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MIMoSA: An Automated Method for Intermodal Segmentation Analysis of Multiple Sclerosis Brain Lesions.

Valcarcel AM, Linn KA, Vandekar SN, Satterthwaite TD, Muschelli J, Calabresi PA, Pham DL, Martin ML, Shinohara RT.

J Neuroimaging. 2018 Mar 8. doi: 10.1111/jon.12506. [Epub ahead of print]


An Automated Statistical Technique for Counting Distinct Multiple Sclerosis Lesions.

Dworkin JD, Linn KA, Oguz I, Fleishman GM, Bakshi R, Nair G, Calabresi PA, Henry RG, Oh J, Papinutto N, Pelletier D, Rooney W, Stern W, Sicotte NL, Reich DS, Shinohara RT; North American Imaging in Multiple Sclerosis Cooperative.

AJNR Am J Neuroradiol. 2018 Feb 22. doi: 10.3174/ajnr.A5556. [Epub ahead of print]


Diminished Cortical Thickness is Associated with Impulsive Choice in Adolescence.

Pehlivanova M, Wolf DH, Sotiras A, Kaczkurkin A, Moore TM, Ciric R, Cook PA, de La Garza AG, Rosen A, Ruparel K, Sharma A, Shinohara RT, Roalf DR, Gur RC, Davatzikos C, Gur RE, Kable JW, Satterthwaite TD.

J Neurosci. 2018 Feb 12. pii: 2200-17. doi: 10.1523/JNEUROSCI.2200-17.2018. [Epub ahead of print]


Vitamin D levels do not predict the stage of hepatic fibrosis in patients with non-alcoholic fatty liver disease: A PRISMA compliant systematic review and meta-analysis of pooled data.

Saberi B, Dadabhai AS, Nanavati J, Wang L, Shinohara RT, Mullin GE.

World J Hepatol. 2018 Jan 27;10(1):142-154. doi: 10.4254/wjh.v10.i1.142.


Cancer imaging phenomics toolkit: quantitative imaging analytics for precision diagnostics and predictive modeling of clinical outcome.

Davatzikos C, Rathore S, Bakas S, Pati S, Bergman M, Kalarot R, Sridharan P, Gastounioti A, Jahani N, Cohen E, Akbari H, Tunc B, Doshi J, Parker D, Hsieh M, Sotiras A, Li H, Ou Y, Doot RK, Bilello M, Fan Y, Shinohara RT, Yushkevich P, Verma R, Kontos D.

J Med Imaging (Bellingham). 2018 Jan;5(1):011018. doi: 10.1117/1.JMI.5.1.011018. Epub 2018 Jan 11.


Quantitative assessment of structural image quality.

Rosen AFG, Roalf DR, Ruparel K, Blake J, Seelaus K, Villa LP, Ciric R, Cook PA, Davatzikos C, Elliott MA, Garcia de La Garza A, Gennatas ED, Quarmley M, Schmitt JE, Shinohara RT, Tisdall MD, Craddock RC, Gur RE, Gur RC, Satterthwaite TD.

Neuroimage. 2018 Apr 1;169:407-418. doi: 10.1016/j.neuroimage.2017.12.059. Epub 2017 Dec 24.


Yield of Brain MRI in Clinically Diagnosed Epilepsy in the Kingdom of Bhutan: A Prospective Study.

Bruno V, Klein JP, Nidup D, Nirola DK, Tshering L, Deki S, Clark SJ, Linn KA, Shinohara RT, Dorji C, Pokhrel DR, Dema U, Mateen FJ; Bhutan Epilepsy Project.

Ann Glob Health. 2017 May - Aug;83(3-4):415-422. doi: 10.1016/j.aogh.2017.02.001. Epub 2017 Apr 7.


Mapping the structural and functional network architecture of the medial temporal lobe using 7T MRI.

