Publications
Nature Portfolio: “A gene regulation model reveals an ancestral adaptation response to particulate exposure triggered by nanomaterials”
2023
AUTHORS: Giusy del Giudice, Angela Serra, Laura Saarimäki, Konstantinos Kotsis, Ian Rouse, Anais Colibaba, Karolina Jagiello, Alicja Mikolajczyk, Anastasios Papadiamantis, Natasha Sanabria, Pia Kinaret, Evangelos Voyiatzis, Georgia Melagraki, Antreas Afantitis, Kaido Tamm, Tomasz Puzyn, Mary Gulumian, Vladimir Lobaskin, Iseult Lynch, Antonio Federico, Dario Greco.
09/02/2023
AUTHORS: Selvaraj Sengottiyan, Alicja Mikolajczyk, Tomasz Puzyn
Nano Today 48 (2023) 101735: “Systems toxicology to advance human and environmental hazard assessment: A roadmap for advanced materials”
31/01/2023
AUTHORS: M.J.B. Amorim, W. Peijnenburg, D. Greco, L.A. Saarimäki, V.I. Dumit, A. Bahl, A. Haase, L. Tran, J. Hackermüller, S. Canzler and J.J. Scott-Fordsmand.
ASC Publications | “Core, Coating, or Corona? The Importance of Considering Protein Coronas in nano-QSPR Modeling of Zeta Potential“
18/01/2023
AUTHORS: Selvaraj Sengottiyan, Alicja Mikolajczyk, Karolina Jagiełło, Marta Swirog, and Tomasz Puzyn
Int. J. Mol. Sci. 2022, 23(21), 13196: “One Step before Synthesis: Structure–Property–Condition Relationship Models to Sustainable Design of Efficient TiO2-Based Multicomponent Nanomaterials”
30/10/2022
AUTHORS: Alicja Mikolajczyk and Dawid Falkowski
20/09/2022
AUTHORS: Marta Swirog, Alicja Mikołajczyk, Karolina Jagiello, Jaak Jänes, Kaido Tämm, Tomasz Puzyn
18/06/2022
AUTHORS: Marta Swirog, Alicja Mikołajczyk, Karolina Jagiello, Jaak Jänes, Kaido Tämm, Tomasz Puzyn
Nanotoxicology 2022, VOL. 16, NO. 3, 276–289: “NanoMixHamster: a web-based tool for predicting cytotoxicity of TiO2-based multicomponent nanomaterials toward Chinese hamster ovary (CHO-K1) cells”
17/06/2022
AUTHORS: Filip Stoliński, Anna Rybińska-Fryca, Maciej Gromelski, Alicja Mikolajczyk and Tomasz Puzyn.
07/04/2022
AUTHORS: Marta Swirog, Alicja Mikołajczyk, Karolina Jagiello, Jaak Jänes, Kaido Tämm, Tomasz Puzyn
Environmental Toxicology and Chemistry: “Meta-analysis of Bioaccumulation Data for Nondissolvable Engineered Nanomaterials in Freshwater Aquatic Organisms”
21/02/2022
AUTHORS: Zheng, Y.; Nowack, B.
