Add new papers. (#359)

Author: tsalo

articles.tsv

@@ -18,7 +18,7 @@ fulltext:
 pdf:
 pdflink:
 pmcid: PMC10690868
-preprint:
+preprint: PMC9915604
 supplement:
 
 # Links

papers/_posts/2023-11-27-diveica-graded-functional-organization.md

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+---
+layout: paper
+title: "The past, present, and future of the brain imaging data structure (BIDS)"
+nickname: 2024-03-01-poldrack-the-past-present
+authors: "Poldrack RA, Markiewicz CJ, Appelhoff S, Ashar YK, Auer T, Baillet S, Bansal S, Beltrachini L, Benar CG, Bertazzoli G, Bhogawar S, Blair RW, Bortoletto M, Boudreau M, Brooks TL, Calhoun VD, Castelli FM, Clement P, Cohen AL, Cohen-Adad J, D'Ambrosio S, de Hollander G, de la Iglesia-Vaya M, de la Vega A, Delorme A, Devinsky O, Draschkow D, Duff EP, DuPre E, Earl E, Esteban O, Feingold FW, Flandin G, Galassi A, Gallitto G, Ganz M, Gau R, Gholam J, Ghosh SS, Giacomel A, Gillman AG, Gleeson P, Gramfort A, Guay S, Guidali G, Halchenko YO, Handwerker DA, Hardcastle N, Herholz P, Hermes D, Honey CJ, Innis RB, Ioanas HI, Jahn A, Karakuzu A, Keator DB, Kiar G, Kincses B, Laird AR, Lau JC, Lazari A, Legarreta JH, Li A, Li X, Love BC, Lu H, Marcantoni E, Maumet C, Mazzamuto G, Meisler SL, Mikkelsen M, Mutsaerts H, Nichols TE, Nikolaidis A, Nilsonne G, Niso G, Norgaard M, Okell TW, Oostenveld R, Ort E, Park PJ, Pawlik M, Pernet CR, Pestilli F, Petr J, Phillips C, Poline JB, Pollonini L, Raamana PR, Ritter P, Rizzo G, Robbins KA, Rockhill AP, Rogers C, Rokem A, Rorden C, Routier A, Saborit-Torres JM, Salo T, Schirner M, Smith RE, Spisak T, Sprenger J, Swann NC, Szinte M, Takerkart S, Thirion B, Thomas AG, Torabian S, Varoquaux G, Voytek B, Welzel J, Wilson M, Yarkoni T, Gorgolewski KJ"
+year: "2024"
+journal: "Imaging Neurosci (Camb)"
+volume: 2
+issue:
+pages: 1-19
+is_published: true
+image: /assets/images/papers/imaging-neurosci-(camb).png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11415029
+preprint: PMC10516110
+supplement:
+
+# Links
+doi: "10.1162/imag_a_00103"
+pmid: 39308505
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+The Brain Imaging Data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neuroscience modalities. This paper is meant as a history of how the standard has developed and grown over time. We outline the principles behind the project, the mechanisms by which it has been extended, and some of the challenges being addressed as it evolves. We also discuss the lessons learned through the project, with the aim of enabling researchers in other domains to learn from the success of BIDS.

papers/_posts/2024-03-01-poldrack-the-past-present.md

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+---
+layout: paper
+title: "Adolescent Neurodevelopmental Variance Across Social Strata"
+nickname: 2024-05-01-bottenhorn-adolescent-neurodevelopmental-variance
+authors: "Bottenhorn KL, Cardenas-Iniguez C, Schachner JN, Rosario MA, Mills KL, Laird AR, Herting MM"
+year: "2024"
+journal: "JAMA Netw Open"
+volume: 7
+issue: 5
+pages: e2410441
+is_published: true
+image: /assets/images/papers/jama-netw-open.png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11079691
+preprint:
+supplement:
+
+# Links
+doi: "10.1001/jamanetworkopen.2024.10441"
+pmid: 38717776
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+

