 77 total descriptors used, 7 were identified as being significant for induction of cytotoxicity by MexOy NPs. These were NP core size, hydrodynamic size, assay type, exposure dose, the energy of the MexOy conduction band (EC), the coordination number of the metal atoms on the NP surface (Avg. C.N. Me atoms surface) and the average force vector surface normal component of all metal atoms (v⟂ Me atoms surface). The significance and effect of these descriptors is discussed to demonstrate their direct correlation with cytotoxicity. The produced model has been made publicly available by the Horizon 2020 (H2020) NanoSolveIT project and will be added to the project's Integrated Approach to Testing and Assessment (IATA).
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Affiliation(s)
- Anastasios G. Papadiamantis
- NovaMechanics Ltd., Nicosia 1065, Cyprus; (A.G.P.); (E.V.); (A.T.)
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham B15 2TT, UK; (E.V.-J.); (I.L.)
| | - Jaak Jänes
- Institute of Chemistry, University of Tartu, 50411 Tartu, Estonia; (J.J.); (L.S.); (J.B.); (P.B.)
| | | | - Lauri Sikk
- Institute of Chemistry, University of Tartu, 50411 Tartu, Estonia; (J.J.); (L.S.); (J.B.); (P.B.)
| | - Jaanus Burk
- Institute of Chemistry, University of Tartu, 50411 Tartu, Estonia; (J.J.); (L.S.); (J.B.); (P.B.)
| | - Peeter Burk
- Institute of Chemistry, University of Tartu, 50411 Tartu, Estonia; (J.J.); (L.S.); (J.B.); (P.B.)
| | | | - My Kieu Ha
- Department of Chemistry, College of Natural Sciences, Hanyang University, Seoul 04763, Korea; (M.K.H.); (T.H.Y.)
| | - Tae Hyun Yoon
- Department of Chemistry, College of Natural Sciences, Hanyang University, Seoul 04763, Korea; (M.K.H.); (T.H.Y.)
- Institute of Next Generation Material Design, Hanyang University, Seoul 04763, Korea
| | - Eugenia Valsami-Jones
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham B15 2TT, UK; (E.V.-J.); (I.L.)
| | - Iseult Lynch
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham B15 2TT, UK; (E.V.-J.); (I.L.)
| | - Georgia Melagraki
- Division of Physical Sciences and Applications, Hellenic Military Academy, 16672 Vari, Greece;
| | - Kaido Tämm
- Institute of Chemistry, University of Tartu, 50411 Tartu, Estonia; (J.J.); (L.S.); (J.B.); (P.B.)
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7
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Mukherjee M, Purkayastha P. The influence of gold nanoparticles on reduction of [Co(NH3)5Br](NO3)2 by iron(II). SN APPLIED SCIENCES 2020. [DOI: 10.1007/s42452-020-2449-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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8
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Ádám AA, Szabados M, Varga G, Papp Á, Musza K, Kónya Z, Kukovecz Á, Sipos P, Pálinkó I. Ultrasound-Assisted Hydrazine Reduction Method for the Preparation of Nickel Nanoparticles, Physicochemical Characterization and Catalytic Application in Suzuki-Miyaura Cross-Coupling Reaction. NANOMATERIALS 2020; 10:nano10040632. [PMID: 32231111 PMCID: PMC7221950 DOI: 10.3390/nano10040632] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/08/2020] [Revised: 03/25/2020] [Accepted: 03/26/2020] [Indexed: 02/06/2023]
Abstract
In the experimental work leading to this contribution, the parameters of the ultrasound treatment (temperature, output power, emission periodicity) were varied to learn about the effects of the sonication on the crystallization of Ni nanoparticles during the hydrazine reduction technique. The solids were studied in detail by X-ray diffractometry, dynamic light scattering, thermogravimetry, specific surface area, pore size analysis, temperature-programmed CO2/NH3 desorption and scanning electron microscopy. It was found that the thermal behaviour, specific surface area, total pore volume and the acid-base character of the solids were mainly determined by the amount of the nickel hydroxide residues. The highest total acidity was recorded over the solid under low-power (30 W) continuous ultrasonic treatment. The catalytic behaviour of the nanoparticles was tested in a Suzuki-Miyaura cross-coupling reaction over five samples prepared in the conventional as well as the ultrasonic ways. The ultrasonically prepared catalysts usually performed better, and the highest catalytic activity was measured over the nanoparticles prepared under low-power (30 W) continuous sonication.
