Byron Bernal’s research while affiliated with Florida International University and other places

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Publications (88)


Pediatric Applications of fMRI
  • Chapter

May 2023

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25 Reads

Byron Bernal

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Nolan R. Altman

Functional magnetic resonance imaging (fMRI) has become an important pillar in the evaluation of children’s brain function. We review the differences between fMRI in adults and children, emphasizing the technical challenges that the technique poses in noncooperative children. We also review the state of the art of the fMRI clinical applications with special attention to its role in surgical planning, and relevant cognitive pediatric conditions. A review of pharmacology-fMRI and resting-state fMRI in children is presented as the authors stress the importance of these two new branches of fMRI. We share as well our experience based on more than 20 years of experience performing clinical pediatric fMRI.KeywordsfMRIPediatricsSedationAuditoryMotorVisualCognitiveLanguageApplications


Simulation of the ECI (A), NDA (B), ANC (C), and ABS (D) mechanisms after a single short pulse. Red (blue) corresponds to PBR (NBR). Each column corresponds to variation in a parameter that significantly determines the NBR waveform. The sensibility of the responses to these parameters is illustrated with different curves corresponding to three different values of the parameters covering the ranges in Supplementary Table A3. The light blue arrow indicates how the NBRs change by increasing the value of the parameters. Besides BOLD responses, we also show other candidate observables in MRI: rCBF and rCBV. Increasing the duration of the inhibitory recovery decreases the amplitude of the ECI mechanism. Expectedly, the longer the recovery time constant in the NDA mechanism, the slower the NBR. We also note that higher neurometabolic coupling gain yields higher NBR amplitudes in the ANC mechanism. Besides, the higher the arterial resistance, relative to the arteriole, in the ABS mechanism, respectively, the higher NBR amplitude.
Detection, using the GLM, of simulated spatial distribution of PBRs and three NBRs in a realistic sequence of echoplanar fMRI scans. (A) Three-dimensional glass brain showing the regions where the mechanisms were simulated. (B) F contrast (the 3-order identity matrix) and design matrix of the GLM, used to detect significant voxels. (C) Two-dimensional glass brain showing the F statistics. The plots show the responses predicted by the GLM (color curves) and the adjusted data (black dots), for each mechanism. Besides each plot, the estimated values and confidence intervals of the coefficients, βcan, βder, and βdisp, of the GLM are shown. PBR (red), NDA (green), ANC (cyan), ABS (blue).
NN-ARx estimation and classification of HRFs. (A) Example of a portion of simulated fMRI time series for the ABS mechanism. The input u(t) is represented with a black trace at the bottom graph. (B) Both positive and negative HRFs estimated using NN-ARx from the example in A. (C) Estimated HRFs from all trials. The black continuous curve represents the average across trials, whereas the black dash curve corresponds to a simulation without noise. To geometrically illustrate their separability, the 3D plot depicts the scores of the first three components of the PCA decomposition of the matrix formed by stacking all HRF as row vectors, after normalizing their amplitudes. PBR (red), ECI (yellow), NDA (green), ANC (cyan), and ABS (blue). (D) Results of the five-fold cross-validation of the SVM classifier with a coarse Gaussian kernel function resulted in 6.3% of misclassification. Center figure shows the confusion matrix. TPR, true-positive rate; FNR, false-negative rate; PPV, positive predictive value; FDR, false discovery rate. As expected, the PBR is distinguishable from all the NBRs. NDA and ANC mechanisms were also perfectly classified, whereas ECI and ABS are the ones that are closer to each other.
Patient #1 shows an irritative zone with ABS-type HRF. (A) Slices showing the thresholded F-statistics map built from the estimated coefficients of the GLM overlaid on the T1-weighted image. The blue crosshair locates the center of the NBR region in the Right Post-central Gyrus; whereas the red crosshair locates the center of the PBR region in the Right Superior Parietal Lobule (SPL). The cartoon at the bottom illustrates the ABS mechanism-the regions share the final segment of the Anterior Parietal Artery. (B) The dark gray curve shows the estimated NN-ARx PBR-HRF and its confidence interval, estimated from the real data, and averaged across the voxels within a 10 mm-radius sphere with origin in red crosshair in (A). The light gray curve shows the estimated NN-ARx NBR-HRF and its confidence interval, estimated from the real data, and averaged across the voxels within a 10 mm-radius sphere with origin in the blue crosshair in (A). The light red and blue curves show the unnoisy simulated PBR-HRF, NBR-HRF of the fitted ABS model with the estimated values R_A = 0.17. (C) Temporal behavior of the ABS simulated BOLD in the PBR and NBR regions (with the above-mentioned estimated parameters), the time series of the real fMRI and the input used in the NN-ARx estimation.
Patients #2 shows an irritative zone with ECI-type HRF with a high probability to be the seizure onset zone. (A) Two modalities of fMRI anatomical imaging: left, T1-weighted; right, FLAIR. (B) Two modalities of nuclear imaging: left, interictal PET; right, ictal SPECT. (C) Left, Ictal EEG points out to a bifrontal spike/slow wave at 3-4Hz; right, brain source imaging (EEG-BSI) in Right Tempo-Frontal. (D) Composed panel: left top and center, two slices with the thresholded F-statistics map built from the estimated coefficients of the GLM overlaid on the T1-weighted image with blue crosshair locating the center of one NBR region in the Right Frontal Lobe, left bottom-estimated NN-ARx of this particular NBR-HRF was classified as ECI mechanism, right-stereo EEG (sEEG) electrodes placement is shown as reference.

