publication . Article . Other literature type . Preprint . 2018

Reproducibility and replicability of rodent phenotyping in preclinical studies

Neri Kafkafi; Joseph Agassi; Elissa J. Chesler; John C. Crabbe; Wim E. Crusio; David Eilam; Robert Gerlai; Ilan Golani; Alex Gomez-Marin; Ruth Heller; ...
Open Access English
  • Published: 01 Apr 2018
  • Publisher: HAL CCSD
AbstractThe scientific community is increasingly concerned with cases of published “discoveries” that are not replicated in further studies. The field of mouse behavioral phenotyping was one of the first to raise this concern, and to relate it to other complicated methodological issues: the complex interaction between genotype and environment; the definitions of behavioral constructs; and the use of the mouse as a model animal for human health and disease mechanisms. In January 2015, researchers from various disciplines including genetics, behavior genetics, neuroscience, ethology, statistics and bioinformatics gathered in Tel Aviv University to discuss these is...
free text keywords: [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, Data sharing, False discoveries, GxE interaction, Heterogenization, Replicability, Reproducibility, Validity, Neuropsychology and Physiological Psychology, Cognitive Neuroscience, Behavioral Neuroscience, 630 Agriculture, Article, Animals, Rodentia, Animal Experimentation, Reproducibility of Results, Models, Animal, Behavior, Information Dissemination, Phenotype, Research, Research Design, Data sharing, False discoveries, GxE interaction, Heterogenization, Replicability, Reproducibility, Validity, Medical and Health Sciences, Psychology and Cognitive Sciences, Behavioral Science & Comparative Psychology, Data science, Disease mechanisms, Metadata, Generalizability theory, Behavioural genetics, Bioinformatics, Human health, Ethology, Tel aviv, Psychology, Data sharing
106 references, page 1 of 8

1. Agassi, J., 2013. “The very idea of modern science: Francis Bacon and Robert Boyle”. Boston Studies in the Philosophy and History of Science 298, Springer Science+Busness Media, Dordrecht. doi:10.1007/978-94-007-5351-8_1 [OpenAIRE]

2. Alberts, B., Cicerone, R. J., Fienberg, S. E., Kamb, A., McNutt, M., Nerem, R. M., Schekman, R., Shiffrin, R., Stodden, V., Suresh, S., Zuber, M. T., Pope, B. K., Jamieson, K. H., 2015. Scientific integrity: Self-correction in science at work. Science 348(6242), 1420-1422. doi: 10.1126/science.aab3847.

3. Anderson, P. W. 1972. More is different, Science, 177(4047), 393-396.

4. Anisman, H., Zaharia, M. D., Meaney, M. J., Merali Z., 1998. Do early-life events permanently alter behavioral and hormonal responses to stressors? Int. J. Dev. Neurosci. 16(3-4),149-164. doi:10.1016/S0736-5748(98)00025-2.

5. de Angelis M. H. et al., 2015. Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics. Nat. Genet. 47(9):969-978. doi: 10.1038/ng.3360. [OpenAIRE]

6. Asendorpf, A. G., et al., 2013. Recommendations for Increasing Replicability in Psychology. European Journal of Personality, Eur. J. Pers. 27, 108-119.

7. Baggerly, K. A., Coombes, K. R. 2009. Deriving chemosensitivity from cell lines: Forensic bioinformatics and reproducible research in high-throughput biology. Ann. Appl. Stat 3(4), 1309-1334. [OpenAIRE]

8. Baker, E. J, Jay, J. J., Bubier, J. A., Langston, M. A., Chesler, E. J., 2012. GeneWeaver: a web-based system for integrative functional genomics. Nucleic Acids Res. D1067-1076. doi: 10.1093/nar/gkr968. [OpenAIRE]

9. Beckers, J., Wurst, W., & de Angelis, M. H., 2009. Towards better mouse models: enhanced genotypes, systemic phenotyping and envirotype modelling. Nat. Rev. Genet. 10(6), 371-380. doi:10.1038/nrg2578.

10. Benjamini, Y., Hochberg, Y. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. Roy. Stat. Soc. B (Methodological), 1995, 289-300.

11. Benjamini, Y., Drai, D., Elmer, G., Kafkafi, N., Golani, I., 2001. Controlling the false discovery rate in behavior genetics research. Behav. Brain Res. 125(1-2), 279-284.

12. Benjamini, Y., Lipkind, D., Horev, G., Fonio, E., Kafkafi, N., Golani, I., 2010. Ten ways to improve the quality of descriptions of whole-animal movement. Neurosci. Biobehav. Rev. 34(8), 1351-1365. doi:10.1016/j.neubiorev.2010.04.004

13. Benjamini, Y., Hechtlinger, Y., 2013. Discussion: an estimate of the science-wise false discovery rate and applications to top medical journals by Jager and Leek. Biostatistics, 15(1), 13-16; discussion 39-45. doi: 10.1093/biostatistics/kxt032. [OpenAIRE]

14. Brown, R. E., Stanford, L., Schellinck, H. M., 2000. Developing standardized behavioral tests for knockout and mutant mice. ILAR Journal, 41(3), 163-174.

16. Bubier, J. A., Jay, J. J., Baker, C. L., Bergeson, S. E., Ohno, H., Metten, P., Crabbe, J. C., Chesler, E. J., 2014. Identification of a QTL in Mus musculus for Alcohol Preference, Withdrawal, and Ap3m2 Expression Using Integrative Functional Genomics and Precision Genetics. Genetics 197(4), 1377-1393. doi: 10.1534/genetics.114.166165

106 references, page 1 of 8
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