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Choupan, J.

Publications and source records attributed to Choupan, J..

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Genetic Architecture of Perivascular Space Morphology in the Pediatric Brain

IntroductionPerivascular spaces (PVS) support brain homeostasis through metabolite delivery and waste clearance, yet the genetic determinants of PVS morphology during childhood remain unknown. Here, we leveraged cross-sectional Adolescent Brain Cognitive Development Study data (N = 6,600; ages 9-10), including genomics and 3T structural MRI. MethodsLinear mixed-effects models examined associations between 45 single nucleotide polymorphisms (SNPs) previously linked to adult PVS structure or function and PVS count and volume fraction (VF) across six macroregions and 28 Desikan-Killiany subregions. ResultsFifteen SNPs demonstrated significant associations with PVS macroregion morphology, predominantly VF; 21 SNPs demonstrated associations with subregion morphology. Variants near SLC13A3 showed the strongest, most widespread associations with PVS VF. Additional replicated variants implicated Wnt signaling, cell adhesion, apoptosis, and glymphatic function. ConclusionThese findings suggest genetic associations with PVS morphology are detectable in childhood, while highlighting developmental and regional specificity. Longitudinal studies are now needed to determine whether childhood PVS genetic architecture predicts trajectories of glymphatic maturation and associated cognitive outcomes. Key PointsO_LIPerivascular space morphology, mapped across 28 white matter subregions, displays substantial regional and interindividual variability during childhood. C_LIO_LISix genetic associations with perivascular morphology were only detectable at subregion resolution, demonstrating that lobar averaging can obscure spatially restricted signals. C_LIO_LINearly 50% of adult-identified perivascular space risk variants replicated in 9-10 year-olds, with anatomically patterned associations reflecting patterns of neurovascular complexity and neurodevelopmental timing. C_LI

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Sex and gender differences in perivascular space in early adolescence

Perivascular spaces (PVS) surrounding cerebral blood vessels play an important role in the blood-brain barrier and glymphatic system. Although it was once thought that PVS were either absent or too small to be seen or quantified during healthy development with MRI, recent studies have found visible, quantifiable PVS exist throughout the white matter of the cerebrum in childhood and adolescence. As a result, researchers have begun to explore individual differences, including potential sex-based variations in developing PVS. Meta-analyses in adults have shown that PVS are larger on average in males than in females, and several studies have shown a similar relationship in children. In contrast, no studies to date have examined the association between gender and PVS at any age. This cross-sectional study examined 6,538 youths from a large, nationwide sample of 9- to 11-year-olds in the U.S. to examine the relationship between sex, felt-gender, and PVS count and volume. Using a model-building approach, we conducted a series of linear mixed-effects models to determine the maximum variance explained in PVS count and volume, including age, pubertal development status, race, parent education, BMI z-score, and regional white matter volume, while also adjusting for MRI scanner and site. BMI z-score, age, and parent education were significant predictors of both PVS volume and count. Adding sex to the model improved model fit in all regions, and the further addition of felt-gender significantly improved model fit for PVS count in 5/6 regions of interest. Moreover, we found increases in PVS volume and count were associated with reduced executive function, learning, and memory. As the first study to report an association between felt-gender and PVS, our findings demonstrate the importance of considering gender in addition to sex as a potential source of structural variance in PVS in adolescents.

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Outdoor Air Pollution, Perivascular Space Morphology, and Cognition in Preadolescence