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Affiliation(s)
- Adél Anna Ádám
- Department of Organic Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; (A.A.Á.); (M.S.); (G.V.); (K.M.)
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
| | - Márton Szabados
- Department of Organic Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; (A.A.Á.); (M.S.); (G.V.); (K.M.)
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
| | - Gábor Varga
- Department of Organic Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; (A.A.Á.); (M.S.); (G.V.); (K.M.)
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
| | - Ádám Papp
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
| | - Katalin Musza
- Department of Organic Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; (A.A.Á.); (M.S.); (G.V.); (K.M.)
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
| | - Zoltán Kónya
- Department of Applied and Environmental Chemistry, University of Szeged, Rerrich B. tér 1, H-6720 Szeged, Hungary; (Z.K.); (Á.K.)
- MTA-SZTE Reaction Kinetics and Surface Chemistry Research Group, Rerrich B tér 1, H-6720 Szeged, Hungary
| | - Ákos Kukovecz
- Department of Applied and Environmental Chemistry, University of Szeged, Rerrich B. tér 1, H-6720 Szeged, Hungary; (Z.K.); (Á.K.)
| | - Pál Sipos
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - István Pálinkó
- Department of Organic Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; (A.A.Á.); (M.S.); (G.V.); (K.M.)
- Material and Solution Structure Research Group, and Interdisciplinary Excellence Centre, Institute of Chemistry, University of Szeged, Aradi Vértanúk tere 1, H-6720 Szeged, Hungary; (Á.P.); (P.S.)
- Correspondence:
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9
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Afantitis A, Melagraki G, Isigonis P, Tsoumanis A, Varsou DD, Valsami-Jones E, Papadiamantis A, Ellis LJA, Sarimveis H, Doganis P, Karatzas P, Tsiros P, Liampa I, Lobaskin V, Greco D, Serra A, Kinaret PAS, Saarimäki LA, Grafström R, Kohonen P, Nymark P, Willighagen E, Puzyn T, Rybinska-Fryca A, Lyubartsev A, Alstrup Jensen K, Brandenburg JG, Lofts S, Svendsen C, Harrison S, Maier D, Tamm K, Jänes J, Sikk L, Dusinska M, Longhin E, Rundén-Pran E, Mariussen E, El Yamani N, Unger W, Radnik J, Tropsha A, Cohen Y, Leszczynski J, Ogilvie Hendren C, Wiesner M, Winkler D, Suzuki N, Yoon TH, Choi JS, Sanabria N, Gulumian M, Lynch I. NanoSolveIT Project: Driving nanoinformatics research to develop innovative and integrated tools for in silico nanosafety assessment. Comput Struct Biotechnol J 2020; 18:583-602. [PMID: 32226594 PMCID: PMC7090366 DOI: 10.1016/j.csbj.2020.02.023] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Revised: 02/18/2020] [Accepted: 02/29/2020] [Indexed: 01/26/2023] Open
Abstract
Nanotechnology has enabled the discovery of a multitude of novel materials exhibiting unique physicochemical (PChem) properties compared to their bulk analogues. These properties have led to a rapidly increasing range of commercial applications; this, however, may come at a cost, if an association to long-term health and environmental risks is discovered or even just perceived. Many nanomaterials (NMs) have not yet had their potential adverse biological effects fully assessed, due to costs and time constraints associated with the experimental assessment, frequently involving animals. Here, the available NM libraries are analyzed for their suitability for integration with novel nanoinformatics approaches and for the development of NM specific Integrated Approaches to Testing and Assessment (IATA) for human and environmental risk assessment, all within the NanoSolveIT cloud-platform. These established and well-characterized NM libraries (e.g. NanoMILE, NanoSolutions, NANoREG, NanoFASE, caLIBRAte, NanoTEST and the Nanomaterial Registry (>2000 NMs)) contain physicochemical characterization data as well as data for several relevant biological endpoints, assessed in part using harmonized Organisation for Economic Co-operation and Development (OECD) methods and test guidelines. Integration of such extensive NM information sources with the latest nanoinformatics methods will allow NanoSolveIT to model the relationships between NM structure (morphology), properties and their adverse effects and to predict the effects of other NMs for which less data is available. The project specifically addresses the needs of regulatory agencies and industry to effectively and rapidly evaluate the exposure, NM hazard and risk from nanomaterials and nano-enabled products, enabling implementation of computational 'safe-by-design' approaches to facilitate NM commercialization.
