Frontiers in neuroimaging最新文献

{"title":"Diffusion in the corpus callosum predicts persistence of clinical symptoms after mild traumatic brain injury, a multi-scanner study","authors":"Alexander Asturias, Thomas Knoblauch, Alan Rodriguez, Cheryl Vanier, Caroline Le Tohic, Brandon Barrett, Michael Eisenberg, Rachelle Gibbert, Lennon Zimmerman, Shaunaq Parikh, Anh Nguyen, Sherwin Azad, Leo Germin, Enrico Fazzini, Travis Snyder","doi":"10.3389/fnimg.2023.1153115","DOIUrl":"https://doi.org/10.3389/fnimg.2023.1153115","url":null,"abstract":"Background Mild traumatic brain injuries (mTBIs) comprise 80% of all TBI, but conventional MRI techniques are often insensitive to the subtle changes and injuries produced in a concussion. Diffusion tensor imaging (DTI) is one of the most sensitive MRI techniques for mTBI studies with outcome and symptom associations described. The corpus callosum (CC) is one of the most studied fiber tracts in TBI and mTBI, but the comprehensive post-mTBI symptom relationship has not fully been explored. Methods This is a retrospective observational study of how quantitative DTI data of the CC and its sub-regions may relate to clinical presentation of symptoms and timing of resolution of symptoms in patients diagnosed with uncomplicated mTBI. DTI and clinical data were obtained retrospectively from 446 (mean age 42 years, range 13–82) civilian patients. From patient medical charts, presentation of the following common post-concussive symptoms was noted: headache, balance issues, cognitive deficits, fatigue, anxiety, depression, and emotional lability. Also recorded was the time between injury and a visit to the physician when improvement or resolution of a particular symptom was reported. FA values from the total CC and 3 subregions of the CC (genu or anterior, mid body, and splenium or posterior) were obtained from hand tracing on the Olea Sphere v3.0 SP12 free-standing workstation. DTI data was obtained from 8 different 3T MRI scanners and harmonized via ComBat harmonization. The statistical models used to explore the association between regional Fractional Anisotropy (FA) values and symptom presentation and time to symptom resolution were logistic regression and interval-censored semi-parametric Cox proportional hazard models, respectively. Subgroups related to age and timing of first scan were also analyzed. Results Patients with the highest FA in the total CC ( p = 0.01), anterior CC ( p < 0.01), and mid-body CC ( p = 0.03), but not the posterior CC ( p = 0.91) recovered faster from post-concussive cognitive deficits. Patients with the highest FA in the posterior CC recovered faster from depression ( p = 0.04) and emotional lability ( p = 0.01). There was no evidence that FA in the CC or any of its sub-regions was associated with symptom presentation or with time to resolution of headache, balance issues, fatigue, or anxiety. Patients with mTBI under 40 had higher FA in the CC and the anterior and mid-body subregions (but not the posterior subregion: p = 1.00) compared to patients 40 or over ( p ≤ 0.01). There was no evidence for differences in symptom presentation based on loss of consciousness (LOC) or sex ( p ≥ 0.18). Conclusion This study suggests that FA of the CC has diagnostic and prognostic value for clinical assessment of mTBI in a large diverse civilian population, particularly in patients with cognitive symptoms.","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"5 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135872245","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Automatic planning of MR-guided transcranial focused ultrasound treatment for essential tremor.","authors":"Jan Klein, Annika Gerken, Niklas Agethen, Sven Rothlübbers, Neeraj Upadhyay, Veronika Purrer, Carsten Schmeel, Valeri Borger, Maya Kovalevsky, Itay Rachmilevitch, Yeruham Shapira, Ullrich Wüllner, Jürgen Jenne","doi":"10.3389/fnimg.2023.1272061","DOIUrl":"10.3389/fnimg.2023.1272061","url":null,"abstract":"<p><strong>Introduction: </strong>Transcranial focused ultrasound therapy (tcFUS) offers precise thermal ablation for treating Parkinson's disease and essential tremor. However, the manual fine-tuning of fiber tracking and segmentation required for accurate treatment planning is time-consuming and demands expert knowledge of complex neuroimaging tools. This raises the question of whether a fully automated pipeline is feasible or if manual intervention remains necessary.</p><p><strong>Methods: </strong>We investigate the dependence on fiber tractography algorithms, segmentation approaches, and degrees of automation, specifically for essential tremor therapy planning. For that purpose, we compare an automatic pipeline with a manual approach that requires the manual definition of the target point and is based on FMRIB software library (FSL) and other open-source tools.