Science Direct: “Effects of natural organic matter on the joint toxicity and accumulation of Cu nanoparticles and ZnO nanoparticles in Daphnia magna”
01/2022
AUTHORS: Qi Yu, Zhuang Wang, Guiyin Wang, Willie J. G. M. Peijnenburg, Martina G. Vijver
Nanomaterials 2021: “A Multi-Scale Modelling of Aggregation of TiO2 Nanoparticle Suspensions in Water”
15/12/ 2021
AUTHORS: Giulia Mancardi, Matteo Alberghini, Neus Aguilera-Porta, Monica Calatayud, Pietro Asinari, Eliodoro Chiavazzo
Science Direct: “Effects of natural organic matter on the joint toxicity and accumulation of Cu nanoparticles and ZnO nanoparticles in Daphnia magna“
28/10/2021
AUTHORS: Qi Yu, Zhuang Wang, Guiyin Wang, Willie J. G. M. Peijnenburg, Martina G. Vijver
01/10/2021
AUTHORS: Vera L. Maria, David Licha, Janeck J. Scott-Fordsmand, Christian G. Huber, and Mónica J. B. Amorim
Science Direct: “Alternative test methods for (nano)materials hazards assessment: Challenges and recommendations for regulatory preparedness“
10/2021
AUTHORS: Susana I.L. Gomes, Janeck J. Scott-Fordsmand and Monica J.B. Amorim
10/2021
AUTHORS: Susana I.L. Gomes, Janeck J. Scott-Fordsmand and Monica J.B. Amorim
Science Direct: “Identification of Monotonic Trends in the Dose-response Relationship of Nanomaterial Toxicity Data using the R package NMTox“
24/09/2021
AUTHORS: Rahmasari Nur Azizah, Geert Verheyen, Sabine Van Miert and Ziv Shkedy
labAnimal: “Annelid genomes: Enchytraeus crypticus, a soil model for the innate (and primed) immune system”
06/09/2021
AUTHORS: Mónica J.B. Amorim, Yannick Gansemans, Susana I.L. Gomes, Filip Van Nieuwerburgh and Janeck J. Scott-Fordsmand
Science Direct: “Probing nano-QSAR to assess the interactions between carbon nanoparticles and a SARS-CoV-2 RNA fragment“
08/2021
AUTHORS: Fan Zhang, Zhuang Wang, Martina G. Vijver, Willie J.G.M. Peijnenburg
NanoMicroSmall: “Nanocharacterization, Materials Modeling, and Research Integrity as Enablers of Sound Risk Assessment: Designing Responsible Nanotechnology”
12/07/2021
AUTHORS: Ioannis Xiarchos, Athanasios K. Morozinis, Panagiotis Kavouras, Costas A. Charitidis
National Library of Medicine: “Computer Simulations of the Dissociation Mechanism of Gleevec from Abl Kinase with Milestoning”
10/06/2021
AUTHORS: Narayan B, Buchete NV, Elber R.
16/06/2021
AUTHORS: Vera L. Maria, David Licha, Janeck J. Scott-Fordsmand, Christian G. Huber, and Mónica J. B. Amorim
Science Direct: “Probing nano-QSAR to assess the interactions between carbon nanoparticles and a SARS-CoV-2 RNA fragment”
19/05/2021
AUTHORS: Fan Zhang, Zhuang Wang, Martina G. Vijver, Willie J.G.M. Peijnenburg
Science Direct: “Zeta potentials of metal oxide nanoparticles: a meta-analysis of experimental data and predictive neural networks modeling”
4/04/2021
AUTHORS: Alicja Mikołajczyk, NataliaSizochenko, Michael Syzochenko, Tomasz Puzyn, Jerzy Leszczynski
Environmental Science & Technology: “Size-Specific, Dynamic, Probabilistic Material Flow Analysis of Titanium Dioxide Releases into the Environment”
4/02/2021
AUTHORS: Yuanfang Zheng, Bernd Nowack
Nanoimpact Journal: “Zeta potentials (ζ) of metal oxide nanoparticles: A meta-analysis of experimental data and a predictive neural networks modeling.”
2021
AUTHORS: Alicja Mikołajczyk, NataliaSizochenko, Michael Syzochenko, Tomasz Puzyn, Jerzy Leszczynski
Editorial: Nanomaterials | Special Issue “From Nanoinformatics to Nanomaterials Risk Assessment and Governance”
07/01/2021
AUTHORS: Iseult Lynch, Antreas Afantitis, Dario Greco, Maria Dusinska, Miguel A.Banares, Georgia Melagraki
Science Direct | “Embryotoxicity of silver nanomaterials (Ag NM300k) in the soil invertebrate Enchytraeus crypticus – Functional assay detects Ca channels shutdown“.