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Key Words
- (quantitative) Structure–activity relationships
- AI, Artificial Intelligence
- AOPs, Adverse Outcome Pathways
- API, Application Programming interface
- CG, coarse-grained (model)
- CNTs, carbon nanotubes
- Computational toxicology
- Engineered nanomaterials
- FAIR, Findable Accessible Inter-operable and Re-usable
- GUI, Graphical Processing Unit
- HOMO-LUMO, Highest Occupied Molecular Orbital Lowest Unoccupied Molecular Orbital
- Hazard assessment
- IATA, Integrated Approaches to Testing and Assessment
- Integrated approach for testing and assessment
- KE, key events
- MIE, molecular initiating events
- ML, machine learning
- MOA, mechanism (mode) of action
- MWCNT, multi-walled carbon nanotubes
- Machine learning
- NMs, nanomaterials
- Nanoinformatics
- OECD, Organisation for Economic Co-operation and Development
- PBPK, Physiologically Based PharmacoKinetics
- PC, Protein Corona
- PChem, Physicochemical
- PTGS, Predictive Toxicogenomics Space
- Predictive modelling
- QC, quantum-chemical
- QM, quantum-mechanical
- QSAR, quantitative structure-activity relationship
- QSPR, quantitative structure-property relationship
- RA, risk assessment
- REST, Representational State Transfer
- ROS, reactive oxygen species
- Read across
- SAR, structure-activity relationship
- SMILES, Simplified Molecular Input Line Entry System
- SOPs, standard operating procedures
- Safe-by-design
- Toxicogenomics
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Affiliation(s)
| | | | | | | | | | - Eugenia Valsami-Jones
- School of Geography, Earth and Environmental Sciences, University of Birmingham, B15 2TT Birmingham, UK
| | - Anastasios Papadiamantis
- School of Geography, Earth and Environmental Sciences, University of Birmingham, B15 2TT Birmingham, UK
| | - Laura-Jayne A. Ellis
- School of Geography, Earth and Environmental Sciences, University of Birmingham, B15 2TT Birmingham, UK
| | - Haralambos Sarimveis
- School of Chemical Engineering, National Technical University of Athens, 157 80 Athens, Greece
| | - Philip Doganis
- School of Chemical Engineering, National Technical University of Athens, 157 80 Athens, Greece
| | - Pantelis Karatzas
- School of Chemical Engineering, National Technical University of Athens, 157 80 Athens, Greece
| | - Periklis Tsiros
- School of Chemical Engineering, National Technical University of Athens, 157 80 Athens, Greece
| | - Irene Liampa
- School of Chemical Engineering, National Technical University of Athens, 157 80 Athens, Greece
| | - Vladimir Lobaskin
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland
| | - Dario Greco
- Faculty of Medicine and Health Technology, University of Tampere, FI-33014, Finland
| | - Angela Serra
- Faculty of Medicine and Health Technology, University of Tampere, FI-33014, Finland
| | | | | | - Roland Grafström
- Misvik Biology OY, Itäinen Pitkäkatu 4, 20520 Turku, Finland
- Karolinska Institute, Institute of Environmental Medicine, Nobels väg 13, 17177 Stockholm, Sweden
| | - Pekka Kohonen
- Misvik Biology OY, Itäinen Pitkäkatu 4, 20520 Turku, Finland
- Karolinska Institute, Institute of Environmental Medicine, Nobels väg 13, 17177 Stockholm, Sweden
| | - Penny Nymark
- Misvik Biology OY, Itäinen Pitkäkatu 4, 20520 Turku, Finland