BackgroundAmbient air pollution exposure is associated with structural brain differences and poorer cognition in children; however, mechanisms of toxicity remain unclear. Perivascular spaces (PVS), key for brain waste clearance, may play a role in the neurotoxicity of air pollution. This study explored associations between air pollution exposure, PVS morphology, and cognition in preadolescents. MethodsWe analyzed cross-sectional Adolescent Brain Cognitive DevelopmentSM (ABCD) Study(R) data from 6,949 9-10-year-old participants. Annual average exposures to PM2.5, O3, NO2, and 15 PM2.5 components were estimated using spatiotemporal models mapped to residential addresses. PVS count and volume were derived from T1w and T2w MRI, and cognition was estimated using NIH Toolbox scores. Linear mixed-effects models examined independent associations between air pollution, PVS, and cognition; weighted quantile sum regression assessed co-exposure effects of PM2.5 mixtures. FindingsLinear models revealed that exposures to Zn, NH4 +, and Br were positively associated with PVS count in several regions. Higher PVS count in five key regions was associated with poorer cognitive performance across several NIH Toolbox domains. Higher Ca, Zn, and NH 4 + exposures were associated with poorer cognition (PFDR < 0.01). Higher frontal lobe PVS count mediated the association between Zn exposure and poorer total cognition (P < 0.01). Co-exposure models revealed that PM2.5 mixtures were associated with higher temporal and cingulate PVS count, and poorer working memory and crystallized intelligence (P < 0.01). InterpretationOutdoor air pollution was associated with higher PVS count and reduced cognition, suggesting that brain clearance may be a novel mechanism linking pollution to neurodevelopmental harm in preadolescents. FundingThis work was supported by the National Institutes of Health (NIH) National Institute of Environmental Health Sciences (NIEHS) (Grant Nos. R01ES032295 and R01ES031074 [to MMH]; T32ES013678 [to JM]; P30ES07048 [to JM and MAR]; 3P30ES000002-55S [to MAR]), National Institute of Mental Health (NIMH) (Grant RF1MH123223 [to JC]), National Institute of Neurological Disorders and Stroke (Grant R01NS128486 [to JC]), and EPA grants (Grant Nos. 83587201 and 83544101 [to JS]).

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Perivascular space mediated the interaction between sleep, and brain functional connectivity in the healthy aging population

Perivascular space (PVS) surrounds the perforating arteries or draining veins of the cerebral cortex as part of the brain clearance system. Previous studies showed that sleep aTects both brain clearance function and brain functional connectivity (FC). However, the impact of PVS characteristics on brain FC remains unclear. This study investigated these associations and their link to cognition. We utilized cross-sectional structural MRI and resting state-fMRI data from 512 health aging population in the HCP-Aging dataset, together with Pittsburgh Sleep Quality Index questionnaire and NIH cognitive tests. Our results showed that basal ganglia (BG)-PVS volume fraction (VF) was positively correlated with FC in the right anterior medial temporal gyrus (aMTG) and right temporal regions, while centrum-semiovale (CSO)-PVS VF was positively correlated with FC in the left hippocampus and right frontal regions. Increased CSO-PVS VF in early middle-aged adults showed higher hippocampal FC and better cognitive performance. Interestingly, individuals with longer time spent in bed had larger BG-PVS VF linked to higher FC in the right aMTG. Additionally, older adults with better sleep quality had larger BG-PVS VF linked to higher FC in the right aMTG. These findings suggest that PVS morphology may reflect changes in neural connections involved in memory-related regions.

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Effects of one-night partial sleep deprivation on perivascular space volume fraction: Findings from the Stockholm Sleepy Brain Study

Increased waste clearance in the brain is thought to occur most readily during late-stage sleep (stage N3). Sleep deprivation disrupts time spent in deeper sleep stages, fragmenting the clearance process. Here, we have utilized the publicly available Stockholm Sleepy Brain Study to investigate whether various sleep-related measures are associated with changes in perivascular space (PVS) volume fraction following a late-night short-sleep experiment. Our sample consisted of 60 participants divided into old (65-75 years) and young (20-30 years) age groups. We found that partial sleep deprivation was not significantly associated with major PVS changes. In the centrum semiovale, we observed an interaction between percentage of total sleep time spent in N3 and sleep deprivation status on PVS volume fraction. In the basal ganglia, we saw an interaction between N2 (both percentage of total sleep time and absolute time in minutes) and sleep deprivation status. However, the significance of these findings did not survive multiple comparisons corrections. This work highlights the need for future longitudinal studies of PVS and sleep, allowing for quantification of within-subject morphological changes occurring in PVS due to patterns of poor sleep. Our findings here provide insight on the impacts that a single night of late-night short-sleep has on the perivascular waste clearance system. Statement of SignificanceSleep issues have been known to be associated with a variety of health risks. Recent research has shown the importance of sleep for brain clearance, with increases in brain clearance occurring during sleep. PVS seen on MRI are known to represent both influx and efflux pathways for the exchange of cerebrospinal fluid (CSF) and interstitial fluid (ISF) in the brain parenchyma, a key process underlying the waste clearance system.1 Numerous recent studies have found links between sleep disruption and PVS volume changes. However, no study to date has been able to examine within-subject changes in PVS resulting from experimental manipulation of sleep. Our study represents the first within-subject study looking at the effects of partial sleep deprivation on PVS volume fraction using an automated PVS segmentation technique.

