LIONirs: flexible Matlab toolbox for fNIRS data analysis

Tremblay, Julie; Martı́nez-Montes, Eduardo; Hüsser, Alejandra; Caron-Desrochers, Laura; Lepage, Charles; Pouliot, Philippe; Vannasing, Phetsamone; Gallagher, Anne

doi:10.1016/j.jneumeth.2022.109487

Cited by 8 publications

(9 citation statements)

References 105 publications

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“…NIRS channels were positioned on the frontal, temporal and parietal regions ( Figure 1 ). Regions of interest were established based on Broadman areas using a NIRS-MRI registration on an adult template ( Tremblay et al, 2022 ). The procedure yielded seven regions of interest in each hemisphere: prefrontal cortex, Broca area, premotor cortex, motor cortex, inferior parietal cortex, lateral temporal cortex and temporal pole.…”

Section: Methodsmentioning

confidence: 99%

Early childhood malnutrition impairs adult resting brain function using near-infrared spectroscopy

Roger,

Vannasing,

Tremblay

et al. 2024

Front. Hum. Neurosci.

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IntroductionEarly childhood malnutrition affects 200+ million children under 5 years of age worldwide and is associated with persistent cognitive, behavioral and psychiatric impairments in adulthood. However, very few studies have investigated the long-term effects of childhood protein-energy malnutrition (PEM) on brain function using a functional hemodynamic brain imaging technique.Objective and methodsThis study aims to investigate functional brain network alterations using near infrared spectroscopy (NIRS) in adults, aged 45–51 years, from the Barbados Nutrition Study (BNS) who suffered from a single episode of malnutrition restricted to their first year of life (n = 26) and controls (n = 29). A total of 55 individuals from the BNS cohort underwent NIRS recording at rest.Results and discussionUsing functional connectivity and permutation analysis, we found patterns of increased Pearson’s correlation with a specific vulnerability of the frontal cortex in the PEM group (ps < 0.05). Using a graph theoretical approach, mixed ANCOVAs showed increased segregation (ps = 0.0303 and 0.0441) and decreased integration (p = 0.0498) in previously malnourished participants compared to healthy controls. These results can be interpreted as a compensatory mechanism to preserve cognitive functions, that could also be related to premature or pathological brain aging. To our knowledge, this study is the first NIRS neuroimaging study revealing brain function alterations in middle adulthood following early childhood malnutrition limited to the first year of life.

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Section: Methodsmentioning

confidence: 99%

Early childhood malnutrition impairs adult resting brain function using near-infrared spectroscopy

Roger,

Vannasing,

Tremblay

et al. 2024

Front. Hum. Neurosci.

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“…Participants completed on average 10.4±0.9 blocks of the verbal fluency task and named an average of 14±2.2 words during each 30-s block. Data analysis was conducted with the use of a homemade toolbox (LIONirs) 35 adapted in SPM12 (Statistical Parametric Mapping) 36 in MATLAB ® (The MathWorks, Inc., Massachusetts).…”

Section: Methodsmentioning

confidence: 99%

“…Second, we rejected those whose subtraction would induce artificial artifacts elsewhere. Data were subsequently imported back into the LIONirs toolbox 35 in order to apply segmentation (Sec. 2.3).…”

Section: Methodsmentioning

confidence: 99%

“…In this work, we used the PARAFAC implementation from the N-way Toolbox, 43 which was included into the LIONirs toolbox 35 so as to visualize and apply the decomposition exclusively during selected time intervals and channels. Calculation with PARAFAC can be obtained in <1 s for a dataset size of ∼50 channels × 100 time points × two wavelengths (typical dataset size in our experiments), which is as fast as comparable techniques such as tPCA.…”

Section: Methodsmentioning

confidence: 99%

“…13,26 Detailed information on how to deal with these aspects can be found in previous literature. 13 In the current study, the implementation of PARAFAC into the LIONirs toolbox, 35 gave us a certain flexibility regarding the channels and time segments to be included. Thus, we were able to exclude deviant channels prior to use PARAFAC.…”

Section: Usefulness and Limitations Of Parafacmentioning

confidence: 99%

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Parallel factor analysis for multidimensional decomposition of functional near-infrared spectroscopy data

et al. 2022

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Significance: Current techniques for data analysis in functional near-infrared spectroscopy (fNIRS), such as artifact correction, do not allow to integrate the information originating from both wavelengths, considering only temporal and spatial dimensions of the signal's structure. Parallel factor analysis (PARAFAC) has previously been validated as a multidimensional decomposition technique in other neuroimaging fields.Aim: We aimed to introduce and validate the use of PARAFAC for the analysis of fNIRS data, which is inherently multidimensional (time, space, and wavelength).Approach: We used data acquired in 17 healthy adults during a verbal fluency task to compare the efficacy of PARAFAC for motion artifact correction to traditional two-dimensional decomposition techniques, i.e., target principal (tPCA) and independent component analysis (ICA). Correction performance was further evaluated under controlled conditions with simulated artifacts and hemodynamic response functions.Results: PARAFAC achieved significantly higher improvement in data quality as compared to tPCA and ICA. Correction in several simulated signals further validated its use and promoted it as a robust method independent of the artifact's characteristics.Conclusions: This study describes the first implementation of PARAFAC in fNIRS and provides validation for its use to correct artifacts. PARAFAC is a promising data-driven alternative for multidimensional data analyses in fNIRS and this study paves the way for further applications.

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Relationship between EEG spectral power and dysglycemia with neurodevelopmental outcomes after neonatal encephalopathy

Damien,

Vannasing,

Tremblay

et al. 2024

Clinical Neurophysiology

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LIONirs: flexible Matlab toolbox for fNIRS data analysis

Cited by 8 publications

References 105 publications

Early childhood malnutrition impairs adult resting brain function using near-infrared spectroscopy

Early childhood malnutrition impairs adult resting brain function using near-infrared spectroscopy

Parallel factor analysis for multidimensional decomposition of functional near-infrared spectroscopy data

Relationship between EEG spectral power and dysglycemia with neurodevelopmental outcomes after neonatal encephalopathy

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