Literature DB >> 27143028

How should the completeness and quality of curated nanomaterial data be evaluated?

Richard L Marchese Robinson1, Iseult Lynch, Willie Peijnenburg, John Rumble, Fred Klaessig, Clarissa Marquardt, Hubert Rauscher, Tomasz Puzyn, Ronit Purian, Christoffer Åberg, Sandra Karcher, Hanne Vriens, Peter Hoet, Mark D Hoover, Christine Ogilvie Hendren, Stacey L Harper.   

Abstract

Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict nanomaterials' behaviour. This supports innovation in, and regulation of, nanotechnology. It is commonly understood that curated data need to be sufficiently complete and of sufficient quality to serve their intended purpose. However, assessing data completeness and quality is non-trivial in general and is arguably especially difficult in the nanoscience area, given its highly multidisciplinary nature. The current article, part of the Nanomaterial Data Curation Initiative series, addresses how to assess the completeness and quality of (curated) nanomaterial data. In order to address this key challenge, a variety of related issues are discussed: the meaning and importance of data completeness and quality, existing approaches to their assessment and the key challenges associated with evaluating the completeness and quality of curated nanomaterial data. Considerations which are specific to the nanoscience area and lessons which can be learned from other relevant scientific disciplines are considered. Hence, the scope of this discussion ranges from physicochemical characterisation requirements for nanomaterials and interference of nanomaterials with nanotoxicology assays to broader issues such as minimum information checklists, toxicology data quality schemes and computational approaches that facilitate evaluation of the completeness and quality of (curated) data. This discussion is informed by a literature review and a survey of key nanomaterial data curation stakeholders. Finally, drawing upon this discussion, recommendations are presented concerning the central question: how should the completeness and quality of curated nanomaterial data be evaluated?

Entities:  

Year:  2016        PMID: 27143028      PMCID: PMC4899944          DOI: 10.1039/c5nr08944a

Source DB:  PubMed          Journal:  Nanoscale        ISSN: 2040-3364            Impact factor:   7.790


  110 in total

1.  Minimal analytical characterization of engineered nanomaterials needed for hazard assessment in biological matrices.

Authors:  Hans Bouwmeester; Iseult Lynch; Hans J P Marvin; Kenneth A Dawson; Markus Berges; Diane Braguer; Hugh J Byrne; Alan Casey; Gordon Chambers; Martin J D Clift; Giuliano Elia; Teresa F Fernandes; Lise B Fjellsbø; Peter Hatto; Lucienne Juillerat; Christoph Klein; Wolfgang G Kreyling; Carmen Nickel; Michael Riediker; Vicki Stone
Journal:  Nanotoxicology       Date:  2010-05-06       Impact factor: 5.913

Review 2.  Manufactured nanomaterials: categorization and approaches to hazard assessment.

Authors:  Thomas Gebel; Heidi Foth; Georg Damm; Alexius Freyberger; Peter-Jürgen Kramer; Werner Lilienblum; Claudia Röhl; Thomas Schupp; Carsten Weiss; Klaus-Michael Wollin; Jan Georg Hengstler
Journal:  Arch Toxicol       Date:  2014-10-19       Impact factor: 5.153

Review 3.  Keeping it real: The importance of material characterization in nanotoxicology.

Authors:  Bengt Fadeel; Andrea Fornara; Muhammet S Toprak; Kunal Bhattacharya
Journal:  Biochem Biophys Res Commun       Date:  2015-07-15       Impact factor: 3.575

Review 4.  Nanopesticides: guiding principles for regulatory evaluation of environmental risks.

Authors:  Rai S Kookana; Alistair B A Boxall; Philip T Reeves; Roman Ashauer; Sabine Beulke; Qasim Chaudhry; Geert Cornelis; Teresa F Fernandes; Jay Gan; Melanie Kah; Iseult Lynch; James Ranville; Chris Sinclair; David Spurgeon; Karen Tiede; Paul J Van den Brink
Journal:  J Agric Food Chem       Date:  2014-04-30       Impact factor: 5.279

5.  Classification NanoSAR development for cytotoxicity of metal oxide nanoparticles.

Authors:  Rong Liu; Robert Rallo; Saji George; Zhaoxia Ji; Sumitra Nair; André E Nel; Yoram Cohen
Journal:  Small       Date:  2011-03-24       Impact factor: 13.281

Review 6.  Nanotoxicology: an emerging discipline evolving from studies of ultrafine particles.

Authors:  Günter Oberdörster; Eva Oberdörster; Jan Oberdörster
Journal:  Environ Health Perspect       Date:  2005-07       Impact factor: 9.031

7.  Nanocuration workflows: Establishing best practices for identifying, inputting, and sharing data to inform decisions on nanomaterials.

Authors:  Christina M Powers; Karmann A Mills; Stephanie A Morris; Fred Klaessig; Sharon Gaheen; Nastassja Lewinski; Christine Ogilvie Hendren
Journal:  Beilstein J Nanotechnol       Date:  2015-09-04       Impact factor: 3.649

Review 8.  Quality control on the frontier.

