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18th International Conference on QSAR in Environmental and Health Sciences (QSAR 2018)

Chemometrical analysis of proteomics data obtained from three cell types treated with multi-walled carbon nanotubes and TiO2 nanobelts$

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Pages 567-577 | Received 30 May 2018, Published online: 27 Jul 2018

References

  • U.M. Musazzi, V. Marini, A. Casiraghi, and P. Minghetti, Is the European regulatory framework sufficient to assure the safety of citizens using health products containing nanomaterials?, Drug Discov. Today 22 (2017), pp. 870–882.
  • M. Vracko, F.A. Witzmann, and S.C. Basak, Editorial. A possible chemo-biodescriptor framework for the prediction of toxicity of nanosubstances: An integrated computational approach, Curr. Comput. Aided Drug Des. 14 (2018), pp. 2–4.
  • D.A. Winkler, F.R. Burden, B. Yan, R. Wickeder, C. Tassa, S. Shaw, and V.C. Epa, Modelling and predicting the biological effects of nanomaterials, SAR QSAR Environ. Res. 25 (2014), pp. 161–172.
  • A. Cassano, R.L. Marchese Robinson, A. Palczewska, T. Puzyn, A. Gajewicz, L. Tran, S. Manganelli, and M.T.D. Cronin, Comparing the CORAL and random forest approaches for modelling the in vitro cytotoxicity of silica nanomaterials, ATLA 44 (2016), pp. 533–556.
  • L. Lubinski, P. Urbaszek, A. Gajewicz, M.T.D. Cronin. S.J. Enoch, J.C. Madden, D. Leszczynska, J. Leszczynski, and T. Puzyn, Evaluation criteria for the quality of published experimental data on nanomaterials and their usefulness for QSAR modelling, SAR QSAR Environ. Res. 24 (2013), pp. 995–1008.
  • E. Papa, J.P. Doucet, and A. Doucet-Panaye, Linear and non-linear modelling of the cytotoxicity of TiO2 and ZnO nanoparticles by empirical descriptors, SAR QSAR Environ. Res. 26 (2015), pp. 647–665.
  • H.K. Shin, K.Y. Kim, J.W. Park, and K.T. No, Use of metal/metal oxide spherical cluster and hydroxyl metal coordination complex for descriptor calculation in development of nanoparticle cytotoxicity classification model, SAR QSAR Environ. Res. 28 (2017), pp. 875–888.
  • R. Carbo-Dorca and E. Besalu, Construction of coherent nano quantitative structures-properties relationships (nano-QSPR) models and catastrophe theory, SAR QSAR Environ. Res. 22 (2011), pp. 661–665.
  • N.S. Fjodorova, M. Novič, A. Gajewicz, and B. Rasulev, The way to cover prediction for cytotoxicity for all existing nano-sized metal oxides by using neural network method, Nanotoxicology 11 (2017), pp. 475–483.
  • K. Soto, K.M. Garza, and L.E. Murr, Cytotoxic effects of aggregated nanomaterials, Acta Biomater. 3 (2007), pp. 351–358.
  • L. Van Meulebroek, J. Wauters, B. Pomian, J. Vanden Bussche, P. Delahaut, E. Fichant, and L. Vanhaecke, Discovery of urinary biomarkers to discriminate between exogenous and semi-endogenous thiouracil in cattle: A parallel-like randomized design, PLOS One, April 12, (2018), https://doi.org/10.1371/journal.pone.0195351.
  • M. Randic, F. Witzmann, M. Vracko, and S.C. Basak, On characterization of proteomics maps and chemically induced changes in proteomes using matrix invariants: Application to peroxisome proliferators, Med. Chem. Res. 10 (2001), pp. 456–479.
  • M. Vracko and S. C. Basak, Similarity study of proteomic maps, Chemom. Intell. Lab. Syst. 70 (2004), pp. 33–38.
  • D.M. Hawkins, S.C. Basak, J. Kraker, K. Geiss, and F.A. Witzmann, Combining chemodescriptors and biodescriptors in quantitative structure-activity relationship modeling, J. Chem. Inf. Model. 46 (2006), pp. 9–16.
  • S.C. Basak, B.D. Gute, and F. Witzmann, Information-theoretic biodescriptors for proteomics maps: Development and applications in predictive toxicology, Conference proceedings, WSEAS Transactions on Information Science and Applications, World Scientific and Engineering Academy and Society, 2005, 7, pp. 996–1001.
