The efficacy of different preprocessing steps in reducing motion-related confounds in diffusion MRI connectomics

Oldham, Stuart; Arnatkevičiūtė, Aurina; Smith, Robert E.; Tiego, Jeggan; Bellgrove, Mark A.; Fornito, Alex

doi:10.1101/2020.03.25.008979

Cited by 7 publications

(4 citation statements)

References 90 publications

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“…More generally, this investigation builds on increasing efforts in the neuroimaging literature to benchmark the effects of methodological choices. Recently, the broad impacts of these choices has been demonstrated in structural MRI (Bhagwat et al 2020, Kharabian Masouleh et al 2020, task fMRI (Botvinik-Nezer et al 2020, Carp 2012, resting state fMRI (Ciric et al 2017, Parkes et al 2018, and diffusion MRI (Maier-Hein et al 2017, Oldham et al 2020, Schilling et al 2019 research. Concomitant with an increasing awareness of the importance of these choices is a developing trend to share and analyze "raw" or un-thresholded brain maps (Gorgolewski et al 2015, Witt et al 2020.…”

Section: Discussionmentioning

confidence: 99%

Comparing spatial null models for brain maps

Markello

Mišić

2020

Preprint

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Technological and data sharing advances have led to a proliferation of high-resolution structural and functional maps of the brain. Modern neuroimaging research increasingly depends on identifying correspondences between the topographies of these maps; however, most standard methods for statistical inference fail to account for their spatial properties. Recently, multiple methods have been developed to generate null distributions that preserve the spatial autocorrelation of brain maps and yield more accurate statistical estimates. Here, we comprehensively assess the performance of ten such published null frameworks in controlling the family-wise error rate in statistical analyses of parcellated neuroimaging data. We apply each framework on two prototypical analyses: (1) testing the correspondence between brain maps (e.g., correlating two activation maps) and (2) testing the spatial distribution of a feature within a partition (e.g., quantifying the specificity of an activation map within an intrinsic functional network). In agreement with previous reports, we find that naive null models that do not preserve spatial autocorrelation consistently yield unrealistically liberal statistical estimates. Performance of spatially-constrained null models depended on research context; model performance was generally consistent when testing correspondences between brain maps, but considerably more variable when testing partition specificity. Throughout these analyses, we observe minimal impact of parcellation and parcel resolution on null model performance. Altogether, our results highlight the need for continued development and standardization of statistically-rigorous methods for comparing brain maps.

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Section: Discussionmentioning

confidence: 99%

Comparing spatial null models for brain maps

Markello

Mišić

2020

Preprint

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“…Variation in preprocessing pipelines in particular can be a significant barrier to the accurate comparison of findings across neuroimaging studies. For comparison of motion correction pipelines, see Parkes et al (2018); for global signal regression see Almgren et al (2020) and Aquino et al (2020); and for motion correction in diffusion imaging pipelines, see Oldham et al (2020). The optimization and standardization of these pipelines-in conjunction with replication and comparison between psychedelicsmay be essential.…”

Section: R Methodological Considerationsmentioning

confidence: 99%

Neural Mechanisms and Psychology of Psychedelic Ego Dissolution

et al. 2022

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Classic psychedelics bind to serotonergic 5-HT2A receptors. Their agonist activity at these receptors leads to neuromodulatory changes in synaptic efficacy, resulting in a profound effect on information processing in the brain. Here, we synthesize an abundance of brain imaging research with pharmacological and psychological interpretations informed by the framework of predictive coding. Moreover, predictive coding is suggested to offer more sophisticated interpretations of neuroimaging findings by bridging the role between the 5-HT2A receptors and large-scale brain networks.

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“…Variation in pre-processing pipelines in particular can be a significant barrier to the accurate comparison of findings across neuroimaging studies. For comparison of motion correction pipelines see Parkes, Fulcher, Yücel, & Fornito, 2018(Parkes, Fulcher, Yücel, & Fornito, 2018, for global signal regression see Almgren, Van de Steen, Razi, Friston, & Marinazzo, 2020and Aquino, Fulcher, Parkes, Sabaroedin, & Fornito, 2020(Almgren, Van de Steen, Razi, Friston, & Marinazzo, 2020Aquino, Fulcher, Parkes, Sabaroedin, & Fornito, 2020) and for motion correction in diffusion imaging pipelines see Oldham et al, 2020(Oldham et al, 2020. The optimisation and standardisation of these pipelines-in conjunction with replication and comparison between psychedelics-may be essential.…”

Section: Signal From the Noisementioning

confidence: 99%

Neural Mechanisms and Psychology of Psychedelic Ego Dissolution

Stoliker¹,

Egan²,

Friston³

et al. 2021

Preprint

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Neuroimaging studies of psychedelics have advanced our understanding of hierarchical brain organisation and the mechanisms underlying their subjective and therapeutic effects. The primary mechanism of action of classic psychedelics is binding to serotonergic 5HT2A receptors. Agonist activity at these receptors leads to neuromodulatory changes in synaptic efficacy that can have a profound effect on hierarchical message passing in the brain. Here, we review the cognitive and neuroimaging evidence for the effects of psychedelics; in particular, their influence on selfhood and subject-object boundaries—known as ego dissolution—surmised to underwrite their subjective and therapeutic effects. Agonist of 5HT2A receptors, located at the apex of the cortical hierarchy may have a particularly powerful effect on sentience and consciousness. These effects can endure well after the pharmacological half life, suggesting that psychedelics may have long-term effects on neural plasticity – that may play a role in their therapeutic efficacy. Psychologically, this may be accompanied by a surrender of ego resistance that increases the repertoire of perceptual hypotheses, including those that undergird selfhood. We consider the interaction between serotonergic neuromodulation and sentience through the lens of hierarchical predictive coding, which speaks to the value of psychedelics in understanding how we make sense of the world—and specific predictions about effective connectivity in cortical hierarchies that can be tested using functional neuroimaging.

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The efficacy of different preprocessing steps in reducing motion-related confounds in diffusion MRI connectomics

Cited by 7 publications

References 90 publications

Comparing spatial null models for brain maps

Comparing spatial null models for brain maps

Neural Mechanisms and Psychology of Psychedelic Ego Dissolution

Neural Mechanisms and Psychology of Psychedelic Ego Dissolution

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