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Identification of Negative BOLD Responses in Epilepsy Using Windkessel Models
  • Article
  • Full-text available

October 2021

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86 Reads

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3 Citations

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Pedro A. Valdés-Hernández

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Byron Bernal

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[...]

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Alongside positive blood oxygenation level–dependent (BOLD) responses associated with interictal epileptic discharges, a variety of negative BOLD responses (NBRs) are typically found in epileptic patients. Previous studies suggest that, in general, up to four mechanisms might underlie the genesis of NBRs in the brain: (i) neuronal disruption of network activity, (ii) altered balance of neurometabolic/vascular couplings, (iii) arterial blood stealing, and (iv) enhanced cortical inhibition. Detecting and classifying these mechanisms from BOLD signals are pivotal for the improvement of the specificity of the electroencephalography–functional magnetic resonance imaging (EEG-fMRI) image modality to identify the seizure-onset zones in refractory local epilepsy. This requires models with physiological interpretation that furnish the understanding of how these mechanisms are fingerprinted by their BOLD responses. Here, we used a Windkessel model with viscoelastic compliance/inductance in combination with dynamic models of both neuronal population activity and tissue/blood O2 to classify the hemodynamic response functions (HRFs) linked to the above mechanisms in the irritative zones of epileptic patients. First, we evaluated the most relevant imprints on the BOLD response caused by variations of key model parameters. Second, we demonstrated that a general linear model is enough to accurately represent the four different types of NBRs. Third, we tested the ability of a machine learning classifier, built from a simulated ensemble of HRFs, to predict the mechanism underlying the BOLD signal from irritative zones. Cross-validation indicates that these four mechanisms can be classified from realistic fMRI BOLD signals. To demonstrate proof of concept, we applied our methodology to EEG-fMRI data from five epileptic patients undergoing neurosurgery, suggesting the presence of some of these mechanisms. We concluded that a proper identification and interpretation of NBR mechanisms in epilepsy can be performed by combining general linear models and biophysically inspired models.