- Karolinska Institute, Institute of Environmental Medicine, Nobels väg 13, 17177 Stockholm, Sweden
| | - Egon Willighagen
- Department of Bioinformatics – BiGCaT, School of Nutrition and Translational Research in Metabolism, Maastricht University, Universiteitssingel 50, 6229 ER Maastricht, the Netherlands
| | - Tomasz Puzyn
- QSAR Lab Ltd., Aleja Grunwaldzka 190/102, 80-266 Gdansk, Poland
- University of Gdansk, Faculty of Chemistry, Wita Stwosza 63, 80-308 Gdansk, Poland
| | | | - Alexander Lyubartsev
- Institutionen för material- och miljökemi, Stockholms Universitet, 106 91 Stockholm, Sweden
| | - Keld Alstrup Jensen
- The National Research Center for the Work Environment, Lersø Parkallé 105, 2100 Copenhagen, Denmark
| | - Jan Gerit Brandenburg
- Interdisciplinary Center for Scientific Computing, Heidelberg University, Germany
- Chief Digital Organization, Merck KGaA, Frankfurter Str. 250, 64293 Darmstadt, Germany
| | - Stephen Lofts
- UK Centre for Ecology and Hydrology, Library Ave, Bailrigg, Lancaster LA1 4AP, UK
| | - Claus Svendsen
- UK Centre for Ecology and Hydrology, MacLean Bldg, Benson Ln, Crowmarsh Gifford, Wallingford OX10 8BB, UK
| | - Samuel Harrison
- UK Centre for Ecology and Hydrology, Library Ave, Bailrigg, Lancaster LA1 4AP, UK
| | - Dieter Maier
- Biomax Informatics AG, Robert-Koch-Str. 2, 82152 Planegg, Germany
| | - Kaido Tamm
- Department of Chemistry, University of Tartu, Ülikooli 18, 50090 Tartu, Estonia
| | - Jaak Jänes
- Department of Chemistry, University of Tartu, Ülikooli 18, 50090 Tartu, Estonia
| | - Lauri Sikk
- Department of Chemistry, University of Tartu, Ülikooli 18, 50090 Tartu, Estonia
| | - Maria Dusinska
- NILU-Norwegian Institute for Air Research, Instituttveien 18, 2002 Kjeller, Norway
| | - Eleonora Longhin
- NILU-Norwegian Institute for Air Research, Instituttveien 18, 2002 Kjeller, Norway
| | - Elise Rundén-Pran
- NILU-Norwegian Institute for Air Research, Instituttveien 18, 2002 Kjeller, Norway
| | - Espen Mariussen
- NILU-Norwegian Institute for Air Research, Instituttveien 18, 2002 Kjeller, Norway
| | - Naouale El Yamani
- NILU-Norwegian Institute for Air Research, Instituttveien 18, 2002 Kjeller, Norway
| | - Wolfgang Unger
- Federal Institute for Material Testing and Research (BAM), Unter den Eichen 44-46, 12203 Berlin, Germany
| | - Jörg Radnik
- Federal Institute for Material Testing and Research (BAM), Unter den Eichen 44-46, 12203 Berlin, Germany
| | - Alexander Tropsha
- Eschelman School of Pharmacy, University of North Carolina at Chapel Hill, 100K Beard Hall, CB# 7568, Chapel Hill, NC 27955-7568, USA
| | - Yoram Cohen
- Samueli School Of Engineering, University of California, Los Angeles, 5531 Boelter Hall, Los Angeles, CA 90095, USA
| | - Jerzy Leszczynski
- Interdisciplinary Nanotoxicity Center, Jackson State University, 1400 J. R. Lynch Street, Jackson, MS 39217, USA
| | - Christine Ogilvie Hendren
- Center for Environmental Implications of Nanotechnologies, Duke University, 121 Hudson Hall, Durham, NC 27708-0287, USA
| | - Mark Wiesner
- Center for Environmental Implications of Nanotechnologies, Duke University, 121 Hudson Hall, Durham, NC 27708-0287, USA
| | - David Winkler
- La Trobe Institute of Molecular Sciences, La Trobe University, Plenty Rd & Kingsbury Dr, Bundoora, VIC 3086, Australia