</p><p><strong>Results: </strong>Our findings demonstrate the high feasibility of automatic fiber tracking and the automated determination of standard treatment coordinates. Employing an automatic fiber tracking approach and deep learning (DL)-supported standard coordinate calculation, we achieve anatomically meaningful results comparable to a manually performed FSL-based pipeline. Individual cases may still exhibit variations, often stemming from differences in region of interest (ROI) segmentation. Notably, the DL-based approach outperforms registration-based methods in producing accurate segmentations. Precise ROI segmentation proves crucial, surpassing the importance of fine-tuning parameters or selecting algorithms. Correct thalamus and red nucleus segmentation play vital roles in ensuring accurate pathway computation.</p><p><strong>Conclusion: </strong>This study highlights the potential for automation in fiber tracking algorithms for tcFUS therapy, but acknowledges the ongoing need for expert verification and integration of anatomical expertise in treatment planning.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1272061"},"PeriodicalIF":0.0,"publicationDate":"2023-10-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10637361/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89720937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Editorial: Autonomous magnetic resonance imaging.","authors":"Sairam Geethanath, Rita G Nunes, Jon-Fredrik Nielsen","doi":"10.3389/fnimg.2023.1277580","DOIUrl":"10.3389/fnimg.2023.1277580","url":null,"abstract":"","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1277580"},"PeriodicalIF":0.0,"publicationDate":"2023-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10497867/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10272913","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Psychopathic traits and altered resting-state functional connectivity in incarcerated adolescent girls.","authors":"Corey H Allen, J Michael Maurer, Aparna R Gullapalli, Bethany G Edwards, Eyal Aharoni, Carla L Harenski, Nathaniel E Anderson, Keith A Harenski, Vince D Calhoun, Kent A Kiehl","doi":"10.3389/fnimg.2023.1216494","DOIUrl":"10.3389/fnimg.2023.1216494","url":null,"abstract":"<p><p>Previous work in incarcerated boys and adult men and women suggest that individuals scoring high on psychopathic traits show altered resting-state limbic/paralimbic, and default mode functional network properties. However, it is unclear whether similar results extend to high-risk adolescent girls with elevated psychopathic traits. This study examined whether psychopathic traits [assessed via the Hare Psychopathy Checklist: Youth Version (PCL:YV)] were associated with altered inter-network connectivity, intra-network connectivity (i.e., functional coherence within a network), and amplitude of low-frequency fluctuations (ALFFs) across resting-state networks among high-risk incarcerated adolescent girls (<i>n</i> = 40). Resting-state networks were identified by applying group independent component analysis (ICA) to resting-state fMRI scans, and <i>a priori</i> regions of interest included limbic, paralimbic, and default mode network components. We tested the association of psychopathic traits (PCL:YV Factor 1 measuring affective/interpersonal traits and PCL:YV Factor 2 assessing antisocial/lifestyle traits) to these three resting-state measures. PCL:YV Factor 1 scores were associated with increased low-frequency and decreased high-frequency fluctuations in components corresponding to the default mode network, as well as increased intra-network FNC in components corresponding to cognitive control networks. PCL:YV Factor 2 scores were associated with increased low-frequency fluctuations in sensorimotor networks and decreased high-frequency fluctuations in default mode, sensorimotor, and visual networks. Consistent with previous analyses in incarcerated adult women, our results suggest that psychopathic traits among incarcerated adolescent girls are associated with altered intra-network ALFFs-primarily that of increased low-frequency and decreased high-frequency fluctuations-and connectivity across multiple networks including paralimbic regions. These results suggest stable neurobiological correlates of psychopathic traits among women across development.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1216494"},"PeriodicalIF":0.0,"publicationDate":"2023-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406221/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9965709","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Family history of substance use disorder and parental impulsivity are differentially associated with neural responses during risky decision-making.","authors":"Joseph Aloi,&nbsp;Elizabeth Kwon,&nbsp;Tom A Hummer,&nbsp;Kathleen I Crum,&nbsp;Nikhil Shah,&nbsp;Lauren Pratt,&nbsp;Matthew C Aalsma,&nbsp;Peter Finn,&nbsp;John Nurnberger,&nbsp;Leslie A Hulvershorn","doi":"10.3389/fnimg.2023.1110494","DOIUrl":"10.3389/fnimg.2023.1110494","url":null,"abstract":"<p><strong>Background: </strong>Risky decision-making is associated with the development of substance use behaviors during adolescence. Although prior work has investigated risky decision-making in adolescents at familial high risk for developing substance use disorders (SUDs), little research has controlled for the presence of co-morbid externalizing disorders (EDs). Additionally, few studies have investigated the role of parental impulsivity in offspring neurobiology associated with risky decision-making.