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Practical Aspects of Functional Magnetic Resonance Imaging in Children

August 2021

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8 Reads

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2 Citations

Journal of Pediatric Neurology

Functional magnetic resonance imaging (fMRI) has become a broadly accepted presurgical mapping tool for pediatric populations with brain pathology. The aim of this article is to provide general guidelines on the pragmatic aspects of performing and processing fMRI, as well as interpreting its results across children of all age groups. Based on the author's accumulated experience of more than 20 years on this specific field, these guidelines consider many factors that include the particular physiology and anatomy of the child's brain, and how specific peculiarities may pose disadvantages or even certain advantages when performing fMRI procedures. The author carefully details the various challenges that the practitioner might face in dealing with limited volitional behavior and language comprehension of infants and small children and remedial strategies. The type and proper choice of task-based paradigms in keeping with the age and performance of the patient are discussed, as well as the appropriate selection and dosage of sedative agents and their inherent limitations. Recommendations about the scanner and settings for specific sequences are provided, as well as the required devices for appropriate stimulus delivery, response, and motion control. Practical aspects of fMRI postprocessing and quality control are discussed. Finally, given the relevance of resting-state-fMRI for use in noncooperative patients, a praxis-oriented guide to obtain, classify, and understand the spontaneous neural networks (utilizing independent component analysis) is also provided. The article concludes with a thorough discussion about the possible pitfalls at different stages of the fMRI process.



Figure 3. Voxelwise odds ratios of functional activity in various brain regions associated with seizure freedom (A) and non-seizure-freedom (B).
Figure 4. Resting state networks associated with seizure-freedom (A) and non-seizure-freedom (B). All voxels are at least twice as likely to be functionally associated with each group.
Lesion network Localization of Seizure freedom following MR- guided Laser interstitial thermal Ablation

December 2019

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184 Reads

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12 Citations

Scientific Reports

Treatment-resistant epilepsy is a common and debilitating neurological condition, for which neurosurgical cure is possible. Despite undergoing nearly identical ablation procedures however, individuals with treatment-resistant epilepsy frequently exhibit heterogeneous outcomes. We hypothesized that treatment response may be related to the brain regions to which MR-guided laser ablation volumes are functionally connected. To test this, we mapped the resting-state functional connectivity of surgical ablations that either resulted in seizure freedom (N= 11) or did notresult in seizure freedom (N= 16) in over 1,000 normative connectomes.There was no diference seizure outcome with respect to the anatomical location of the ablations, and very little overlap between ablation areas was identifed using the Dice Index.Ablations that did notresultin seizure-freedom were preferentially connected to a number of cortical and subcortical regions, as well as multiple canonical resting-state networks. In contrast, ablations that led to seizure-freedom were more functionally connected to prefrontal cortices. Here, we demonstrate that underlying normative neural circuitry may in part explain heterogenous outcomes following ablation procedures in diferent brain regions. These fndings may ultimately inform target selection for ablative epilepsy surgery based on normative intrinsic connectivity of the targeted volume.


Figure 3. Voxelwise odds ratios of functional activity in various brain regions associated with seizure freedom (A) and non-seizure-freedom (B).
Figure 4. Resting state networks associated with seizure-freedom (A) and non-seizure-freedom (B). All voxels are at least twice as likely to be functionally associated with each group.
Lesion network mapping methodology and workflow. Segmented lesions were used as seed voxels in a normative dataset of resting-state functional MRI in healthy subjects. Individual connectivity maps were thresholded (p < 0.05) to identify meaningful voxels, binarized to inspect spatial patterns, and summed for SF and NSF groups. The summed maps were then compared to yield voxelwise odds ratios.
(A) Summed ablation masks associated with seizure freedom (SF; red) and non-seizure-freedom (NSF; blue). There is no systematic bias in the localization of ablations in seizure freedom vs. non-freedom groups. The maximum value is 3, in the left hippocampus of the NSF group. (B) Dice coefficients quantifying the degree of overlap between lesions in each group. There is no significant difference in average dice index between the two groups (p = 0.235).
Lesion Network Localization of Seizure Freedom following MR-guided Laser Interstitial Thermal Ablation