papers/_posts/2024-05-01-bottenhorn-adolescent-neurodevelopmental-variance.md

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+---
+layout: paper
+title: "NowIKnowMyABCD: A global resource hub for researchers using data from the ABCD Study"
+nickname: 2024-06-03-ali-nowiknowmyabcd-a-global
+authors: "Ali SA, McCann CF, Thieu MK, Whitmore LB, Laird AR"
+year: "2024"
+journal: "Dev Cogn Neurosci"
+volume: 67
+issue: 
+pages: 101388
+is_published: true
+image: /assets/images/papers/dev-cogn-neurosci.png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11247354
+preprint:
+supplement:
+
+# Links
+doi: "10.1016/j.dcn.2024.101388"
+pmid: 38870743
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+The Adolescent Brain and Cognitive Development (ABCD) Study, involving over 11,000 youth and their families, is a groundbreaking project examining various factors impacting brain and cognitive development. Despite yielding hundreds of publications and counting, the ABCD Study has lacked a centralized help platform to assist researchers in navigating and analyzing the extensive ABCD dataset. To support the ABCD research community, we created NowIKnowMyABCD, the first centralized documentation and communication resource publicly available to researchers using ABCD Study data. It consists of two core elements: a user-focused website and a moderated discussion board. The website serves as a repository for ABCD-related resources, tutorials, and a live feed of relevant updates and queries sourced from social media websites. The discussion board offers a platform for researchers to seek guidance, troubleshoot issues, and engage with peers. Our aim is for NowIKnowMyABCD to grow with participation from the ABCD research community, fostering transparency, collaboration, and adherence to open science principles.

papers/_posts/2024-06-03-ali-nowiknowmyabcd-a-global.md

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+---
+layout: paper
+title: "A network correspondence toolbox for quantitative evaluation of novel neuroimaging results"
+nickname: 2024-06-18-kong-a-network-correspondence
+authors: "Kong RQ, Spreng RN, Xue A, Betzel R, Cohen JR, Damoiseaux J, De Brigard F, Eickhoff SB, Fornito A, Gratton C, Gordon EM, Holmes AJ, Laird AR, Larson-Prior L, Nickerson LD, Pinho AL, Razi A, Sadaghiani S, Shine J, Yendiki A, Yeo BTT, Uddin LQ"
+year: "2024"
+journal: "bioRxiv"
+volume:
+issue:
+pages:
+is_published: false
+image: /assets/images/papers/biorxiv.png
+projects:
+tags: [preprint]
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11212927
+preprint:
+supplement:
+
+# Links
+doi: "10.1101/2024.06.17.599426"
+pmid: 38948881
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+Decades of neuroscience research has shown that macroscale brain dynamics can be reliably decomposed into a subset of large-scale functional networks, but the specific spatial topographies of these networks and the names used to describe them can vary across studies. Such discordance has hampered interpretation and convergence of research findings across the field. To address this problem, we have developed the Network Correspondence Toolbox (NCT) to permit researchers to examine and report spatial correspondence between their novel neuroimaging results and sixteen widely used functional brain atlases, consistent with recommended reporting standards developed by the Organization for Human Brain Mapping. The atlases included in the toolbox show some topographical convergence for specific networks, such as those labeled as default or visual. Network naming varies across atlases, particularly for networks spanning frontoparietal association cortices. For this reason, quantitative comparison with multiple atlases is recommended to benchmark novel neuroimaging findings. We provide several exemplar demonstrations using the Human Connectome Project task fMRI results and UK Biobank independent component analysis maps to illustrate how researchers can use the NCT to report their own findings through quantitative evaluation against multiple published atlases. The NCT provides a convenient means for computing Dice coefficients with spin test permutations to determine the magnitude and statistical significance of correspondence among user-defined maps and existing atlas labels. The NCT also includes functionality to incorporate additional atlases in the future. The adoption of the NCT will make it easier for network neuroscience researchers to report their findings in a standardized manner, thus aiding reproducibility and facilitating comparisons between studies to produce interdisciplinary insights.

papers/_posts/2024-06-18-kong-a-network-correspondence.md

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+---
+layout: paper
+title: "Do Acculturative Gap Conflicts Impact Parenting Practices and Youth E-Cigarette Use? Tests of Moderated Mediation"
+nickname: 2024-07-03-fallah-sohy-do-acculturative-gap
+authors: "Fallah-Sohy N, Sutherland MT, Trucco EM"
+year: "2024"
+journal: "Subst Use Misuse"
+volume: 59
+issue: 13
+pages: 1938-1949
+is_published: true
+image: /assets/images/papers/subst-use-misuse.png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11777391
+preprint:
+supplement:
+
+# Links
+doi: "10.1080/10826084.2024.2392505"
+pmid: 39172000
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+BACKGROUND: Latino/a youth are at increased risk of electronic (e)-cigarette or electronic nicotine delivery systems (ENDS) use; thus, identifying factors impacting initiation is critical. Parenting practices reflecting warmth (e.g., relationship quality) and control (e.g., parental monitoring) and substance use-specific parenting (e.g., reactions to use, parenting self-efficacy) may influence youth substance use. For Latino/a youth, tensions from intergenerational acculturative differences are linked to substance use. We investigated ENDS use-specific parenting as a mediator between general parenting and youth ENDS use, examining whether acculturative gap conflict moderated the association between general and ENDS use-specific parenting. We expected mediation among families experiencing low acculturative gap conflicts. METHOD:  Data were analyzed over two waves from a predominantly White and Latino/a sample of caregiver-child dyads (N = 143) who identified with a culture in addition to or distinct from American. Youth (M(age) = 14.9 years, SD = 0.67; 62.9% female) reported relationship quality, parental monitoring, caregiver ENDS attitudes and reactions, acculturative gap conflicts, and ENDS use. Caregivers reported on ENDS use-specific parenting self-efficacy. Two moderated multiple mediator regression models (i.e., relationship quality, parental monitoring) were estimated. RESULTS:  Among youth reporting low and mean levels of acculturative gap conflict, ENDS use-specific parenting self-efficacy mediated the association between relationship quality and reduced ENDS use. There was no evidence for an interaction in the parental monitoring model. CONCLUSIONS:  In families experiencing low levels of acculturative gap conflict, relationship quality may impact ENDS use through caregivers' confidence in their ability to prevent child ENDS use.

