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Image processing and analysis methods for the Adolescent Brain Cognitive Development Study

Donald J Hagler Jr., Sean N Hatton, Carolina Makowski, M Daniela Cornejo, Damien A Fair, Anthony Steven Dick, Matthew T Sutherland, BJ Casey, Deanna M Barch, Michael P Harms, Richard Watts, James M Bjork, Hugh P Garavan, Laura Hilmer, Christopher J Pung, Chelsea S Sicat, Joshua Kuperman, Hauke Bartsch, Feng Xue, Mary M Heitzeg, Angela R Laird, Thanh T Trinh, Raul Gonzalez, Susan F Tapert, Michael C Riedel, Lindsay M Squeglia, Luke W Hyde, Monica D Rosenberg, Eric A Earl, Katia D Howlett, Fiona C Baker, Mary Soules, Jazmin Diaz, Octavio Ruiz de Leon, Wesley K Thompson, Michael C Neale, Megan Herting, Elizabeth R Sowell, Ruben P Alvarez, Samuel W Hawes, Mariana Sanchez, Jerzy Bodurka, Florence J Breslin, Amanda Sheffield Morris, Martin P Paulus, W Kyle Simmons, Jonathan R Polimeni, Andre van der Kouwe, Andrew S Nencka, Kevin M Gray, Carlo Pierpaoli, John A Matochik, Antonio Noronha, Will M Aklin, Kevin Conway, Meyer Glantz, Elizabeth Hoffman, Roger Little, Marsha Lopez, Vani Pariyadath, Susan RB Weiss, Dana L Wolff-Hughes, Rebecca DelCarmen-Wiggins, Sarah W Feldstein Ewing, Oscar Miranda-Dominguez, Bonnie J Nagel, Anders J Perrone, Darrick T Sturgeon, Aimee Goldstone, Adolf Pfefferbaum, Kilian M Pohl, Devin Prouty, Kristina Uban, Susan Y Bookheimer, Mirella Dapretto, Adriana Galvan, Kara Bagot, Jay Giedd, M Alejandra Infante, Joanna Jacobus, Kevin Patrick, Paul D Shilling, Rahul Desikan, Yi Li, Leo Sugrue, Marie T Banich, Naomi Friedman, John K Hewitt, Christian Hopfer, Joseph Sakai, Jody Tanabe, Linda B Cottler, Sara Jo Nixon, Linda Chang, Christine Cloak, Thomas Ernst, Gloria Reeves, David N Kennedy, Steve Heeringa, Scott Peltier, John Schulenberg, Chandra Sripada, Robert A Zucker, William G Iacono, Monica Luciana, Finnegan J Calabro, Duncan B Clark, David A Lewis, Beatriz Luna, Claudiu Schirda, Tufikameni Brima, John J Foxe, Edward G Freedman, Daniel W Mruzek, Michael J Mason, Rebekah Huber, Erin McGlade, Andrew Prescot, Perry F Renshaw, Deborah A Yurgelun-Todd, Nicholas A Allgaier, Julie A Dumas, Masha Ivanova, Alexandra Potter, Paul Florsheim, Christine Larson, Krista Lisdahl, Michael E Charness, Bernard Fuemmeler, John M Hettema, Joel Steinberg, Andrey P Anokhin, Paul Glaser, Andrew C Heath, Pamela A Madden, Arielle Baskin-Sommers, R Todd Constable, Steven J Grant, Gayathri J Dowling, Sandra A Brown, Terry L Jernigan, Anders M Dale
doi: https://doi.org/10.1101/457739
Donald J Hagler Jr.
aUniversity of California, San Diego
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Sean N Hatton
aUniversity of California, San Diego
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Carolina Makowski
bMcGill University, Montreal, Canada
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M Daniela Cornejo
cOregon Health & Science University
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Damien A Fair
cOregon Health & Science University
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Anthony Steven Dick
dFlorida International University
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Matthew T Sutherland
dFlorida International University
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BJ Casey
eYale University
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Deanna M Barch
fWashington University, St. Louis
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Michael P Harms
fWashington University, St. Louis
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Richard Watts
eYale University
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James M Bjork
gVirginia Commonwealth University
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Hugh P Garavan
hUniversity of Vermont
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Laura Hilmer
aUniversity of California, San Diego
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Christopher J Pung
aUniversity of California, San Diego
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Chelsea S Sicat
aUniversity of California, San Diego
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Joshua Kuperman
aUniversity of California, San Diego
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Hauke Bartsch
aUniversity of California, San Diego
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Feng Xue
aUniversity of California, San Diego
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Mary M Heitzeg
iUniversity of Michigan
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Angela R Laird
dFlorida International University
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Thanh T Trinh
aUniversity of California, San Diego
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Raul Gonzalez
dFlorida International University
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Susan F Tapert
aUniversity of California, San Diego
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Michael C Riedel
dFlorida International University
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Lindsay M Squeglia
jMedical University of South Carolina
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Luke W Hyde
iUniversity of Michigan
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Monica D Rosenberg
eYale University
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Eric A Earl
cOregon Health & Science University
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Katia D Howlett
kNational Institute on Drug Abuse
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Fiona C Baker
lSRI International
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Mary Soules
iUniversity of Michigan
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Jazmin Diaz
aUniversity of California, San Diego
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Octavio Ruiz de Leon
aUniversity of California, San Diego
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Wesley K Thompson
aUniversity of California, San Diego
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Michael C Neale
gVirginia Commonwealth University
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Megan Herting
mUniversity of Southern California & Children’s Hospital Los Angeles
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Elizabeth R Sowell
nChildren’s Hospital of Los Angeles
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Ruben P Alvarez
oEunice Kennedy Shriver National Institute of Child Health and Human Development
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Samuel W Hawes
dFlorida International University
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Mariana Sanchez
dFlorida International University
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Jerzy Bodurka
pLaureate Institute for Brain Research, Tulsa
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Florence J Breslin
pLaureate Institute for Brain Research, Tulsa
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Amanda Sheffield Morris
pLaureate Institute for Brain Research, Tulsa
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Martin P Paulus
pLaureate Institute for Brain Research, Tulsa
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W Kyle Simmons