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Perivascular and parenchymal fluid characteristics are related to age and cognitive performance across the lifespan

Perivascular spaces (PVS) play a critical role in fluid transfer and waste clearance in the brain, but few studies have explored how alterations to perivascular fluid flow may impact brain maturation and behavior across the lifespan. This study aims to characterize age-related alterations to perivascular and parenchymal fluid flow characteristics across the lifespan in typically developing children (8-21 years) and aging adults (35-90 years) and assess their contribution to cognition. In this study, we employ multi-compartment diffusion models, neurite orientation dispersion and density imaging (NODDI) and tissue tensor imaging (TTI), to quantify free water diffusion characteristics within automatically defined perivascular spaces, the surrounding parenchyma, and at variable distances from the PVS. Our findings show free water diffusion characteristics within the PVS and surrounding parenchyma are associated with age in both developing children and in aging adults. Additionally, age was associated with accelerated change in free water diffusion measures with distance from the PVS. There was no direct effect of free water diffusion measures on cognitive scores across subjects; however, a more complex relationship emerged such that age modified the relationship between free water diffusion measures and cognition. Together, these findings provide evidence of age-associated alterations to fluid flow dynamics and cognition that may be related to the waste clearance system.

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More similarity than difference: comparison of within- and between-sex variance in early adolescent brain structure

BackgroundAdolescent neuroimaging studies of sex differences in the human brain predominantly examine mean differences between males and females. This focus on between-groups differences without probing relative distributions and similarities may contribute to both conflation and overestimation of sex differences and sexual dimorphism in the developing human brain. MethodsWe aimed to characterize the variance in brain macro-and micro-structure in early adolescence as it pertains to sex at birth using a large sample of 9-11 year-olds from the Adolescent Brain Cognitive Development (ABCD) Study (N=7,723). Specifically, for global and regional estimates of gray and white matter volume, cortical thickness, and white matter microstructure (i.e., fractional anisotropy and mean diffusivity), we examined: within-and between-sex variance, overlap between male and female distributions, inhomogeneity of variance via the Fligner-Killeen test, and an analysis of similarities (ANOSIM). For completeness, we examined these sex differences using both uncorrected (raw) brain estimates and residualized brain estimates after using mixed-effects modeling to account for age, pubertal development, socioeconomic status, race, ethnicity, MRI scanner manufacturer, and total brain volume, where applicable. ResultsThe overlap between male and female distributions was universally greater than the difference (overlap coefficient range: 0.585 -0.985) and the ratio of within-sex and between-sex differences was similar (ANOSIM R range: -0.001 -0.117). All cortical and subcortical volumes showed significant inhomogeneity of variance, whereas a minority of brain regions showed significant sex differences in variance for cortical thickness, white matter volume, fractional anisotropy, and mean diffusivity. Inhomogeneity of variance was reduced after accounting for other sources of variance. Overlap coefficients were larger and ANOSIM R values were smaller for residualized outcomes, indicating greater within-and smaller between-sex differences once accounting for other covariates. ConclusionsReported sex differences in early adolescent human brain structure may be driven by disparities in variance, rather than binary, sex-based phenotypes. Contrary to the popular view of the brain as sexually dimorphic, we found more similarity than difference between sexes in all global and regional measurements of brain structure examined. This study builds upon previous findings illustrating the importance of considering variance when examining sex differences in brain structure. HighlightsO_LIHigh male/female overlap is ubiquitous across all brain features in early adolescence C_LIO_LIMale variance exceeded female variance for global and regional brain volumes C_LIO_LIBetween-and within-sex differences were similar in magnitude for all features C_LI Plain English SummaryBrain imaging research has consistently revealed differences between males and females in the shape and size of adolescent brains. Studies usually compare the average male brain to the average female brain. However, brain structure varies greatly among individuals, even within the same sex. Without looking at both the variability within people of the same sex, and the degree of similarity between the sexes, it is unclear if separating adolescent brains into male and female categories will help us understand brain development. In this study, we looked at the overlap in brain structure among male and female youths (ages 9 to 11 years). We also compared variability between sexes and within each sex. Overall, we found that, there was more similarity than difference between male and female brains. The difference between any given male and any given female was similar to the difference between two individuals of the same sex. These findings suggest that, despite some small average differences, the brains of early adolescent males and females are more alike than different at ages 9-11 years.