Shah P, Bassett DS, Wisse LEM, Detre JA, Stein JM, Yushkevich PA, Shinohara RT, Pluta JB, Valenciano E, Daffner M, Wolk DA, Elliott MA, Litt B, Davis KA, Das SR.

Hum Brain Mapp. 2018 Feb;39(2):851-865. doi: 10.1002/hbm.23887. Epub 2017 Nov 20.


Harmonization of cortical thickness measurements across scanners and sites.

Fortin JP, Cullen N, Sheline YI, Taylor WD, Aselcioglu I, Cook PA, Adams P, Cooper C, Fava M, McGrath PJ, McInnis M, Phillips ML, Trivedi MH, Weissman MM, Shinohara RT.

Neuroimage. 2018 Feb 15;167:104-120. doi: 10.1016/j.neuroimage.2017.11.024. Epub 2017 Nov 17.


The NAIMS cooperative pilot project: Design, implementation and future directions.

Oh J, Bakshi R, Calabresi PA, Crainiceanu C, Henry RG, Nair G, Papinutto N, Constable RT, Reich DS, Pelletier D, Rooney W, Schwartz D, Tagge I, Shinohara RT, Simon JH, Sicotte NL; NAIMS Cooperative Steering Committee.

Mult Scler. 2017 Oct 1:1352458517739990. doi: 10.1177/1352458517739990. [Epub ahead of print]


Sex differences in estimated brain metabolism in relation to body growth through adolescence.

Vandekar SN, Shou H, Satterthwaite TD, Shinohara RT, Merikangas AK, Roalf DR, Ruparel K, Rosen A, Gennatas ED, Elliott MA, Davatzikos C, Gur RC, Gur RE, Detre JA.

J Cereb Blood Flow Metab. 2017 Jan 1:271678X17737692. doi: 10.1177/0271678X17737692. [Epub ahead of print]


Faster family-wise error control for neuroimaging with a parametric bootstrap.

Vandekar SN, Satterthwaite TD, Rosen A, Ciric R, Roalf DR, Ruparel K, Gur RC, Gur RE, Shinohara RT.

Biostatistics. 2017 Oct 20. doi: 10.1093/biostatistics/kxx051. [Epub ahead of print]


Radiomic subtyping improves disease stratification beyond key molecular, clinical and standard imaging characteristics in patients with glioblastoma.

Kickingereder P, Neuberger U, Bonekamp D, Piechotta PL, Götz M, Wick A, Sill M, Kratz A, Shinohara RT, Jones DTW, Radbruch A, Muschelli J, Unterberg A, Debus J, Schlemmer HP, Herold-Mende C, Pfister S, Deimling AV, Wick W, Capper D, Maier-Hein KH, Bendszus M.

Neuro Oncol. 2017 Sep 28. doi: 10.1093/neuonc/nox188. [Epub ahead of print]


Fully Bayesian spectral methods for imaging data.

Reich BJ, Guinness J, Vandekar SN, Shinohara RT, Staicu AM.

Biometrics. 2017 Sep 28. doi: 10.1111/biom.12782. [Epub ahead of print]


Increasing propensity to pursue operative closure of atrial septal defects following changes in the instructions for use of the Amplatzer Septal Occluder device: An observational study using data from the Pediatric Health Information Systems database.

O'Byrne ML, Shinohara RT, Grant EK, Kanter JP, Gillespie MJ, Dori Y, Rome JJ, Glatz AC.

Am Heart J. 2017 Oct;192:85-97. doi: 10.1016/j.ahj.2017.07.012. Epub 2017 Jul 19.


Common and dissociable regional cerebral blood flow differences associate with dimensions of psychopathology across categorical diagnoses.

Kaczkurkin AN, Moore TM, Calkins ME, Ciric R, Detre JA, Elliott MA, Foa EB, Garcia de la Garza A, Roalf DR, Rosen A, Ruparel K, Shinohara RT, Xia CH, Wolf DH, Gur RE, Gur RC, Satterthwaite TD.