</p><p><strong>Methods: </strong>One-hundred twenty-five children (28 healthy controls, 47 psychiatric controls with EDs <i>without</i> a familial history of SUD, and 50 high-risk children <i>with</i> co-morbid EDs with a familial history of SUD) participated in the Balloon Analog Risk Task while undergoing functional magnetic resonance imaging. Impulsivity for parents and children was measured using the UPPS-P Impulsive Behavior Scale.</p><p><strong>Results: </strong>We found that individuals in the psychiatric control group showed greater activation, as chances of balloon explosion increased, while making choices, relative to the healthy control and high-risk groups in the rostral anterior cingulate cortex (rACC) and lateral orbitofrontal cortex (lOFC). We also found a positive association between greater activation and parental impulsivity in these regions. However, within rACC, this relationship was moderated by group, such that there was a positive relationship between activation and parental impulsivity in the HC group, but an inverse relationship in the HR group.</p><p><strong>Conclusions: </strong>These findings suggest that there are key differences in the neurobiology underlying risky decision-making in individuals with EDs with and without a familial history of SUD. The current findings build on existing models of neurobiological factors influencing addiction risk by integrating parental factors. This work paves the way for more precise risk models in which to test preventive interventions.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1110494"},"PeriodicalIF":0.0,"publicationDate":"2023-06-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406275/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9965711","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Survey of neuroimaging in neurological surgery, current state, and emerging research","authors":"Saramati Narasimhan, Hernán F. J. González","doi":"10.3389/fnimg.2023.1022680","DOIUrl":"https://doi.org/10.3389/fnimg.2023.1022680","url":null,"abstract":"Neuroimaging plays a crucial role in enabling a surgeon's proficiency and achieving optimal outcomes across various subspecialties of neurosurgery. Since Wilhelm Roentgen's groundbreaking discovery of the radiograph in 1895, imaging capabilities have advanced astronomically, significantly benefiting the field of neurosurgery. In this review, we aim to provide a concise overview of neuroimaging in four specific subspecialties: neuro-oncology, cerebrovascular, spine, and functional neurosurgery. Although the diseases and procedures mentioned are not exhaustive, they are illustrative examples of how neuroimaging has contributed to advancements in neurosurgery. Our intention is to emphasize the critical role of neuroimaging in pre-operative, intra-operative, and post-operative settings, while also highlighting its potential to drive research to further enhance existing neurosurgical technologies and ultimately better patient outcomes.","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41445535","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Translocator protein PET imaging in temporal lobe epilepsy: A reliable test-retest study using asymmetry index.","authors":"Mohammad Mahmud, Charles Wade, Sarah Jawad, Zaeem Hadi, Christian Otoul, Rafal M Kaminski, Pierandrea Muglia, Irena Kadiu, Eugenii Rabiner, Paul Maguire, David R Owen, Michael R Johnson","doi":"10.3389/fnimg.2023.1142463","DOIUrl":"10.3389/fnimg.2023.1142463","url":null,"abstract":"<p><strong>Objective: </strong>Translocator protein (TSPO) targeting positron emission tomography (PET) imaging radioligands have potential utility in epilepsy to assess the efficacy of novel therapeutics for targeting neuroinflammation. However, previous studies in healthy volunteers have indicated limited test-retest reliability of TSPO ligands. Here, we examine test-retest measures using TSPO PET imaging in subjects with epilepsy and healthy controls, to explore whether this biomarker can be used as an endpoint in clinical trials for epilepsy.</p><p><strong>Methods: </strong>Five subjects with epilepsy and confirmed mesial temporal lobe sclerosis (mean age 36 years, 3 men) were scanned twice-on average 8 weeks apart-using a second generation TSPO targeting radioligand, [¹¹C]PBR28. We evaluated the test-retest reliability of the volume of distribution and derived hemispheric asymmetry index of [¹¹C]PBR28 binding in these subjects and compared the results with 8 (mean age 45, 6 men) previously studied healthy volunteers.