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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.
diXa: a data infrastructure for chemical safety assessment.
Hendrickx DM, Aerts HJ, Caiment F, Clark D, Ebbels TM, Evelo CT, Gmuender H, Hebels DG, Herwig R, Hescheler J, Jennen DG, Jetten MJ, Kanterakis S, Keun HC, Matser V, Overington JP, Pilicheva E, Sarkans U, Segura-Lepe MP, Sotiriadou I, Wittenberger T, Wittwehr C, Zanzi A, Kleinjans JC. Hendrickx DM, et al. Among authors: caiment f. Bioinformatics. 2015 May 1;31(9):1505-7. doi: 10.1093/bioinformatics/btu827. Epub 2014 Dec 12. Bioinformatics. 2015. PMID: 25505093 Free PMC article.
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
R-ODAF: Omics data analysis framework for regulatory application.
Verheijen MC, Meier MJ, Asensio JO, Gant TW, Tong W, Yauk CL, Caiment F. Verheijen MC, et al. Among authors: caiment f. Regul Toxicol Pharmacol. 2022 Jun;131:105143. doi: 10.1016/j.yrtph.2022.105143. Epub 2022 Mar 3. Regul Toxicol Pharmacol. 2022. PMID: 35247516 Free article.
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.
60 results