- Monash Institute of Pharmaceutical Sciences, Monash University, Parkville 3052, Australia
- CSIRO Data61, Clayton 3168, Australia
- School of Pharmacy, University of Nottingham, Nottingham, UK
| | - Noriyuki Suzuki
- National Institute for Environmental Studies, 16-2 Onogawa, Tsukuba, Ibaraki 305-0053, Japan
| | - Tae Hyun Yoon
- Department of Chemistry, College of Natural Sciences, Hanyang University, Seoul 04763, Republic of Korea
- Institute of Next Generation Material Design, Hanyang University, Seoul 04763, Republic of Korea
| | - Jang-Sik Choi
- Institute of Next Generation Material Design, Hanyang University, Seoul 04763, Republic of Korea
| | - Natasha Sanabria
- National Health Laboratory Services, 1 Modderfontein Rd, Sandringham, Johannesburg 2192, South Africa
| | - Mary Gulumian
- National Health Laboratory Services, 1 Modderfontein Rd, Sandringham, Johannesburg 2192, South Africa
- Haematology and Molecular Medicine, University of the Witwatersrand, Johannesburg, South Africa
| | - Iseult Lynch
- School of Geography, Earth and Environmental Sciences, University of Birmingham, B15 2TT Birmingham, UK
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10
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Sharipov AS, Loukhovitski BI. Small atomic clusters: quantum chemical research of isomeric composition and physical properties. Struct Chem 2019. [DOI: 10.1007/s11224-019-01417-7] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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11
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In-Situ Preparation and Characterization of Aconitic Acid Capped Fe3O4 Nanoparticle by Using Citric Acid as a Reducing Agent. J Inorg Organomet Polym Mater 2019. [DOI: 10.1007/s10904-019-01131-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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12
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Avilov SV, Tuchin AV, Shebanov AN, Domashevskaya EP. Influence of the Crystal Structure of the Nucleus on the Morphology of t-ZnO Tetrapods. CRYSTALLOGR REP+ 2019. [DOI: 10.1134/s1063774519020032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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13
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Wang W, Yan X, Zhao L, Russo DP, Wang S, Liu Y, Sedykh A, Zhao X, Yan B, Zhu H. Universal nanohydrophobicity predictions using virtual nanoparticle library. J Cheminform 2019; 11:6. [PMID: 30659400 PMCID: PMC6689884 DOI: 10.1186/s13321-019-0329-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 01/10/2019] [Indexed: 12/12/2022] Open
Abstract
To facilitate the development of new nanomaterials, especially nanomedicines, a novel computational approach was developed to precisely predict the hydrophobicity of gold nanoparticles (GNPs). The core of this study was to develop a large virtual gold nanoparticle (vGNP) library with computational nanostructure simulations. Based on the vGNP library, a nanohydrophobicity model was developed and then validated against externally synthesized and tested GNPs. This approach and resulted model is an efficient and effective universal tool to visualize and predict critical physicochemical properties of new nanomaterials before synthesis, guiding nanomaterial design.