  • M. Vracko, S.C. Basak, K. Geiss, and F. Witzmann, Proteomic maps-toxicity relationship of halocarbons studied with similarity index and genetic algorithm, J. Chem. Inf. Model. 46 (2006), pp. 130–136.
  • B.L. Blazer-Yost, A. Banga, A. Amos, E. Chernoff, X. Lai, C. Li, S. Mitra, and F.A. Witzmann, Effect of carbon nanoparticles on renal epithelial cell structure, barrier function, and protein expression, Nanotoxicology 5 (2011), pp. 354–371.
  • K.K. Jain, Advances in use of functionalized carbon nanotubes for drug design and discovery, Expert Opin. Drug. Discov. 8 (2012), pp. 1029–1037.
  • J. Wang, D.N. Tafen, J.P. Lewis, Z. Hong, A. Manivannan, M. Zhi, M. Li, and N. Wu, Origin of photocatalytic activity of nitrogen-doped TiO2 nanobelts, J. Am. Chem. Soc. 131 (2009), pp. 12290–12297.
  • S.C. Basak, M. Vracko, and F.A. Witzmann, Mathematical nanotoxicoproteomics: Quantitative characterization of effects of multi-walled carbon nanotubes (MWCNT) and TiO2 nanobelts (TiO2-NB) on protein expression patterns in human intestinal cells, Curr. Comput. Aided Drug Des. 12 (2016), pp. 259–264.
  • C.A. Poland, R. Duffin, I. Kinloch, A. Maynard, W.A. Wallace, A. Seaton, V. Stone, S. Brown, W. Macnee, and K. Donaldson, Carbon nanotubes introduced into the abdominal cavity of mice show asbestos-like pathogenicity in a pilot study, Nat. Nanotechnol. 3 (2008), pp. 423–428.
  • A. Menard, D. Drobne, and A. Jemec, Ecotoxicity of nanosized TiO2. Review of in vivo data, Environ. Pollut. 159 (2011), pp. 677–684.
  • C.M. Mansfield, M.M. Alloy, J. Hamilton, G.F. Verbeck, K. Newton, S.J. Klaine, and A.P. Roberts, Photo-induced toxicity of titanium dioxide nanoparticles to Daphnia magna under natural sunlight, Chemosphere 120 (2015), pp. 206–210.
  • Z. Zhang, Z.C. Liang, J.H. Zhang, S.L. Tian, J.L. Qu, J.N. Tang, and S.D. Liu, Nano-sized TiO2 (nTiO2) induces metabolic perturbations in Pysarum polycephalum macroplasmodium to counter oxidative stress under dark conditions, Ecotoxicol. Environ. Saf. 154 (2018), pp. 108–117.
  • L.-C. Yeoh, S. Dharmaraj, B.-H. Gooi, M. Singh, and L.-H. Gam, Chemometrics of differentially expressed proteins from colorectal cancer patients, J. Gastroenterol. 17 (2011), pp. 2096–2103.
  • S.C. Tilton, N.J. Karin, A. Tolic, Y. Xie, X. Lai, R.F. Jr Hamilton, K.M. Waters, A. Holian, F.A. Witzmann, and G. Orr, Three human cell types respond to multi-walled carbon nanotubes and titanium dioxide nanobelts with cell-specific transcriptomic and proteomic expression patterns, Nanotoxicology 8 (2014), pp. 533–548.
  • X. Lai, L. Wang, H. Tang, and F.A. Witzmann, A novel alignment method and multiple filters for exclusion of unqualified peptides to enhance label-free quantification using peptide intensity in LC-MS/MS, J. Proteome Res. 10 (2001), pp. 4799–4812.
  • A.I. Nesvizhskii, A. Keller, E. Kolker, and R. Aebersold, A statistical model for identifying proteins by tandem mass spectrometry, Anal. Chem. 75 (2003), pp. 4646–4658.
  • A. Keller, A.I. Nesvizhskii, E. Kolker, and R. Aebersold, Empirical statistical model to estimate the accuracy of peptide identifications made by ms/ms and database search, Anal. Chem. 74 (2002), pp. 5383–5392.
  • M. Bolčič-Tavčar and M. Vračko, Assessing of reproductive toxicity of some (con)azole compounds using a structure-activity relationship approach, SAR QSAR Environ. Res. 20 (2009), pp. 711–725.
  • T.M. Martin, Prediction of in vitro and in vivo oestrogen receptor activity using hierarchical clustering, SAR QSAR Environ. Res. 27 (2016), pp. 17–30.
  • S. Bilokapic, M. Strauss, and M. Halic, Structural rearrangements of the histone octamer translocate DNA, Nat. Commun. 9 (2018), 1330; doi:10.1038/s41467-018-03677-z.

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