pLaureate Institute for Brain Research, Tulsa
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Jonathan R Polimeni
qMassachusetts General Hospital, Harvard Medical School
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Andre van der Kouwe
qMassachusetts General Hospital, Harvard Medical School
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rMedical College of Wisconsin
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Kevin M Gray
jMedical University of South Carolina
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Carlo Pierpaoli
sNational Institute of Biomedical Imaging and Bioengineering
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John A Matochik
tNational Institute on Alcohol Abuse and Alcoholism
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tNational Institute on Alcohol Abuse and Alcoholism
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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Dana L Wolff-Hughes
uOffice of Behavioral and Social Sciences Research
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vOffice of Research on Women’s Health
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cOregon Health & Science University
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cOregon Health & Science University
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cOregon Health & Science University
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cOregon Health & Science University
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cOregon Health & Science University
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lSRI International
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lSRI International
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lSRI International
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lSRI International
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wUniversity of California, Irvine
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xUniversity of California, Los Angeles
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xUniversity of California, Los Angeles
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xUniversity of California, Los Angeles
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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yUniversity of California, San Francisco
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yUniversity of California, San Francisco
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yUniversity of California, San Francisco
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zUniversity of Colorado
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zUniversity of Colorado
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zUniversity of Colorado
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zUniversity of Colorado
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zUniversity of Colorado
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zUniversity of Colorado
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aaUniversity of Florida
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aaUniversity of Florida
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abUniversity of Maryland School of Medicine
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abUniversity of Maryland School of Medicine
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abUniversity of Maryland School of Medicine
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abUniversity of Maryland School of Medicine
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acUniversity of Massachusetts
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iUniversity of Michigan
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iUniversity of Michigan
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iUniversity of Michigan
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iUniversity of Michigan
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iUniversity of Michigan
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adUniversity of Minnesota
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adUniversity of Minnesota
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aeUniversity of Pittsburgh
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aeUniversity of Pittsburgh
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aeUniversity of Pittsburgh
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afUniversity of Rochester
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afUniversity of Rochester
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afUniversity of Rochester
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afUniversity of Rochester
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agUniversity of Tennessee
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ahUniversity of Utah
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ahUniversity of Utah
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ahUniversity of Utah
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ahUniversity of Utah
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ahUniversity of Utah
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hUniversity of Vermont
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hUniversity of Vermont
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hUniversity of Vermont
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hUniversity of Vermont
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aiUniversity of Wisconsin-Milwaukee
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aiUniversity of Wisconsin-Milwaukee
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aiUniversity of Wisconsin-Milwaukee
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ajVA Boston Healthcare System; Harvard Medical School; Boston University School of Medicine
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gVirginia Commonwealth University
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gVirginia Commonwealth University
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gVirginia Commonwealth University
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fWashington University, St. Louis
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fWashington University, St. Louis
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fWashington University, St. Louis
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fWashington University, St. Louis
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eYale University
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eYale University
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kNational Institute on Drug Abuse
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kNational Institute on Drug Abuse
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aUniversity of California, San Diego
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aUniversity of California, San Diego
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Anders M Dale
aUniversity of California, San Diego
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  • Abstract
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Abstract