</p><p><strong>Results: </strong>The mean (± SD) of the volume of distribution (<i>V</i>_T), of all subjects, in patients living with epilepsy for both test and retest scans on all regions of interest (ROI) is 4.49 ± 1.54 vs. 5.89 ± 1.23 in healthy volunteers. The bias between test and retest in an asymmetry index as a percentage was small (-1.5%), and reliability is demonstrated here with Bland-Altman Plots (test mean 1.062, retest mean 2.56). In subjects with epilepsy, <i>V</i>_T of [¹¹C]PBR28 is higher in the (ipsilateral) hippocampal region where sclerosis is present than in the contralateral region.</p><p><strong>Conclusion: </strong>When using TSPO PET in patients with epilepsy with hippocampal sclerosis (HS), an inter-hemispheric asymmetry index in the hippocampus is a measure with good test-retest reliability. We provide estimates of test-retest variability that may be useful for estimating power where group change in <i>V</i>_T represents the clinical outcome.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1142463"},"PeriodicalIF":0.0,"publicationDate":"2023-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406252/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9965710","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Accelerated MRI using intelligent protocolling and subject-specific denoising applied to Alzheimer's disease imaging.","authors":"Keerthi Sravan Ravi, Gautham Nandakumar, Nikita Thomas, Mason Lim, Enlin Qian, Marina Manso Jimeno, Pavan Poojar, Zhezhen Jin, Patrick Quarterman, Girish Srinivasan, Maggie Fung, John Thomas Vaughan, Sairam Geethanath","doi":"10.3389/fnimg.2023.1072759","DOIUrl":"10.3389/fnimg.2023.1072759","url":null,"abstract":"<p><p>Magnetic Resonance Imaging (MR Imaging) is routinely employed in diagnosing Alzheimer's Disease (AD), which accounts for up to 60-80% of dementia cases. However, it is time-consuming, and protocol optimization to accelerate MR Imaging requires local expertise since each pulse sequence involves multiple configurable parameters that need optimization for contrast, acquisition time, and signal-to-noise ratio (SNR). The lack of this expertise contributes to the highly inefficient utilization of MRI services diminishing their clinical value. In this work, we extend our previous effort and demonstrate accelerated MRI <i>via</i> intelligent protocolling of the modified brain screen protocol, referred to as the Gold Standard (GS) protocol. We leverage deep learning-based contrast-specific image-denoising to improve the image quality of data acquired using the accelerated protocol. Since the SNR of MR acquisitions depends on the volume of the object being imaged, we demonstrate subject-specific (SS) image-denoising. The accelerated protocol resulted in a 1.94 × gain in imaging throughput. This translated to a 72.51% increase in MR Value-defined in this work as the ratio of the sum of median object-masked local SNR values across all contrasts to the protocol's acquisition duration. We also computed PSNR, local SNR, MS-SSIM, and variance of the Laplacian values for image quality evaluation on 25 retrospective datasets. The minimum/maximum PSNR gains (measured in dB) were 1.18/11.68 and 1.04/13.15, from the baseline and SS image-denoising models, respectively. MS-SSIM gains were: 0.003/0.065 and 0.01/0.066; variance of the Laplacian (lower is better): 0.104/-0.135 and 0.13/-0.143. The GS protocol constitutes 44.44% of the comprehensive AD imaging protocol defined by the European Prevention of Alzheimer's Disease project. Therefore, we also demonstrate the potential for AD-imaging <i>via</i> automated volumetry of relevant brain anatomies. We performed statistical analysis on these volumetric measurements of the hippocampus and amygdala from the GS and accelerated protocols, and found that 27 locations were in excellent agreement. In conclusion, accelerated brain imaging with the potential for AD imaging was demonstrated, and image quality was recovered post-acquisition using DL-based image denoising models.