papers/_posts/2024-07-03-fallah-sohy-do-acculturative-gap.md

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+---
+layout: paper
+title: "Researching COVID to enhance recovery (RECOVER) pediatric study protocol: Rationale, objectives and design"
+nickname: 2024-07-03-gross-researching-covid-to
+authors: "Gross RS, Thaweethai T, Rosenzweig EB, Chan J, Chibnik LB, Cicek MS, Elliott AJ, Flaherman VJ, Foulkes AS, Gage Witvliet M, Gallagher R, Gennaro ML, Jernigan TL, Karlson EW, Katz SD, Kinser PA, Kleinman LC, Lamendola-Essel MF, Milner JD, Mohandas S, Mudumbi PC, Newburger JW, Rhee KE, Salisbury AL, Snowden JN, Stein CR, Stockwell MS, Tantisira KG, Thomason ME, Truong DT, Warburton D, Wood JC, Ahmed S, Akerlundh A, Alshawabkeh AN, Anderson BR, Aschner JL, Atz AM, Aupperle RL, Baker FC, Balaraman V, Banerjee D, Barch DM, Baskin-Sommers A, Bhuiyan S, Bind MC, Bogie AL, Bradford T, Buchbinder NC, Bueler E, Bukulmez H, Casey BJ, Chang L, Chrisant M, Clark DB, Clifton RG, Clouser KN, Cottrell L, Cowan K, D'Sa V, Dapretto M, Dasgupta S, Dehority W, Dionne A, Dummer KB, Elias MD, Esquenazi-Karonika S, Evans DN, Faustino EVS, Fiks AG, Forsha D, Foxe JJ, Friedman NP, Fry G, Gaur S, Gee DG, Gray KM, Handler S, Harahsheh AS, Hasbani K, Heath AC, Hebson C, Heitzeg MM, Hester CM, Hill S, Hobart-Porter L, Hong TKF, Horowitz CR, Hsia DS, Huentelman M, Hummel KD, Irby K, Jacobus J, Jacoby VL, Jone PN, Kaelber DC, Kasmarcak TJ, Kluko MJ, Kosut JS, Laird AR, Landeo-Gutierrez J, Lang SM, Larson CL, Lim PPC, Lisdahl KM, McCrindle BW, McCulloh RJ, McHugh K, Mendelsohn AL, Metz TD, Miller J, Mitchell EC, Morgan LM, Muller-Oehring EM, Nahin ER, Neale MC, Ness-Cochinwala M, Nolan SM, Oliveira CR, Osakwe O, Oster ME, Payne RM, Portman MA, Raissy H, Randall IG, Rao S, Reeder HT, Rosas JM, Russell MW, Sabati AA, Sanil Y, Sato AI, Schechter MS, Selvarangan R, Sexson Tejtel SK, Shakti D, Sharma K, Squeglia LM, Srivastava S, Stevenson MD, Szmuszkovicz J, Talavera-Barber MM, Teufel RJ 2nd, Thacker D, Trachtenberg F, Udosen MM, Warner MR, Watson SE, Werzberger A, Weyer JC, Wood MJ, Yin HS, Zempsky WT, Zimmerman E, Dreyer BP"
+year: "2024"
+journal: "PLoS One"
+volume: 19
+issue: 5
+pages: e0285635
+is_published: true
+image: /assets/images/papers/plos-one.png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11075869
+preprint: PMC10197716
+supplement:
+
+# Links
+doi: "10.1371/journal.pone.0285635"
+pmid: 38713673
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+IMPORTANCE: The prevalence, pathophysiology, and long-term outcomes of COVID-19 (post-acute sequelae of SARS-CoV-2 [PASC] or "Long COVID") in children and young adults remain unknown. Studies must address the urgent need to define PASC, its mechanisms, and potential treatment targets in children and young adults. OBSERVATIONS: We describe the protocol for the Pediatric Observational Cohort Study of the NIH's REsearching COVID to Enhance Recovery (RECOVER) Initiative. RECOVER-Pediatrics is an observational meta-cohort study of caregiver-child pairs (birth through 17 years) and young adults (18 through 25 years), recruited from more than 100 sites across the US. This report focuses on two of four cohorts that comprise RECOVER-Pediatrics: 1) a de novo RECOVER prospective cohort of children and young adults with and without previous or current infection; and 2) an extant cohort derived from the Adolescent Brain Cognitive Development (ABCD) study (n = 10,000). The de novo cohort incorporates three tiers of data collection: 1) remote baseline assessments (Tier 1, n = 6000); 2) longitudinal follow-up for up to 4 years (Tier 2, n = 6000); and 3) a subset of participants, primarily the most severely affected by PASC, who will undergo deep phenotyping to explore PASC pathophysiology (Tier 3, n = 600). Youth enrolled in the ABCD study participate in Tier 1. The pediatric protocol was developed as a collaborative partnership of investigators, patients, researchers, clinicians, community partners, and federal partners, intentionally promoting inclusivity and diversity. The protocol is adaptive to facilitate responses to emerging science. CONCLUSIONS AND RELEVANCE: RECOVER-Pediatrics seeks to characterize the clinical course, underlying mechanisms, and long-term effects of PASC from birth through 25 years old. RECOVER-Pediatrics is designed to elucidate the epidemiology, four-year clinical course, and sociodemographic correlates of pediatric PASC. The data and biosamples will allow examination of mechanistic hypotheses and biomarkers, thus providing insights into potential therapeutic interventions. CLINICAL TRIALS.GOV IDENTIFIER: Clinical Trial Registration: http://www.clinicaltrials.gov. Unique identifier: NCT05172011.