01/2021
AUTHORS: Rita C. Bicho, Augusto M.R. Faustino, Fátima Carvalho, Amadeu M.V.M. Soares, Janeck J. Scott-Fordsmand, Mónica J.B. Amorim
Nanoscale Adv. 2021: “The role of size and nature in nanoparticle binding to a model lung membrane: an atomistic study”
2021
AUTHORS: Singhal A, Agur Sevink GJ
J Phys Chem B: “Replica Exchange Molecular Dynamics of Diphenylalanine Amyloid Peptides in Electric Fields”
2021
AUTHORS: Narayan B, Herbert C, Rodriguez BJ, Brooks BR, Buchete NV.
2021
AUTHORS: Rita C. Bicho, Augusto M.R. Faustino, Fátima Carvalho, Amadeu M.V.M. Soares, Janeck J. Scott-Fordsmand, Mónica J.B. Amorim
BMC Bioinformatics: “multiGSEA: A GSEA-based pathway enrichment analysis for multi-omics data”
07/12/ 2020
AUTHORS: Sebastian Canzler, Jörg Hackermüller
Environmental Nano: “The effect of Ag, Au, Pt, and Pd on the surface properties, photocatalytic activity and toxicity of multicomponent TiO2-based nanomaterials”
7/09/2020
AUTHORS: Anna Malankowska, Alicja Mikolajczyk, Joanna Mędrzycka, Izabela Wysocka, Grzegorz Nowaczyk, Marcin Jarek, Tomasz Puzyn, Ewa Mulkiewicz
ASC Publicatiobs: “Prediction of the Joint Toxicity of Multiple Engineered Nanoparticles: The Integration of Classic Mixture Models and In Silico Methods“
14/09/2020
AUTHORS: Fan Zhang, Zhuang Wang, Martina G. Vijver, Willie J.G.M. Peijnenburg
Environmental Nano: “The effect of Ag, Au, Pt, and Pd on the surface properties, photocatalytic activity and toxicity of multicomponent TiO2-based nanomaterials”
17/09/2020
AUTHORS: Anna Malankowska, Alicja Mikolajczyk, Joanna Mędrzycka, Izabela Wysocka, Grzegorz Nowaczyk, Marcin Jarek, Tomasz Puzyn, Ewa Mulkiewicz
Science Direct: “Developing an epigenetics model species – from blastula to mature adult, life cycle methylation profile of Enchytraeus crypticus (Oligochaete)”
25/08/2020
AUTHORS: Rita C. Bicho, Janeck J. Scott-Fordsmand, Mónica J.B. Amorim
Nano Micro Small: “Nanocharacterization, Materials Modeling, and Research Integrity as Enablers of Sound Risk Assessment: Designing Responsible Nanotechnology”
12/07/2020
AUTHORS: Ioannis Xiarchos, Athanasios K. Morozinis, Panagiotis Kavouras, Costas A. Charitidis
National Library of Medicine: “The transition between active and inactive conformations of Abl kinase studied by rock climbing and Milestoning. Biochim Biophys Acta”
01/04/2020
AUTHORS: Narayan B, Fathizadeh A, Templeton C, He P, Arasteh S, Elber R., Gen Subj.
Journal of Colloid and interface Science: “How thermal stability of ionic liquids leads to more efficient TiO2-based nanophotocatalysts: theoretical and experimental studies”
Elsevier, 25 March 2020
AUTHORS: Anna Rybińska-Fryca, Alicja Mikołajczyk, Justyna Łuczak, Marta Paszkiewicz-Gawron, manika Paszkiewicz, Adriana Zaleska-Medynska, Tomasz Puzyn
Bioinformatics: “BMDx: a graphical Shiny application to perform Benchmark Dose analysis for transcriptomics data”
17/01/ 2020
AUTHORS: Angela Serra, Laura Aliisa Saarimäki, Michele Fratello, Veer Singh Marwah, Dario Greco
Prog Mol Biol Transl Sci.2: “Long-time methods for molecular dynamics simulations: Markov State Models and Milestoning”
1/01/ 2020
AUTHORS: Narayan B, Yuan Y, Fathizadeh A, Elber R, Buchete NV.