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1072759"},"PeriodicalIF":0.0,"publicationDate":"2023-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406274/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10294765","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Manual lesion segmentations for traumatic brain injury characterization.","authors":"Alexis Bennett, Rachael Garner, Michael D Morris, Marianna La Rocca, Giuseppe Barisano, Ruskin Cua, Jordan Loon, Celina Alba, Patrick Carbone, Shawn Gao, Asenat Pantoja, Azrin Khan, Noor Nouaili, Paul Vespa, Arthur W Toga, Dominique Duncan","doi":"10.3389/fnimg.2023.1068591","DOIUrl":"10.3389/fnimg.2023.1068591","url":null,"abstract":"<p><p>Traumatic brain injury (TBI) often results in heterogenous lesions that can be visualized through various neuroimaging techniques, such as magnetic resonance imaging (MRI). However, injury burden varies greatly between patients and structural deformations often impact usability of available analytic algorithms. Therefore, it is difficult to segment lesions automatically and accurately in TBI cohorts. Mislabeled lesions will ultimately lead to inaccurate findings regarding imaging biomarkers. Therefore, manual segmentation is currently considered the gold standard as this produces more accurate masks than existing automated algorithms. These masks can provide important lesion phenotype data including location, volume, and intensity, among others. There has been a recent push to investigate the correlation between these characteristics and the onset of post traumatic epilepsy (PTE), a disabling consequence of TBI. One motivation of the Epilepsy Bioinformatics Study for Antiepileptogenic Therapy (EpiBioS4Rx) is to identify reliable imaging biomarkers of PTE. Here, we report the protocol and importance of our manual segmentation process in patients with moderate-severe TBI enrolled in EpiBioS4Rx. Through these methods, we have generated a dataset of 127 validated lesion segmentation masks for TBI patients. These ground-truths can be used for robust PTE biomarker analyses, including optimization of multimodal MRI analysis <i>via</i> inclusion of lesioned tissue labels. Moreover, our protocol allows for analysis of the refinement process. Though tedious, the methods reported in this work are necessary to create reliable data for effective training of future machine-learning based lesion segmentation methods in TBI patients and subsequent PTE analyses.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1068591"},"PeriodicalIF":0.0,"publicationDate":"2023-03-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406209/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10412940","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quality control procedures and metrics for resting-state functional MRI.","authors":"Rasmus M Birn","doi":"10.3389/fnimg.2023.1072927","DOIUrl":"10.3389/fnimg.2023.1072927","url":null,"abstract":"<p><p>The monitoring and assessment of data quality is an essential step in the acquisition and analysis of functional MRI (fMRI) data. Ideally data quality monitoring is performed while the data are being acquired and the subject is still in the MRI scanner so that any errors can be caught early and addressed. It is also important to perform data quality assessments at multiple points in the processing pipeline. This is particularly true when analyzing datasets with large numbers of subjects, coming from multiple investigators and/or institutions. These quality control procedures should monitor not only the quality of the original and processed data, but also the accuracy and consistency of acquisition parameters. Between-site differences in acquisition parameters can guide the choice of certain processing steps (e.g., resampling from oblique orientations, spatial smoothing). Various quality control metrics can determine what subjects to exclude from the group analyses, and can also guide additional processing steps that may be necessary. This paper describes a combination of qualitative and quantitative assessments to determine the quality of fMRI data. Processing is performed using the AFNI data analysis package. Qualitative assessments include visual inspection of the structural T1-weighted and fMRI echo-planar images, functional connectivity maps, functional connectivity strength, and temporal signal-to-noise maps concatenated from all subjects into a movie format. Quantitative metrics include the acquisition parameters, statistics about the level of subject motion, temporal signal-to-noise ratio, smoothness of the data, and the average functional connectivity strength. These measures are evaluated at different steps in the processing pipeline to catch gross abnormalities in the data, and to determine deviations in acquisition parameters, the alignment to template space, the level of head motion, and other sources of noise. We also evaluate the effect of different quantitative QC cutoffs, specifically the motion censoring threshold, and the impact of bandpass filtering. These qualitative and quantitative metrics can then provide information about what subjects to exclude and what subjects to examine more closely in the analysis of large datasets.</p>","PeriodicalId":73094,"journal":{"name":"Frontiers in neuroimaging","volume":"2 ","pages":"1072927"},"PeriodicalIF":0.0,"publicationDate":"2023-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10406233/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9963086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}