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Affiliation(s)
- Wenyi Wang
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA
| | - Xiliang Yan
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA.,School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, China
| | - Linlin Zhao
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA
| | - Daniel P Russo
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA
| | - Shenqing Wang
- School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, China
| | - Yin Liu
- Research Center for Eco-Environmental Science, Chinese Academy of Sciences, Beijing, 100085, China
| | - Alexander Sedykh
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA.,Sciome, Research Triangle Park, NC, 27709, USA
| | - Xiaoli Zhao
- Department of Physiological Sciences, Eastern Virginia Medical School, Norfolk, VA, 23507, USA
| | - Bing Yan
- School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, China.,School of Environment, Jinan University, Guangzhou, 510632, China
| | - Hao Zhu
- The Rutgers Center for Computational and Integrative Biology, Camden, NJ, 08102, USA. .,Department of Chemistry, Rutgers University, 315 Penn St., Camden, NJ, 08102, USA. .,College of Life Science and Bio-Engineering, Beijing University of Technology, Beijing, 100124, China.
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14
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Wang J, Wang Y, Huang Y, Peijnenburg WJG, Chen J, Li X. Development of a nano-QSPR model to predict band gaps of spherical metal oxide nanoparticles. RSC Adv 2019; 9:8426-8434. [PMID: 35518709 PMCID: PMC9061875 DOI: 10.1039/c8ra10226k] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Accepted: 03/06/2019] [Indexed: 01/11/2023] Open
Abstract
Antibacterial activities and cytotoxicity of metal oxide nanoparticles are determined by their special band structures, which also influence their potential ecological risks. Traditional experimental determination of the band gap is time-consuming, while the accuracy of theoretical computation depends on the selected algorithm, for which higher precision algorithms, being more expensive, can give a more accurate band gap. Therefore, in this study, a quantitative structure–property relationship (QSPR) model, highlighting the influence of crystalline type and material size, was developed to predict the band gap of metal oxide nanoparticles rapidly and accurately. The structural descriptors for metal oxide nanoparticles were generated via quantum chemistry computations, among which heat of formation and beta angle of the unit cell were the most important parameters influencing band gaps. The developed model shows great robustness and predictive ability (R2 = 0.848, RMSE = 0.378 eV, RMSECV = 0.478 eV, QEXT2 = 0.814, RMSEP = 0.408 eV). The current study can assist in screening the ecological risks of existing metal oxide nanoparticles and may act as a reference for newly designed materials. Antibacterial activities and cytotoxicity of metal oxide nanoparticles are determined by their special band structures, which also influence their potential ecological risks.![]()
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Affiliation(s)
- Jiaxing Wang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE)
- School of Environmental Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
| | - Ya Wang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE)
- School of Environmental Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
| | - Yang Huang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE)
- School of Environmental Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
| | - Willie J. G. M. Peijnenburg
- Institute of Environmental Sciences
- Leiden University
- 2300 RA Leiden
- The Netherlands
- National Institute of Public Health and the Environment
| | - Jingwen Chen
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE)
- School of Environmental Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
| | - Xuehua Li
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE)
- School of Environmental Science and Technology
- Dalian University of Technology
- Dalian 116024
- China
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15
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Burk J, Sikk L, Burk P, Manshian BB, Soenen SJ, Scott-Fordsmand JJ, Tamm T, Tämm K. Fe-Doped ZnO nanoparticle toxicity: assessment by a new generation of nanodescriptors. NANOSCALE 2018; 10:21985-21993. [PMID: 30452031 DOI: 10.1039/c8nr05220d] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
In the search for novel tools to combat cancer, nanoparticles (NPs) have attracted a lot of attention. Recently, the controlled release of cancer-cell-killing metal ions from doped NPs has shown promise, but fine tuning of dissolution kinetics is required to ensure specificity and minimize undesirable toxic side-effects. Theoretical tools to help in reaching a proper understanding and finally be able to control the dissolution kinetics by NP design have not been available until now. Here, we present a novel set of true nanodescriptors to analyze the charge distribution, the effect of doping and surface coating of whole metal oxide NP structures. The polarizable model of oxygen atoms enables light to be shed on the charge distribution on the NP surface, allowing the in detail study of the factors influencing the release of metal ions from NPs. The descriptors and their capabilities are demonstrated on a Fe-doped ZnO nanoparticle system, a system with practical outlook and available experimental data.