Mol Psychiatry. 2017 Sep 19. doi: 10.1038/mp.2017.174. [Epub ahead of print]


White matter microstructural deficits in 22q11.2 deletion syndrome.

Roalf DR, Eric Schmitt J, Vandekar SN, Satterthwaite TD, Shinohara RT, Ruparel K, Elliott MA, Prabhakaran K, McDonald-McGinn DM, Zackai EH, Gur RC, Emanuel BS, Gur RE.

Psychiatry Res. 2017 Oct 30;268:35-44. doi: 10.1016/j.pscychresns.2017.08.001. Epub 2017 Aug 24.


Harmonization of multi-site diffusion tensor imaging data.

Fortin JP, Parker D, Tunç B, Watanabe T, Elliott MA, Ruparel K, Roalf DR, Satterthwaite TD, Gur RC, Gur RE, Schultz RT, Verma R, Shinohara RT.

Neuroimage. 2017 Nov 1;161:149-170. doi: 10.1016/j.neuroimage.2017.08.047. Epub 2017 Aug 18.


Alternating event processes during lifetimes: population dynamics and statistical inference.

Shinohara RT, Sun Y, Wang MC.

Lifetime Data Anal. 2018 Jan;24(1):110-125. doi: 10.1007/s10985-017-9404-5. Epub 2017 Aug 7.


Volumetric Analysis from a Harmonized Multisite Brain MRI Study of a Single Subject with Multiple Sclerosis.

Shinohara RT, Oh J, Nair G, Calabresi PA, Davatzikos C, Doshi J, Henry RG, Kim G, Linn KA, Papinutto N, Pelletier D, Pham DL, Reich DS, Rooney W, Roy S, Stern W, Tummala S, Yousuf F, Zhu A, Sicotte NL, Bakshi R; NAIMS Cooperative.

AJNR Am J Neuroradiol. 2017 Aug;38(8):1501-1509. doi: 10.3174/ajnr.A5254. Epub 2017 Jun 22.


Tracheobronchomalacia Is Associated with Increased Morbidity in Bronchopulmonary Dysplasia.

Hysinger EB, Friedman NL, Padula MA, Shinohara RT, Zhang H, Panitch HB, Kawut SM; Children's Hospitals Neonatal Consortium.

Ann Am Thorac Soc. 2017 Jun 16. doi: 10.1513/AnnalsATS.201702-178OC. [Epub ahead of print]


Gradient nonlinearity effects on upper cervical spinal cord area measurement from 3D T1 -weighted brain MRI acquisitions.

Papinutto N, Bakshi R, Bischof A, Calabresi PA, Caverzasi E, Constable RT, Datta E, Kirkish G, Nair G, Oh J, Pelletier D, Pham DL, Reich DS, Rooney W, Roy S, Schwartz D, Shinohara RT, Sicotte NL, Stern WA, Tagge I, Tauhid S, Tummala S, Henry RG; North American Imaging in Multiple Sclerosis Cooperative(NAIMS).

Magn Reson Med. 2018 Mar;79(3):1595-1601. doi: 10.1002/mrm.26776. Epub 2017 Jun 15.


Modular Segregation of Structural Brain Networks Supports the Development of Executive Function in Youth.

Baum GL, Ciric R, Roalf DR, Betzel RF, Moore TM, Shinohara RT, Kahn AE, Vandekar SN, Rupert PE, Quarmley M, Cook PA, Elliott MA, Ruparel K, Gur RE, Gur RC, Bassett DS, Satterthwaite TD.

Curr Biol. 2017 Jun 5;27(11):1561-1572.e8. doi: 10.1016/j.cub.2017.04.051. Epub 2017 May 25.


Benchmarking of participant-level confound regression strategies for the control of motion artifact in studies of functional connectivity.

Ciric R, Wolf DH, Power JD, Roalf DR, Baum GL, Ruparel K, Shinohara RT, Elliott MA, Eickhoff SB, Davatzikos C, Gur RC, Gur RE, Bassett DS, Satterthwaite TD.