December 2019

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336 Reads

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28 Citations

Treatment-resistant epilepsy is a common and debilitating neurological condition, for which neurosurgical cure is possible. Despite undergoing nearly identical ablation procedures however, individuals with treatment-resistant epilepsy frequently exhibit heterogeneous outcomes. We hypothesized that treatment response may be related to the brain regions to which MR-guided laser ablation volumes are functionally connected. To test this, we mapped the resting-state functional connectivity of surgical ablations that either resulted in seizure freedom (N = 11) or did not result in seizure freedom (N = 16) in over 1,000 normative connectomes. There was no difference seizure outcome with respect to the anatomical location of the ablations, and very little overlap between ablation areas was identified using the Dice Index. Ablations that did not result in seizure-freedom were preferentially connected to a number of cortical and subcortical regions, as well as multiple canonical resting-state networks. In contrast, ablations that led to seizure-freedom were more functionally connected to prefrontal cortices. Here, we demonstrate that underlying normative neural circuitry may in part explain heterogenous outcomes following ablation procedures in different brain regions. These findings may ultimately inform target selection for ablative epilepsy surgery based on normative intrinsic connectivity of the targeted volume.



Principal component analysis (PCA). (A) Biplot of the first 2 principal components in the PCA, accounting for the greatest variance, with clinical covariates labeled. Arrows show the contribution of original variables to the principal components. Blue and red ellipses demonstrate 1 standard deviation of responders and nonresponders, respectively, with poor dissociation based on clinical phenotype. (B) Receiver operating characteristic (ROC) curve of the support vector machine (SVM) classifier using significant components from the PCA of clinical covariates shows poor discrimination ability. (C) Confusion matrix of the SVM classifier generated from the PCA. EEG = electroencephalogram; Lat = lateralized; LGS = Lennox–Gastaut syndrome; Sx = semiology; Sz = seizures; VNS = vagus nerve stimulation.
(A) White matter tracts with significantly greater fractional anisotropy in vagus nerve stimulation (VNS) responders compared to nonresponders. These encompass thalamocortical, limbic, and association fibers. (B) Confusion matrix of the support vector machine (SVM) classifier based on diffusion tensor imaging data. (C) Receiver operating characteristic (ROC) curve of the SVM classifier, showing high accuracy on 10‐fold cross‐validation. (D) Average fractional anisotropy of the significant white matter tracts for VNS responders, nonresponders, and age‐matched healthy controls, showing that responders' circuitry is more similar to controls than nonresponders.
Magnetoencephalographic analysis, showing a significant functional network expressed more strongly in responders relative to nonresponders encompassing insular, thalamic, and cortical nodes. Results are shown for alpha frequency (7.5–12Hz). L = left; R = right.
Connectomic Profiling Identifies Responders to Vagus Nerve Stimulation

August 2019

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196 Reads

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87 Citations

Objective Vagus nerve stimulation (VNS) is a common treatment for medically intractable epilepsy, but response rates are highly variable, with no preoperative means of identifying good candidates. This study aimed to predict VNS response using structural and functional connectomic profiling. Methods Fifty‐six children, comprising discovery (n = 38) and validation (n = 18) cohorts, were recruited from 3 separate institutions. Diffusion tensor imaging was used to identify group differences in white matter microstructure, which in turn informed beamforming of resting‐state magnetoencephalography recordings. The results were used to generate a support vector machine learning classifier, which was independently validated. This algorithm was compared to a second classifier generated using 31 clinical covariates. Results Treatment responders demonstrated greater fractional anisotropy in left thalamocortical, limbic, and association fibers, as well as greater connectivity in a functional network encompassing left thalamic, insular, and temporal nodes (p < 0.05). The resulting classifier demonstrated 89.5% accuracy and area under the receiver operating characteristic (ROC) curve of 0.93 on 10‐fold cross‐validation. In the external validation cohort, this model demonstrated an accuracy of 83.3%, with a sensitivity of 85.7% and specificity of 75.0%. This was significantly superior to predictions using clinical covariates alone, which exhibited an area under the ROC curve of 0.57 (p < 0.008). Interpretation This study provides the first multi‐institutional, multimodal connectomic prediction algorithm for VNS, and provides new insights into its mechanism of action. Reliable identification of VNS responders is critical to mitigate surgical risks for children who may not benefit, and to ensure cost‐effective allocation of health care resources. ANN NEUROL 2019;86:743–753