papers/_posts/2024-07-03-gross-researching-covid-to.md

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+---
+layout: paper
+title: "Unique versus shared neural correlates of externalizing psychopathology in late childhood"
+nickname: 2024-08-03-perlstein-unique-versus-shared
+authors: "Perlstein S, Hawes SW, Byrd AL, Barzilay R, Gur RE, Laird AR, Waller R"
+year: "2024"
+journal: "J Psychopathol Clin Sci"
+volume: 133
+issue: 6
+pages: 477-488
+is_published: true
+image: /assets/images/papers/j-psychopathol-clin-sci.png
+projects:
+tags: []
+
+# Text
+fulltext:
+pdf:
+pdflink:
+pmcid: PMC11293992
+preprint:
+supplement:
+
+# Links
+doi: "10.1037/abn0000923"
+pmid: 38869879
+
+# Data and code
+github:
+neurovault:
+openneuro:
+figshare:
+figshare_names:
+osf:
+---
+{% include JB/setup %}
+
+# Abstract
+
+Childhood externalizing psychopathology is heterogeneous. Symptom variability in conduct disorder (CD), oppositional defiant disorder (ODD), attention-deficit/hyperactivity disorder (ADHD), and callous-unemotional (CU) traits designate different subgroups of children with externalizing problems who have specific treatment needs. However, CD, ODD, ADHD, and CU traits are highly comorbid. Studies need to generate insights into shared versus unique risk mechanisms, including through the use of functional magnetic resonance imaging (fMRI). In this study, we tested whether symptoms of CD, ODD, ADHD, and CU traits were best represented within a bifactor framework, simultaneously modeling shared (i.e., general externalizing problems) and unique (i.e., symptom-specific) variance, or through a four-correlated factor or second-order factor model. Participants (N = 11,878, age, M = 9 years) were from the Adolescent Brain and Cognitive Development Study. We used questionnaire and functional magnetic resonance imaging data (emotional N-back task) from the baseline assessment. A bifactor model specifying a general externalizing and specific CD, ODD, ADHD, and CU traits factors demonstrated the best fit. The four-correlated and second-order factor models both fit the data well and were retained for analyses. Across models, reduced right amygdala activity to fearful faces was associated with more general externalizing problems and reduced dorsolateral prefrontal cortex activity to fearful faces was associated with higher CU traits. ADHD scores were related to greater right nucleus accumbens activation to fearful and happy faces. Results give insights into risk mechanisms underlying comorbidity and heterogeneity within externalizing psychopathology. (PsycInfo Database Record (c) 2024 APA, all rights reserved).