Neuroimage. 2017 Jul 1;154:174-187. doi: 10.1016/j.neuroimage.2017.03.020. Epub 2017 Mar 14.


Cognitive behavioral therapy increases amygdala connectivity with the cognitive control network in both MDD and PTSD.

Shou H, Yang Z, Satterthwaite TD, Cook PA, Bruce SE, Shinohara RT, Rosenberg B, Sheline YI.

Neuroimage Clin. 2017 Jan 27;14:464-470. doi: 10.1016/j.nicl.2017.01.030. eCollection 2017.


Influence of vitamin D on liver fibrosis in chronic hepatitis C: A systematic review and meta-analysis of the pooled clinical trials data.

Dadabhai AS, Saberi B, Lobner K, Shinohara RT, Mullin GE.

World J Hepatol. 2017 Feb 18;9(5):278-287. doi: 10.4254/wjh.v9.i5.278.


Common Dimensional Reward Deficits Across Mood and Psychotic Disorders: A Connectome-Wide Association Study.

Sharma A, Wolf DH, Ciric R, Kable JW, Moore TM, Vandekar SN, Katchmar N, Daldal A, Ruparel K, Davatzikos C, Elliott MA, Calkins ME, Shinohara RT, Bassett DS, Satterthwaite TD.

Am J Psychiatry. 2017 Jul 1;174(7):657-666. doi: 10.1176/appi.ajp.2016.16070774. Epub 2017 Jan 31.


The central vein sign and its clinical evaluation for the diagnosis of multiple sclerosis: a consensus statement from the North American Imaging in Multiple Sclerosis Cooperative.

Sati P, Oh J, Constable RT, Evangelou N, Guttmann CR, Henry RG, Klawiter EC, Mainero C, Massacesi L, McFarland H, Nelson F, Ontaneda D, Rauscher A, Rooney WD, Samaraweera AP, Shinohara RT, Sobel RA, Solomon AJ, Treaba CA, Wuerfel J, Zivadinov R, Sicotte NL, Pelletier D, Reich DS; NAIMS Cooperative.

Nat Rev Neurol. 2016 Dec;12(12):714-722. doi: 10.1038/nrneurol.2016.166. Epub 2016 Nov 11. Review.


Large-scale Radiomic Profiling of Recurrent Glioblastoma Identifies an Imaging Predictor for Stratifying Anti-Angiogenic Treatment Response.

Kickingereder P, Götz M, Muschelli J, Wick A, Neuberger U, Shinohara RT, Sill M, Nowosielski M, Schlemmer HP, Radbruch A, Wick W, Bendszus M, Maier-Hein KH, Bonekamp D.

Clin Cancer Res. 2016 Dec 1;22(23):5765-5771. Epub 2016 Oct 10.


Elevated Amygdala Perfusion Mediates Developmental Sex Differences in Trait Anxiety.

Kaczkurkin AN, Moore TM, Ruparel K, Ciric R, Calkins ME, Shinohara RT, Elliott MA, Hopson R, Roalf DR, Vandekar SN, Gennatas ED, Wolf DH, Scott JC, Pine DS, Leibenluft E, Detre JA, Foa EB, Gur RE, Gur RC, Satterthwaite TD.

Biol Psychiatry. 2016 Nov 15;80(10):775-785. doi: 10.1016/j.biopsych.2016.04.021. Epub 2016 May 9.


Statistical estimation of white matter microstructure from conventional MRI.

Suttner LH, Mejia A, Dewey B, Sati P, Reich DS, Shinohara RT.

Neuroimage Clin. 2016 Sep 14;12:615-623. eCollection 2016.


Structural Correlation-based Outlier Rejection (SCORE) algorithm for arterial spin labeling time series.

Dolui S, Wang Z, Shinohara RT, Wolk DA, Detre JA; Alzheimer's Disease Neuroimaging Initiative.