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Sex, gender diversity, and brain structure in children ages 9 to 11 years old

There remains little consensus about the relationship between sex and brain structure, particularly in childhood. Moreover, few pediatric neuroimaging studies have analyzed both sex and gender as variables of interest - many of which included small sample sizes and relied on binary definitions of gender. The current study examined gender diversity with a continuous felt-gender score and categorized sex based on X and Y allele frequency in a large sample of children ages 9-11 years-old (N=7693). Then, a statistical model-building approach was employed to determine whether gender diversity and sex independently or jointly relate to brain morphology, including subcortical volume, cortical thickness, gyrification, and white matter microstructure. The model with sex, but not gender diversity, was the best-fitting model in 75% of gray matter regions and 79% of white matter regions examined. The addition of gender to the sex model explained significantly more variance than sex alone with regard to bilateral cerebellum volume, left precentral cortical thickness, as well as gyrification in the right superior frontal gyrus, right parahippocampal gyrus, and several regions in the left parietal lobe. For mean diffusivity in the left uncinate fasciculus, the model with sex, gender, and their interaction captured the most variance. Nonetheless, the magnitude of variance accounted for by sex was small in all cases and felt-gender score was not a significant predictor on its own for any white or gray matter regions examined. Overall, these findings demonstrate that at ages 9-11 years-old, sex accounts for a small proportion of variance in brain structure, while gender diversity is not directly associated with neurostructural diversity. HighlightsO_LISex-related variance in regional human brain structure is widespread at ages 9-11 C_LIO_LITogether, sex and gender diversity accounted for more variance in only a few regions C_LIO_LIFelt-gender diversity itself was not significantly related to any outcome at ages 9-11 C_LIO_LIEffect sizes for sex and felt-gender estimates were small C_LI

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Perivascular spaces in Alzheimer's disease are associated with inflammatory, stress-related, and hypertension biomarkers

Perivascular spaces (PVS) are fluid-filled spaces surrounding the brain vasculature. Literature suggests that PVS may play a significant role in aging and neurological disorders, including Alzheimers disease (AD). Cortisol, a stress hormone, has been implicated in the development and progression of AD. Hypertension, a common condition in older adults, has been found to be a risk factor for AD. Hypertension may contribute to PVS enlargement, impairing the clearance of waste products from the brain and promoting neuroinflammation. This study aims to understand the potential interactions between PVS, cortisol, hypertension, and inflammation in the context of cognitive impairment. Using MRI scans acquired at 1.5T, PVS were quantified in a cohort of 465 individuals with cognitive impairment. PVS was calculated in the basal ganglia and centrum semiovale using an automated segmentation approach. Levels of cortisol and angiotensin-converting enzyme (ACE) (an indicator of hypertension) were measured from plasma. Inflammatory biomarkers, such as cytokines and matrix metalloproteinases, were analyzed using advanced laboratory techniques. Main effect and interaction analyses were performed to examine the associations between PVS severity, cortisol levels, hypertension, and inflammatory biomarkers. In the centrum semiovale, higher levels of inflammation reduced cortisol associations with PVS volume fraction. For ACE, an inverse association with PVS was seen only when interacting with TNFr2 (a transmembrane receptor of TNF). There was also a significant inverse main effect of TNFr2. In the PVS basal ganglia, a significant positive association was found with TRAIL (a TNF receptor inducing apoptosis). These findings show for the first time the intricate relationships between PVS structure and the levels of stress-related, hypertension, and inflammatory biomarkers. This research could potentially guide future studies regarding the underlying mechanisms of AD pathogenesis and the potential development of novel therapeutic strategies targeting these inflammation factors.

