<i>RePAIR</i>: a power solution to animal experimentation

Bonapersona, Valeria; Hoijtink, Herbert; Sarabdjitsingh, R. Angela; Joëls, Marian

doi:10.1101/864652

Cited by 6 publications

(7 citation statements)

References 19 publications

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“…The application relies on the observation that control groups generally are similar. In a simulation analysis power increase up to 100% with half the required sample size (Bonapersona, Hoijtink, et al., 2019). Then, on another level timely machine learning methods will be increasingly applied in animal research for instance for, for example, recognition and classification of facial expressions that may reflect emotional states (Dolensek et al., 2020).…”

Section: Discussionmentioning

confidence: 99%

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Forced swim stressor: Trends in usage and mechanistic consideration

Molendijk

Kloet

2021

Eur J of Neuroscience

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The acquired immobility response during the "forced swim test (FST)" is not a rodent model of depression, but the test has some validity in predicting a compound's antidepressant potential. Nevertheless, 60% of the about 600 papers that were published annually the past 2 years label the rodent's immobility response as depression-like behaviour, but the relative contribution per country is changing. When the Editorsin-Chief of 5 journals publishing most FST papers were asked for their point of view on labelling immobility as depression-like behaviour and despair, they responded that they primarily rely on the reviewers regarding scientific merit of the submission.One Editor informs authors of the recent NIMH notice (https://grants.nih.gov/grant s/guide/ notic e-files/ NOT-MH-19-053.html) which encourages investigators to use animal models "for" addressing neurobiological questions rather than as model "of" specific mental disorders. The neurobiological questions raised by use of the FST fall in two categories. First, research on the role of endocrine and metabolic factors, with roots in the 1980s, and with focus on the bottom-up action of glucocorticoids on circuits processing salient information, executive control and memory consolidation.Second, recent findings using novel technological and computational advances that have allowed great progress in charting top-down control in the switch from active to passive coping with the inescapable stressor executed by neuronal ensembles of the medial prefrontal cortex via the peri-aquaductal grey. It is expected that combining neural top-down and endocrine bottom-up approaches will provide new insights in the role of stress-coping and adaptation in pathogenesis of mental disorders.

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Section: Discussionmentioning

confidence: 99%

Section: Molendijk and De Kloetmentioning

confidence: 99%

Forced swim stressor: Trends in usage and mechanistic consideration

Molendijk

Kloet

2021

Eur J of Neuroscience

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“…reconstructions of molecularly characterized neurons in the mouse (Winnubst et al, 2019)-RePAIR-a novel statistical tool for power calculations in animal experimentation that takes into account previous datasets to decrease sample sizes (Bonapersona et al, 2019)-and DeepLabCut-a free open source software for animal behavioral quantification that eliminates the need for expensive commercial alternatives (Mathis et al, 2018;Nath et al, 2019). These tools are built by researchers for researchers, to facilitate access to relevant data and analysis, increase reproducibility, promote standardization of experimental design, provide avenues for innovative secondary analyses, and encourage data sharing and collaborations.…”

Section: Discussionmentioning

confidence: 99%

Highlights from the Era of Open Source Web-Based Tools

Anderson

Harris

et al. 2021

J. Neurosci.

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High digital connectivity and a focus on reproducibility are contributing to an open science revolution in neuroscience. Repositories and platforms have emerged across the whole spectrum of subdisciplines, paving the way for a paradigm shift in the way we share, analyze, and reuse vast amounts of data collected across many laboratories. Here, we describe how open access web-based tools are changing the landscape and culture of neuroscience, highlighting six free resources that span subdisciplines from behavior to whole-brain mapping, circuits, neurons, and gene variants.

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“…To determine sample size, we incorporated information from control groups derived from previously published experiments on zebrafish alarm substances observing bottom-dwelling (Lima-Maximino et al, 2020;Quadros et al, 2016;Speedie and Gerlai, 2008) and a series of four small experiments on the effects of CAS on behavior during exposure (https://github.com/lanec-unifesspa/5-HT-CAS/tree/master/data/behavioral/metanalysis), following the RePAIR approach (Bonapersona et al, 2019). Sample sizes, means, and standard deviations for the primary endpoint "Time on bottom" were used to produce a prior distribution on the RePAIR script (https://utrecht-university.shinyapps.io/repair/).…”

Section: Sample Size Determinationmentioning

confidence: 99%

5-HT2C agonists and antagonists block different components of behavioral responses to potential, distal, and proximal threat in zebrafish

Silva

Nascimento

Gomes

et al. 2020

Preprint

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Serotonin (5-HT) receptors have been implicated in responses to aversive stimuli in mammals and fish, but its precise role is still unknown. Moreover, since at least seven families of 5-HT receptors exist in vertebrates, the role of specific receptors is still debated. Aversive stimuli can be classified as indicators of proximal, distal, or potential threat, initiating responses that are appropriate for each of these threat levels. Responses to potential threat usually involve cautious exploration and increased alertness, while responses to distal and proximal threat involve a fight-flight-freeze reaction. We exposed adult zebrafish to a conspecific alarm substance (CAS) and observed behavior during (distal threat) and after (proximal threat) exposure, and treated with the 5-HT2C receptor agonists MK-212 or WAY-161503 or with the antagonist RS-102221. The agonists blocked CAS-elicited defensive behavior (distal threat), but not post-exposure increases in defensive behavior (potential threat), suggesting a phasic inhibition of responses to distal threat. MK-212 did not block changes in behavior elicited by acute restraint stress, a model of proximal threat, suggesting that the phasic role of the 5-HT2C receptor is specific to distal threat. We also found that RS-10221, a 5-HT2C receptor antagonist, did not change behavior during exposure, but it produced a small effect on behavior after exposure to CAS, suggesting a tonic facilitation of responses to potential threat.

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RePAIR: a power solution to animal experimentation

Cited by 6 publications

References 19 publications

Forced swim stressor: Trends in usage and mechanistic consideration

Forced swim stressor: Trends in usage and mechanistic consideration

Highlights from the Era of Open Source Web-Based Tools

5-HT2C agonists and antagonists block different components of behavioral responses to potential, distal, and proximal threat in zebrafish

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