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Towards the development of an omics data analysis framework.
Verheijen M, Tong W, Shi L, Gant TW, Seligman B, Caiment F. Verheijen M, et al. Among authors: caiment f. Regul Toxicol Pharmacol. 2020 Apr;112:104621. doi: 10.1016/j.yrtph.2020.104621. Epub 2020 Feb 19. Regul Toxicol Pharmacol. 2020. PMID: 32087354
The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance.
Wang C, Gong B, Bushel PR, Thierry-Mieg J, Thierry-Mieg D, Xu J, Fang H, Hong H, Shen J, Su Z, Meehan J, Li X, Yang L, Li H, Łabaj PP, Kreil DP, Megherbi D, Gaj S, Caiment F, van Delft J, Kleinjans J, Scherer A, Devanarayan V, Wang J, Yang Y, Qian HR, Lancashire LJ, Bessarabova M, Nikolsky Y, Furlanello C, Chierici M, Albanese D, Jurman G, Riccadonna S, Filosi M, Visintainer R, Zhang KK, Li J, Hsieh JH, Svoboda DL, Fuscoe JC, Deng Y, Shi L, Paules RS, Auerbach SS, Tong W. Wang C, et al. Among authors: caiment f. Nat Biotechnol. 2014 Sep;32(9):926-32. doi: 10.1038/nbt.3001. Epub 2014 Aug 24. Nat Biotechnol. 2014. PMID: 25150839 Free PMC article.
Development and regulatory application of microRNA biomarkers.
Krauskopf J, Verheijen M, Kleinjans JC, de Kok TM, Caiment F. Krauskopf J, et al. Among authors: caiment f. Biomark Med. 2015;9(11):1137-51. doi: 10.2217/bmm.15.50. Epub 2015 Oct 26. Biomark Med. 2015. PMID: 26502281 Review.
Bringing in vitro analysis closer to in vivo: Studying doxorubicin toxicity and associated mechanisms in 3D human microtissues with PBPK-based dose modelling.
Verheijen M, Schrooders Y, Gmuender H, Nudischer R, Clayton O, Hynes J, Niederer S, Cordes H, Kuepfer L, Kleinjans J, Caiment F. Verheijen M, et al. Among authors: caiment f. Toxicol Lett. 2018 Sep 15;294:184-192. doi: 10.1016/j.toxlet.2018.05.029. Epub 2018 May 24. Toxicol Lett. 2018. PMID: 29803840 Free article.
DMSO induces drastic changes in human cellular processes and epigenetic landscape in vitro.
Verheijen M, Lienhard M, Schrooders Y, Clayton O, Nudischer R, Boerno S, Timmermann B, Selevsek N, Schlapbach R, Gmuender H, Gotta S, Geraedts J, Herwig R, Kleinjans J, Caiment F. Verheijen M, et al. Among authors: caiment f. Sci Rep. 2019 Mar 15;9(1):4641. doi: 10.1038/s41598-019-40660-0. Sci Rep. 2019. PMID: 30874586 Free PMC article.
Network integration and modelling of dynamic drug responses at multi-omics levels.
Selevsek N, Caiment F, Nudischer R, Gmuender H, Agarkova I, Atkinson FL, Bachmann I, Baier V, Barel G, Bauer C, Boerno S, Bosc N, Clayton O, Cordes H, Deeb S, Gotta S, Guye P, Hersey A, Hunter FMI, Kunz L, Lewalle A, Lienhard M, Merken J, Minguet J, Oliveira B, Pluess C, Sarkans U, Schrooders Y, Schuchhardt J, Smit I, Thiel C, Timmermann B, Verheijen M, Wittenberger T, Wolski W, Zerck A, Heymans S, Kuepfer L, Roth A, Schlapbach R, Niederer S, Herwig R, Kleinjans J. Selevsek N, et al. Among authors: caiment f. Commun Biol. 2020 Oct 15;3(1):573. doi: 10.1038/s42003-020-01302-8. Commun Biol. 2020. PMID: 33060801 Free PMC article.
Progress towards an OECD reporting framework for transcriptomics and metabolomics in regulatory toxicology.
Harrill JA, Viant MR, Yauk CL, Sachana M, Gant TW, Auerbach SS, Beger RD, Bouhifd M, O'Brien J, Burgoon L, Caiment F, Carpi D, Chen T, Chorley BN, Colbourne J, Corvi R, Debrauwer L, O'Donovan C, Ebbels TMD, Ekman DR, Faulhammer F, Gribaldo L, Hilton GM, Jones SP, Kende A, Lawson TN, Leite SB, Leonards PEG, Luijten M, Martin A, Moussa L, Rudaz S, Schmitz O, Sobanski T, Strauss V, Vaccari M, Vijay V, Weber RJM, Williams AJ, Williams A, Thomas RS, Whelan M. Harrill JA, et al. Among authors: caiment f. Regul Toxicol Pharmacol. 2021 Oct;125:105020. doi: 10.1016/j.yrtph.2021.105020. Epub 2021 Jul 29. Regul Toxicol Pharmacol. 2021. PMID: 34333066 Free PMC article.
iPSC-derived cortical neurons to study sporadic Alzheimer disease: A transcriptome comparison with post-mortem brain samples.
Verheijen MCT, Krauskopf J, Caiment F, Nazaruk M, Wen QF, van Herwijnen MHM, Hauser DA, Gajjar M, Verfaillie C, Vermeiren Y, De Deyn PP, Wittens MMJ, Sieben A, Engelborghs S, Dejonckheere W, Princen K, Griffioen G, Roggen EL, Briedé JJ. Verheijen MCT, et al. Among authors: caiment f. Toxicol Lett. 2022 Mar 1;356:89-99. doi: 10.1016/j.toxlet.2021.12.009. Epub 2021 Dec 15. Toxicol Lett. 2022. PMID: 34921933 Free article.
60 results