Authors:  Konrad H Paszkiewicz; Audrey Farbos; Paul O'Neill; Karen Moore
Journal:  Front Genet       Date:  2014-05-27       Impact factor: 4.599

9.  Minimum Information About a Microarray Experiment (MIAME)--successes, failures, challenges.

Authors:  Alvis Brazma
Journal:  ScientificWorldJournal       Date:  2009-05-29

10.  The Nanomaterial Registry: facilitating the sharing and analysis of data in the diverse nanomaterial community.

Authors:  Michele L Ostraat; Karmann C Mills; Kimberly A Guzan; Damaris Murry
Journal:  Int J Nanomedicine       Date:  2013-09-16
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  16 in total

Review 1.  QSAR without borders.

Authors:  Eugene N Muratov; Jürgen Bajorath; Robert P Sheridan; Igor V Tetko; Dmitry Filimonov; Vladimir Poroikov; Tudor I Oprea; Igor I Baskin; Alexandre Varnek; Adrian Roitberg; Olexandr Isayev; Stefano Curtarolo; Denis Fourches; Yoram Cohen; Alan Aspuru-Guzik; David A Winkler; Dimitris Agrafiotis; Artem Cherkasov; Alexander Tropsha
Journal:  Chem Soc Rev       Date:  2020-05-01       Impact factor: 54.564

2.  NanoEHS beyond Toxicity - Focusing on Biocorona.

Authors:  Sijie Lin; Monika Mortimer; Ran Chen; Aleksandr Kakinen; Jim E Riviere; Thomas P Davis; Feng Ding; Pu Chun Ke
Journal:  Environ Sci Nano       Date:  2017-06-01

3.  Can an InChI for Nano Address the Need for a Simplified Representation of Complex Nanomaterials across Experimental and Nanoinformatics Studies?

Authors:  Iseult Lynch; Antreas Afantitis; Thomas Exner; Martin Himly; Vladimir Lobaskin; Philip Doganis; Dieter Maier; Natasha Sanabria; Anastasios G Papadiamantis; Anna Rybinska-Fryca; Maciej Gromelski; Tomasz Puzyn; Egon Willighagen; Blair D Johnston; Mary Gulumian; Marianne Matzke; Amaia Green Etxabe; Nathan Bossa; Angela Serra; Irene Liampa; Stacey Harper; Kaido Tämm; Alexander CØ Jensen; Pekka Kohonen; Luke Slater; Andreas Tsoumanis; Dario Greco; David A Winkler; Haralambos Sarimveis; Georgia Melagraki
Journal:  Nanomaterials (Basel)       Date:  2020-12-11       Impact factor: 5.076

4.  Nano- and microparticles at fluid and biological interfaces.

Authors:  S Dasgupta; T Auth; G Gompper
Journal:  J Phys Condens Matter       Date:  2017-06-13       Impact factor: 2.333

5.  Identifying diverse metal oxide nanomaterials with lethal effects on embryonic zebrafish using machine learning.

Authors:  Richard Liam Marchese Robinson; Haralambos Sarimveis; Philip Doganis; Xiaodong Jia; Marianna Kotzabasaki; Christiana Gousiadou; Stacey Lynn Harper; Terry Wilkins
Journal:  Beilstein J Nanotechnol       Date:  2021-11-29       Impact factor: 3.649

Review 6.  A Systematic Review on the Hazard Assessment of Amorphous Silica Based on the Literature From 2013 to 2018.

Authors:  Harald F Krug
Journal:  Front Public Health       Date:  2022-06-15

7.  Provenance information as a tool for addressing engineered nanoparticle reproducibility challenges.

Authors:  Donald R Baer; Prabhakaran Munusamy; Brian D Thrall
Journal:  Biointerphases       Date:  2016-10-19       Impact factor: 2.456

8.  Function of RSKS-1-AAK-2-DAF-16 signaling cascade in enhancing toxicity of multi-walled carbon nanotubes can be suppressed by mir-259 activation in Caenorhabditis elegans.

Authors:  Ziheng Zhuang; Min Li; Hui Liu; Libo Luo; Weidong Gu; Qiuli Wu; Dayong Wang
Journal:  Sci Rep       Date:  2016-08-30       Impact factor: 4.379

9.  A statistical approach to identify, monitor, and manage incomplete curated data sets.

Authors:  Douglas G Howe
Journal:  BMC Bioinformatics       Date:  2018-04-02       Impact factor: 3.169

10.  Toxicity Classification of Oxide Nanomaterials: Effects of Data Gap Filling and PChem Score-based Screening Approaches.

Authors:  My Kieu Ha; Tung Xuan Trinh; Jang Sik Choi; Desy Maulina; Hyung Gi Byun; Tae Hyun Yoon
Journal:  Sci Rep       Date:  2018-02-16       Impact factor: 4.379

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