Environment International: “Epigenetic effects of (nano)materials in environmental species – Cu case study in Enchytraeus crypticus”
Volume 136 (2020) 105447, Elsevier, January 2020
AUTHORS: Rita C. Bicho, Dick Roelofs, Janine Mariën, Janeck J. Scott-Fordsmand, Mónica J.B. Amorim
Environment Science Nano: “The effect of Ag, Au, Pt, and Pd on the surface properties, photocatalytic activity and toxicity of multicomponent TiO2-based nanomaterials”
01/2020
AUTHORS: Malankowska A, Mikołajczyk A, Mȩdrzycka J, Wysocka I, Nowaczyk G, Jarek M, et al.
Environment Science Nano: “The effect of Ag, Au, Pt, and Pd on the surface properties, photocatalytic activity and toxicity of multicomponent TiO2-based nanomaterials”
01/2020
AUTHORS: Malankowska A, Mikołajczyk A, Mȩdrzycka J, Wysocka I, Nowaczyk G, Jarek M, et al.
ACS Publications | “Prediction of the Joint Toxicity of Multiple Engineered Nanoparticles: The Integration of Classic Mixture Models and In Silico Methods“
2020
AUTHORS: Fan Zhang, Zhuang Wang, Martina G. Vijver, Willie J.G.M. Peijnenburg
Environmental Science: Nano, 1661–1669 | “Multivariate Analysis of the Exposure and Hazard of Ceria Nanomaterials in Indoor Aquatic Mesocosms.”
2020
AUTHORS: Nassar, M., Auffan, M., Santaella, C., Masion, A., and Rose, J.
Bioinformatics, Volume 36, Issue 9, May 2020, Pages 2932–2933, | “BMDx: a graphical Shiny application to perform Benchmark Dose analysis for transcriptomics data”
2020
AUTHORS:
Science Direct: “Developing an epigenetics model species – From blastula to mature adult, life cycle methylation profile of Enchytraeus crypticus (Oligochaete)“
2020
AUTHORS: Rita C. Bicho, Janeck J. Scott-Fordsmand, and Mónica J.B. Amorim
Nanoscale, England, 23 May 2019
AUTHORS: Mikolajczyk A., Sizochenko N., Mulkiewicz, E., Malankowska A., Rasulev B., Puzyn T.
Harvard University (USA), 5-6 March 2019
AUTHOR: Miguel Bañares
Regulatory Toxicology and Pharmacology: “Pulmonary toxicity of silver vapours, nanoparticles and fine dusts: A review”
AUTHORS: Niels Hadrup, Anoop K. Sharma , Katrin Loeschner , and Nicklas R. Jacobsen
Nanomaterials: “Transcriptomics in Toxicogenomics, Part I: Experimental Design, Technologies, Publicly Available Data, Regulatory Aspects”
AUTHORS: Pia Anneli Sofia Kinaret, Angela Serra, Antonio Federico, Pekka Kohonen, Penny Nymark, Irene Liampa, My Kieu Ha , Jang-Sik Choi, Karolina Jagiello, Natasha Sanabri, Georgia Melagraki, Luca Cattelani, Michele Fratello, Haralambos Sarimveis6, Antreas Afantitis , Tae-Hyun Yoon, Mary Gulumian, Roland Grafström, Tomasz Puzyn, Dario Greco
Materials: “Your spreadsheets can be FAIR: a tool and FAIRification workflow for eNanoMapper database”
AUTHORS: Nikolay Kochev, Nina Jeliazkova, Vesselina Paskaleva, Gergana Tancheva, Luchesar Iliev, Peter Ritchie, Vedrin Jeliazkov.
Nanomaterials: “Multigenerational exposure to WCCo nanomaterials – epigenetics in the soil invertebrate Enchytraeus crypticus”
AUTHORS: Rita C. Bicho, Janeck J. Scott-Fordsmand, Mónica J.B. Amorim.
Environmental Science: Nano | “Nano-QSAR modeling for ecosafe design of heterogeneous TiO2-based nano-photocatalysts”
07/04/2018
AUTHORS: Alicja Mikolajczyk, Agnieszka Gajewicz, Ewa Mulkiewicz, Bakhtiyor Rasulev, Martyna Marchelek, Magdalena Diak, Seishiro Hirano, Adriana Zaleska-Medynska and Tomasz Puzyn