Functional imaging localization of complex organic hallucinations

May 2019

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84 Reads

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3 Citations

Neurocase

Background: fMRI of mental phenomena is quite difficult to perform because lack of patient's cooperation or because the symptoms are stable. In some exceptional cases, however, fMRI and DTI are capable to provide insights on the anatomy of organic hallucinations. Methods: In this report we describe a 14-year-old boy with a left fronto-dorsal tumor who experienced chronic complex brief, frequent and repetitive complex visual and auditory hallucinations. His clinical picture included multiple and severe social and mood problems. During a presurgical fMRI mapping the patient complained of having the visual and auditory hallucinations. A block-design FMRI paradigm was obtained from the event timecourse. Deterministic DTI of the brain was obtained seeding the lesion as ROI. The patient underwent surgery and electrocorticography of the lesional area. Results: The fMRI of the hallucinations showed activation in the left inferior frontal gyrus (IFG) and the peri-lesional area. The tractography of the tumor revealed structural aberrant connectivity to occipital and temporal areas in addition to the expected connectivity with the IFG via the aslant fasciculus and homotopic contralateral areas. Intraoperative EEG demonstrated epileptic discharges in the tumor and neighboring areas. After resection, the patient's hallucinations stopped completely. He regained his normal social life and recover his normal mood. He remained asymptomatic for 90 days. Afterwards, hallucinations reappeared but with less intensity. Conclusions: To our knowledge, this is the first reported case of combined functional and structural connectivity imaging demonstrating brain regions participating in a network involved in the generation of complex auditory and visual hallucinations.



Citations (71)


... This condition can be seen as being close to epileptic activity due to FDIS in patients [41], and it has been suggested that unchanged or decreased BOLD responses to seizures can cause hypoxia [42]. Moreover, It is well-known that a variety of negative BOLD responses can be observed in epileptic patients [43], where FDIS is often present [41], indicating a high degree of translational value for our approach. Note that the effect of GABA antagonists is distinct from common animal models, which induce epilepsy because they use either electrical stimulation or injections of excitatory mediators (kindling) [44]. ...

Reference:

Functional Deficiency of Interneurons and Negative BOLD fMRI Response
Identification of Negative BOLD Responses in Epilepsy Using Windkessel Models

... Essentially, rs-fMRI analyses intrinsic, spontaneous, low-frequency fluctuations in the fMRI blood oxygen level-dependent (BOLD) signal that define specific networks without performing any task (Biswal, 2012;Lv et al., 2018). When working with paediatric populations, rs-fMRI is particularly relevant because (a) it equalizes the measure conditions in an absolute manner as it removes the influence of individual differences derived from the performance of a task and the personal competencies of each person, and (b) data acquisition is relatively easy and fast, therefore requiring less participant collaboration (Bernal, 2022;Whitfield-Gabrieli et al., 2020). ...

Practical Aspects of Functional Magnetic Resonance Imaging in Children
  • Citing Article
  • August 2021

Journal of Pediatric Neurology

... Analysis of Linear Models 16 and prior lesion network mapping studies from our group and others. 13,17 We should also note that prior studies warning that FDR correction risks false positives focused on smaller sample sizes (n=30-60) and parametric models, 18 while our analysis uses a large sample size (n=267) and non-parametric permutation-based statistics that are known to mitigate this risk. 19,20 To further validate our results we completed several secondary analyses. ...