The Adolescent Brain Cognitive Development (ABCD) Study is an ongoing, nationwide study of the effects of environmental influences on behavioral and brain development in adolescents. The ABCD Study is a collaborative effort, including a Coordinating Center, 21 data acquisition sites across the United States, and a Data Analysis and Informatics Center (DAIC). The main objective of the study is to recruit and assess over eleven thousand 9-10-year-olds and follow them over the course of 10 years to characterize normative brain and cognitive development, the many factors that influence brain development, and the effects of those factors on mental health and other outcomes. The study employs state-of-the-art multimodal brain imaging, cognitive and clinical assessments, bioassays, and careful assessment of substance use, environment, psychopathological symptoms, and social functioning. The data will provide a resource of unprecedented scale and depth for studying typical and atypical development. Here, we describe the baseline neuroimaging processing and subject-level analysis methods used by the ABCD DAIC in the centralized processing and extraction of neuroanatomical and functional imaging phenotypes. Neuroimaging processing and analyses include modality-specific corrections for distortions and motion, brain segmentation and cortical surface reconstruction derived from structural magnetic resonance imaging (sMRI), analysis of brain microstructure using diffusion MRI (dMRI), task-related analysis of functional MRI (fMRI), and functional connectivity analysis of resting-state fMRI.

Highlights

  • An overview of the MRI processing pipeline for the ABCD Study

  • A discussion on the challenges of large, multisite population studies

  • A methodological reference for users of publicly shared data from the ABCD Study

