Robust high spatio-temporal line-scanning fMRI in humans at 7T using multi-echo readouts, denoising and prospective motion correction

Raimondo, Luisa; Priovoulos, Nikos; Passarinho, Catarina; Heij, Jurjen; Knapen, Tomas; Dumoulin, Serge O.; Siero, Jeroen C.W.; Zwaag, Wietske van der

doi:10.1016/j.jneumeth.2022.109746

Cited by 9 publications

(30 citation statements)

References 61 publications

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“…However, since GELINE and SELINE data were acquired in the same session and the same subjects, we would expect any motion problems to be similar in both acquisitions and hence conclude that motion is not the main cause for the observed differences in SELINE and GELINE. Moreover, the current setup does not allow for motion correction, but a prospective motion correction module could be introduced in future implementations [34].…”

Section: Discussionmentioning

confidence: 99%

“…Prospective motion correction would allow scanning people for a very long time. However, the current implementation of SELINE does not include prospective motion correction [34]. For this reason, at this stage we cannot provide the reader with an estimate of how long one would need to scan to see activation in SELINE data.…”

Section: Discussionmentioning

confidence: 99%

“…Details for the reconstruction are reported in Raimondo et al [2]. In addition to the previously described pipeline, we introduced a NORDIC-based denoising step to remove thermal noise prior to the coil combination step [33,34].…”

Section: Methodsmentioning

confidence: 99%

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Towards functional spin-echo BOLD line-scanning in humans at 7T

Raimondo

Heij

Knapen

et al. 2023

Magn Reson Mater Phy

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Objective Neurons cluster into sub-millimeter spatial structures and neural activity occurs at millisecond resolutions; hence, ultimately, high spatial and high temporal resolutions are required for functional MRI. In this work, we implemented a spin-echo line-scanning (SELINE) sequence to use in high spatial and temporal resolution fMRI. Materials and methods A line is formed by simply rotating the spin-echo refocusing gradient to a plane perpendicular to the excited slice and by removing the phase-encoding gradient. This technique promises a combination of high spatial and temporal resolution (250 μm, 500 ms) and microvascular specificity of functional responses. We compared SELINE data to a corresponding gradient-echo version (GELINE). Results We demonstrate that SELINE showed much-improved line selection (i.e. a sharper line profile) compared to GELINE, albeit at the cost of a significant drop in functional sensitivity. Discussion This low functional sensitivity needs to be addressed before SELINE can be applied for neuroscientific purposes.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Towards functional spin-echo BOLD line-scanning in humans at 7T

Raimondo

Heij

Knapen

et al. 2023

Magn Reson Mater Phy

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“…With this sequence, 94.3 ± 1.3% of undesired signal outside the region of interest is suppressed (Raimondo, Knapen, et al, 2021, Raimondo, Priovoulos, et al, 2023. A gap of 4 mm between the two OVS bands was used, resulting in a nominal resolution for the line of 4 Â 2.5 Â 0.25 mm 3 ; thus, 0.25 mm in the laminar direction.…”

Section: Session 2-line-scanningmentioning

confidence: 99%

“…saturation slabs, there are contaminating signals coming from outside the region-of-interest (Raimondo, Knapen, et al, 2021;Raimondo, Priovoulos, et al, 2023). Because the full registration cascade from target vertex to the line through the low-resolution image, partial…”

Section: Anatomical Measures Confirm Accurate Lineplanningmentioning

confidence: 99%

A selection and targeting framework of cortical locations for line‐scanning fMRI

Heij,

Raimondo,

Siero

et al. 2023

Human Brain Mapping

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Depth‐resolved functional magnetic resonance imaging (fMRI) is an emerging field growing in popularity given the potential of separating signals from different computational processes in cerebral cortex. Conventional acquisition schemes suffer from low spatial and temporal resolutions. Line‐scanning methods allow depth‐resolved fMRI by sacrificing spatial coverage to sample blood oxygenated level‐dependent (BOLD) responses at ultra‐high temporal and spatial resolution. For neuroscience applications, it is critical to be able to place the line accurately to (1) sample the right neural population and (2) target that neural population with tailored stimuli or tasks. To this end, we devised a multi‐session framework where a target cortical location is selected based on anatomical and functional properties. The line is then positioned according to this information in a separate second session, and we tailor the experiment to focus on the target location. Anatomically, the precision of the line placement was confirmed by projecting a nominal representation of the acquired line back onto the surface. Functional estimates of neural selectivities in the line, as quantified by a visual population‐receptive field model, resembled the target selectivities well for most subjects. This functional precision was quantified in detail by estimating the distance between the visual field location of the targeted vertex and the location in visual cortex (V1) that most closely resembled the line‐scanning estimates; this distance was on average ~5.5 mm. Given the dimensions of the line, differences in acquisition, session, and stimulus design, this validates that line‐scanning can be used to probe local neural sensitivities across sessions. In summary, we present an accurate framework for line‐scanning MRI; we believe such a framework is required to harness the full potential of line‐scanning and maximize its utility. Furthermore, this approach bridges canonical fMRI experiments with electrophysiological experiments, which in turn allows novel avenues for studying human physiology non‐invasively.

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Closed-loop fMRI at the mesoscopic scale of columns and layers: Can we do it and why would we want to?

Chaimow,

Lorenz,

Weiskopf

2024

Phil. Trans. R. Soc. B

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Technological advances in fMRI including ultra-high magnetic fields (≥ 7 T) and acquisition methods that increase spatial specificity have paved the way for studies of the human cortex at the scale of layers and columns. This mesoscopic scale promises an improved mechanistic understanding of human cortical function so far only accessible to invasive animal neurophysiology. In recent years, an increasing number of studies have applied such methods to better understand the cortical function in perception and cognition. This future perspective article asks whether closed-loop fMRI studies could equally benefit from these methods to achieve layer and columnar specificity. We outline potential applications and discuss the conceptual and concrete challenges, including data acquisition and volitional control of mesoscopic brain activity. We anticipate an important role of fMRI with mesoscopic resolution for closed-loop fMRI and neurofeedback, yielding new insights into brain function and potentially clinical applications. This article is part of the theme issue ‘Neurofeedback: new territories and neurocognitive mechanisms of endogenous neuromodulation’.

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Robust high spatio-temporal line-scanning fMRI in humans at 7T using multi-echo readouts, denoising and prospective motion correction

Cited by 9 publications

References 61 publications

Towards functional spin-echo BOLD line-scanning in humans at 7T

Towards functional spin-echo BOLD line-scanning in humans at 7T

A selection and targeting framework of cortical locations for line‐scanning fMRI

Closed-loop fMRI at the mesoscopic scale of columns and layers: Can we do it and why would we want to?

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