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Brain perivascular space imaging across the human lifespan

Enlarged perivascular spaces (PVS) are considered a biomarker for vascular pathology and are observed in normal aging and neurological conditions; however, research on the role of PVS in health and disease are hindered by the lack of knowledge regarding the normative time course of PVS alterations with age. To this end, we characterized the influence of age, sex and cognitive performance on PVS anatomical characteristics in a large cross-sectional cohort ([~]1400) of healthy subjects between 8 and 90 years of age using multimodal structural MRI data. Our results show age is associated with wider and more numerous MRI-visible PVS over the course of the lifetime with spatially-varying patterns of PVS enlargement trajectories. In particular, regions with low PVS volume fraction in childhood are associated with rapid age-related PVS enlargement (e.g., temporal regions), while regions with high PVS volume fraction in childhood are associated with minimal age-related PVS alterations (e.g., limbic regions). PVS burden was significantly elevated in males compared to females with differing morphological time courses with age. Together, these findings contribute to our understanding of perivascular physiology across the healthy lifespan and provide a normative reference for the spatial distribution of PVS enlargement patterns to which pathological alterations can be compared.

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NiftyTorch: A Deep Learning framework for NeuroImaging

We present NiftyTorch a Deep Learning Framework for NeuroImaging. The motivation behind the development of such a library is that there are scant amount of centralized tool for deploying 3D deep learning for NeuroImaging. In addition, most of the existing tools require expert technical knowledge in Deep Learning or programming, creating a barrier for entry. The goal is to provide a one stop package using which the users can perform classification tasks, Segmentation tasks and Image Transformation tasks. The intended audience are the members of NeuroImaging who would like to explore deep learning but have no background in coding. In this article we explore the capabilities of the framework, the performance of the framework and the future work for the framework.

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Alteration of perivascular spaces in early cognitive decline

Vascular contributions to early cognitive decline are increasingly recognized, prompting further investigation into the nature of related changes in perivascular space. Using magnetic resonance imaging, we show that, compared to a cognitively normal sample, individuals with early cognitive dysfunction have altered perivascular space presence and distribution, irrespective of Amyloid-{beta}. Surprisingly, we noted decreased perivascular space presence in the anterosuperior medial temporal lobe, which was associated with neurofibrillary tau tangle deposition in the entorhinal cortex, one of the hallmarks of early Alzheimers disease pathology. Our results suggest that anatomically-specific alteration of the perivascular spaces may provide an early biomarker of cognitive impairment in aging adults.

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Image processing approaches to enhance perivascular space visibility and quantification using MRI

Imaging the perivascular spaces (PVS), also known as Virchow-Robin space, has significant clinical value, but there remains a need for neuroimaging techniques to improve mapping and quantification of the PVS. Current technique for PVS evaluation is a scoring system based on visual reading of visible PVS in regions of interest, and often limited to large caliber PVS. Enhancing the visibility of the PVS could support medical diagnosis and enable novel neuroscientific investigations. Increasing the MRI resolution is one approach to enhance the visibility of PVS but is limited by acquisition time and physical constraints. Alternatively, image processing approaches can be utilized to improve the contrast ratio between PVS and surrounding tissue. Here we combine T1- and T2-weighted images to enhance PVS contrast, intensifying the visibility of PVS. The Enhanced PVS Contrast (EPC) was achieved by combining T1- and T2-weighted images that were adaptively filtered to remove non-structured high-frequency spatial noise. EPC was evaluated on healthy young adults by presenting them to two expert readers and also through automated quantification. We found that EPC improves the conspicuity of the PVS and aid resolving a larger number of PVS. We also present a highly reliable automated PVS quantification approach, which was optimized using expert readings.

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A systematic bias in DTI findings

Diffusion tensor imaging (DTI) has been extensively used to map changes in brain tissue related to neurological disorders. Among the most widespread DTI findings are increased mean diffusivity and decreased fractional anisotropy of white matter tissue in neurodegenerative diseases. Here we utilize multi-shell diffusion imaging to separate diffusion signal of the brain parenchyma from fluid within the white matter. We show that unincorporated anisotropic water in perivascular space (PVS) significantly, and systematically, biases DTI measures, casting new light on the biological validity of many previously reported findings. Despite the challenge this poses for interpreting these past findings, our results suggest that multi-shell diffusion MRI provides a new opportunity for incorporating the PVS contribution, ultimately strengthening the clinical and scientific value of diffusion MRI.\n\nHighlightsO_LIPerivascular space (PVS) fluid significantly contributes to diffusion tensor imaging metrics\nC_LIO_LIIncreased PVS fluid results in increased mean diffusivity and decreased fractional anisotropy\nC_LIO_LIPVS contribution to diffusion signal is overlooked and demands further investigation\nC_LI

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