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted November 04, 2018.
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Image processing and analysis methods for the Adolescent Brain Cognitive Development Study
Donald J Hagler Jr., Sean N Hatton, Carolina Makowski, M Daniela Cornejo, Damien A Fair, Anthony Steven Dick, Matthew T Sutherland, BJ Casey, Deanna M Barch, Michael P Harms, Richard Watts, James M Bjork, Hugh P Garavan, Laura Hilmer, Christopher J Pung, Chelsea S Sicat, Joshua Kuperman, Hauke Bartsch, Feng Xue, Mary M Heitzeg, Angela R Laird, Thanh T Trinh, Raul Gonzalez, Susan F Tapert, Michael C Riedel, Lindsay M Squeglia, Luke W Hyde, Monica D Rosenberg, Eric A Earl, Katia D Howlett, Fiona C Baker, Mary Soules, Jazmin Diaz, Octavio Ruiz de Leon, Wesley K Thompson, Michael C Neale, Megan Herting, Elizabeth R Sowell, Ruben P Alvarez, Samuel W Hawes, Mariana Sanchez, Jerzy Bodurka, Florence J Breslin, Amanda Sheffield Morris, Martin P Paulus, W Kyle Simmons, Jonathan R Polimeni, Andre van der Kouwe, Andrew S Nencka, Kevin M Gray, Carlo Pierpaoli, John A Matochik, Antonio Noronha, Will M Aklin, Kevin Conway, Meyer Glantz, Elizabeth Hoffman, Roger Little, Marsha Lopez, Vani Pariyadath, Susan RB Weiss, Dana L Wolff-Hughes, Rebecca DelCarmen-Wiggins, Sarah W Feldstein Ewing, Oscar Miranda-Dominguez, Bonnie J Nagel, Anders J Perrone, Darrick T Sturgeon, Aimee Goldstone, Adolf Pfefferbaum, Kilian M Pohl, Devin Prouty, Kristina Uban, Susan Y Bookheimer, Mirella Dapretto, Adriana Galvan, Kara Bagot, Jay Giedd, M Alejandra Infante, Joanna Jacobus, Kevin Patrick, Paul D Shilling, Rahul Desikan, Yi Li, Leo Sugrue, Marie T Banich, Naomi Friedman, John K Hewitt, Christian Hopfer, Joseph Sakai, Jody Tanabe, Linda B Cottler, Sara Jo Nixon, Linda Chang, Christine Cloak, Thomas Ernst, Gloria Reeves, David N Kennedy, Steve Heeringa, Scott Peltier, John Schulenberg, Chandra Sripada, Robert A Zucker, William G Iacono, Monica Luciana, Finnegan J Calabro, Duncan B Clark, David A Lewis, Beatriz Luna, Claudiu Schirda, Tufikameni Brima, John J Foxe, Edward G Freedman, Daniel W Mruzek, Michael J Mason, Rebekah Huber, Erin McGlade, Andrew Prescot, Perry F Renshaw, Deborah A Yurgelun-Todd, Nicholas A Allgaier, Julie A Dumas, Masha Ivanova, Alexandra Potter, Paul Florsheim, Christine Larson, Krista Lisdahl, Michael E Charness, Bernard Fuemmeler, John M Hettema, Joel Steinberg, Andrey P Anokhin, Paul Glaser, Andrew C Heath, Pamela A Madden, Arielle Baskin-Sommers, R Todd Constable, Steven J Grant, Gayathri J Dowling, Sandra A Brown, Terry L Jernigan, Anders M Dale
bioRxiv 457739; doi: https://doi.org/10.1101/457739
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Image processing and analysis methods for the Adolescent Brain Cognitive Development Study
Donald J Hagler Jr., Sean N Hatton, Carolina Makowski, M Daniela Cornejo, Damien A Fair, Anthony Steven Dick, Matthew T Sutherland, BJ Casey, Deanna M Barch, Michael P Harms, Richard Watts, James M Bjork, Hugh P Garavan, Laura Hilmer, Christopher J Pung, Chelsea S Sicat, Joshua Kuperman, Hauke Bartsch, Feng Xue, Mary M Heitzeg, Angela R Laird, Thanh T Trinh, Raul Gonzalez, Susan F Tapert, Michael C Riedel, Lindsay M Squeglia, Luke W Hyde, Monica D Rosenberg, Eric A Earl, Katia D Howlett, Fiona C Baker, Mary Soules, Jazmin Diaz, Octavio Ruiz de Leon, Wesley K Thompson, Michael C Neale, Megan Herting, Elizabeth R Sowell, Ruben P Alvarez, Samuel W Hawes, Mariana Sanchez, Jerzy Bodurka, Florence J Breslin, Amanda Sheffield Morris, Martin P Paulus, W Kyle Simmons, Jonathan R Polimeni, Andre van der Kouwe, Andrew S Nencka, Kevin M Gray, Carlo Pierpaoli, John A Matochik, Antonio Noronha, Will M Aklin, Kevin Conway, Meyer Glantz, Elizabeth Hoffman, Roger Little, Marsha Lopez, Vani Pariyadath, Susan RB Weiss, Dana L Wolff-Hughes, Rebecca DelCarmen-Wiggins, Sarah W Feldstein Ewing, Oscar Miranda-Dominguez, Bonnie J Nagel, Anders J Perrone, Darrick T Sturgeon, Aimee Goldstone, Adolf Pfefferbaum, Kilian M Pohl, Devin Prouty, Kristina Uban, Susan Y Bookheimer, Mirella Dapretto, Adriana Galvan, Kara Bagot, Jay Giedd, M Alejandra Infante, Joanna Jacobus, Kevin Patrick, Paul D Shilling, Rahul Desikan, Yi Li, Leo Sugrue, Marie T Banich, Naomi Friedman, John K Hewitt, Christian Hopfer, Joseph Sakai, Jody Tanabe, Linda B Cottler, Sara Jo Nixon, Linda Chang, Christine Cloak, Thomas Ernst, Gloria Reeves, David N Kennedy, Steve Heeringa, Scott Peltier, John Schulenberg, Chandra Sripada, Robert A Zucker, William G Iacono, Monica Luciana, Finnegan J Calabro, Duncan B Clark, David A Lewis, Beatriz Luna, Claudiu Schirda, Tufikameni Brima, John J Foxe, Edward G Freedman, Daniel W Mruzek, Michael J Mason, Rebekah Huber, Erin McGlade, Andrew Prescot, Perry F Renshaw, Deborah A Yurgelun-Todd, Nicholas A Allgaier, Julie A Dumas, Masha Ivanova, Alexandra Potter, Paul Florsheim, Christine Larson, Krista Lisdahl, Michael E Charness, Bernard Fuemmeler, John M Hettema, Joel Steinberg, Andrey P Anokhin, Paul Glaser, Andrew C Heath, Pamela A Madden, Arielle Baskin-Sommers, R Todd Constable, Steven J Grant, Gayathri J Dowling, Sandra A Brown, Terry L Jernigan, Anders M Dale
bioRxiv 457739; doi: https://doi.org/10.1101/457739

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