Lesion network Localization of Seizure freedom following MR- guided Laser interstitial thermal Ablation

Scientific Reports

... Our use of FDR is consistent with existing recommendations for nonparametric analyses using a general linear model in Permutation Analysis of Linear Models 16 and prior lesion network mapping studies from our group and others. 13,17 We should also note that prior studies warning that FDR correction risks false positives focused on smaller sample sizes (n = 30-60) and parametric models, 18 whereas our analysis uses a large sample size (n = 267) and nonparametric permutation-based statistics that are known to mitigate this risk. 19,20 To further validate our results, we completed several secondary analyses. ...

Lesion Network Localization of Seizure Freedom following MR-guided Laser Interstitial Thermal Ablation

... Vikram et al. [5] have reviewed the stateof-the-art progressions in assortment algorithms to find seizure phases, seizure sensing, signal processing, and frequency-domain analysis, as well as the essentials for brain stimulation methods. To describe the status of oxygen alterations at the veins, knowing the two prime factors is necessary: oxygen supply (depending on hemoglobin accessibility) and oxygen extraction fraction (OEF) (which depends mainly on the metabolic rate of the neurons [6]). ...

Epilepsy Focus Localization in Patients Utilizing BOLD Differences Related to Regional Metabolic Dynamics

Open Journal of Radiology

... 37 For drug-resistant epilepsy, the recommended laterality remains unequivocally the left: this may explain why the VNS responders exhibited significantly greater connectivity on the left hemisphere. 38 Noninvasive VNS offers the possibility to test left, right or bilateral VNS. In this way, Peng et al observed different effects of transcutaneous auricular VNS in function of the site of the stimulation (right ear, left ear, or both ears): ipsilesional VNS seemed necessary for rehabilitation of poststroke patients. ...

Connectomic Profiling Identifies Responders to Vagus Nerve Stimulation

... Finally, a total of 11 studies were selected. Table 4 summarises the studies included in this systematic review investigating the utilization of fMRI as a pre-operative mapping tool for brain tumour in paediatric patients [38][39][40][41][42][43][44][45][46][47][48][49]. The eleven independent studies that met the inclusion criteria comprised 431 participants: 377 patients with different types and locations of brain tumours, and 54 healthy controls (HC). ...

Functional imaging localization of complex organic hallucinations
  • Citing Article
  • May 2019

Neurocase

... In contrast, the process of broadcasting speech is as follows: first, a thought appears in the mind, which goes to Wernicke's centre (Ardila et al., 2016;González et al., 2014). Next, information is sent via the arcuate bundle to the Broca's centre and the primary 'transmitting' cortex. ...

Área cerebral del lenguaje: una reconsideración funcional

... This region is functionally connected to the DAN and is highly involved in general visual processing (Vogel, Miezin, Petersen, & Schlaggar, 2011). Furthermore, the angular gyrus and the IFG seem to play a role in language processing and reading as integrative, multimodal hubs, that is, recruiting and synchronizing large-scale whole-brain networks (Rosselli, Ardila, & Bernal, 2015;Taran et al., 2022;Xu, Lin, Han, He, & Bi, 2016). In summary, convergent evidence points toward the mentioned brain networks and regions as the primary neurobiological correlates of reading. ...

Modelo de conectividad de la circunvolución angular en el lenguaje: metaanálisis de neuroimágenes funcionales

... (Arrington et al., 2017;Banfi et al., 2019) or report null effects (Meisler and Gabrieli, 2022a). Other studies have identified continuous associations between individual differences in reading abilities and white matter microstructure, including tract-specific associations with different reading sub-skills (Broce et al., 2019;Cross et al., 2023;Lebel et al., 2013;Meisler and Gabrieli, 2022a;Niogi and McCandliss, 2006;Yeatman et al., 2011). Phonological processing and phonological decoding (i.e., pseudoword reading) appear to exhibit robust associations with white matter microstructure, with several studies linking these sub-skills to diffusion properties in left AF microstructure, even after controlling for other reading sub-skills and cognitive ability (Broce et al., 2019;Cross et al., 2023). ...

Fiber pathways supporting early literacy development in 5–8-year-old children
  • Citing Article
  • December 2018

Brain and Cognition