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Affiliation(s)
- Jaanus Burk
- Institute of Chemistry, University of Tartu, Ravila 14a, Tartu 50411, Estonia.
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16
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Villaverde JJ, Sevilla-Morán B, López-Goti C, Alonso-Prados JL, Sandín-España P. Considerations of nano-QSAR/QSPR models for nanopesticide risk assessment within the European legislative framework. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 634:1530-1539. [PMID: 29710651 DOI: 10.1016/j.scitotenv.2018.04.033] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2017] [Revised: 04/02/2018] [Accepted: 04/03/2018] [Indexed: 06/08/2023]
Abstract
The European market for pesticides is currently legislated through the well-developed Regulation (EC) No. 1107/2009. This regulation promotes the competitiveness of European agriculture, recognizing the necessity of safe pesticides for human and animal health and the environment to protect crops against pests, diseases and weeds. In this sense, nanotechnology can provide a tremendous opportunity to achieve a more rational use of pesticides. However, the lack of information regarding nanopesticides and their fate and behavior in the environment and their effects on human and animal health is inhibiting rapid nanopesticide incorporation into European Union agriculture. This review analyzes the recent state of knowledge on nanopesticide risk assessment, highlighting the challenges that need to be overcame to accelerate the arrival of these new tools for plant protection to European agricultural professionals. Novel nano-Quantitative Structure-Activity/Structure-Property Relationship (nano-QSAR/QSPR) tools for risk assessment are analyzed, including modeling methods and validation procedures towards the potential of these computational instruments to meet the current requirements for authorization of nanoformulations. Future trends on these issues, of pressing importance within the context of the current European pesticide legislative framework, are also discussed. Standard protocols to make high-quality and well-described datasets for the series of related but differently sized nanoparticles/nanopesticides are required.
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Affiliation(s)
- Juan José Villaverde
- Plant Protection Products Unit, DTEVPF, INIA, Crta, La Coruña, Km. 7.5, 28040 Madrid, Spain.
| | - Beatriz Sevilla-Morán
- Plant Protection Products Unit, DTEVPF, INIA, Crta, La Coruña, Km. 7.5, 28040 Madrid, Spain
| | - Carmen López-Goti
- Plant Protection Products Unit, DTEVPF, INIA, Crta, La Coruña, Km. 7.5, 28040 Madrid, Spain
| | | | - Pilar Sandín-España
- Plant Protection Products Unit, DTEVPF, INIA, Crta, La Coruña, Km. 7.5, 28040 Madrid, Spain
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17
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Ponikvar-Svet M, Zeiger DN, Liebman JF. Interplay of thermochemistry and Structural Chemistry, the journal (volume 28, 2017, issues 3–4) and the discipline. Struct Chem 2018. [DOI: 10.1007/s11224-018-1137-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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18
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19
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Efeoglu E, Maher MA, Casey A, Byrne HJ. Toxicological assessment of nanomaterials: the role of in vitro Raman microspectroscopic analysis. Anal Bioanal Chem 2017; 410:1631-1646. [DOI: 10.1007/s00216-017-0812-x] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Revised: 11/22/2017] [Accepted: 12/06/2017] [Indexed: 12/21/2022]
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