J Magn Reson Imaging. 2017 Jun;45(6):1786-1797. doi: 10.1002/jmri.25436. Epub 2016 Aug 29.


PREVAIL: Predicting Recovery through Estimation and Visualization of Active and Incident Lesions.

Dworkin JD, Sweeney EM, Schindler MK, Chahin S, Reich DS, Shinohara RT.

Neuroimage Clin. 2016 Aug 2;12:293-9. doi: 10.1016/j.nicl.2016.07.015. eCollection 2016.


Abnormality Detection via Iterative Deformable Registration and Basis-Pursuit Decomposition.

Zeng K, Erus G, Sotiras A, Shinohara RT, Davatzikos C.

IEEE Trans Med Imaging. 2016 Aug;35(8):1937-51. doi: 10.1109/TMI.2016.2538998. Epub 2016 Mar 7.


Power estimation for non-standardized multisite studies.

Keshavan A, Paul F, Beyer MK, Zhu AH, Papinutto N, Shinohara RT, Stern W, Amann M, Bakshi R, Bischof A, Carriero A, Comabella M, Crane JC, D'Alfonso S, Demaerel P, Dubois B, Filippi M, Fleischer V, Fontaine B, Gaetano L, Goris A, Graetz C, Gröger A, Groppa S, Hafler DA, Harbo HF, Hemmer B, Jordan K, Kappos L, Kirkish G, Llufriu S, Magon S, Martinelli-Boneschi F, McCauley JL, Montalban X, Mühlau M, Pelletier D, Pattany PM, Pericak-Vance M, Cournu-Rebeix I, Rocca MA, Rovira A, Schlaeger R, Saiz A, Sprenger T, Stecco A, Uitdehaag BMJ, Villoslada P, Wattjes MP, Weiner H, Wuerfel J, Zimmer C, Zipp F; International Multiple Sclerosis Genetics Consortium. Electronic address: AIVINSON@PARTNERS.ORG, Hauser SL, Oksenberg JR, Henry RG.

Neuroimage. 2016 Jul 1;134:281-294. doi: 10.1016/j.neuroimage.2016.03.051. Epub 2016 Apr 1.


Structural Brain Abnormalities in Youth With Psychosis Spectrum Symptoms.

Satterthwaite TD, Wolf DH, Calkins ME, Vandekar SN, Erus G, Ruparel K, Roalf DR, Linn KA, Elliott MA, Moore TM, Hakonarson H, Shinohara RT, Davatzikos C, Gur RC, Gur RE.

JAMA Psychiatry. 2016 May 1;73(5):515-24. doi: 10.1001/jamapsychiatry.2015.3463.


Subject-level measurement of local cortical coupling.

Vandekar SN, Shinohara RT, Raznahan A, Hopson RD, Roalf DR, Ruparel K, Gur RC, Gur RE, Satterthwaite TD.

Neuroimage. 2016 Jun;133:88-97. doi: 10.1016/j.neuroimage.2016.03.002. Epub 2016 Mar 5.


Removing inter-subject technical variability in magnetic resonance imaging studies.

Fortin JP, Sweeney EM, Muschelli J, Crainiceanu CM, Shinohara RT; Alzheimer's Disease Neuroimaging Initiative.

Neuroimage. 2016 May 15;132:198-212. doi: 10.1016/j.neuroimage.2016.02.036. Epub 2016 Feb 23.


Control-group feature normalization for multivariate pattern analysis of structural MRI data using the support vector machine.

Linn KA, Gaonkar B, Satterthwaite TD, Doshi J, Davatzikos C, Shinohara RT.

Neuroimage. 2016 May 15;132:157-166. doi: 10.1016/j.neuroimage.2016.02.044. Epub 2016 Feb 23.


Common and Dissociable Mechanisms of Executive System Dysfunction Across Psychiatric Disorders in Youth.

Shanmugan S, Wolf DH, Calkins ME, Moore TM, Ruparel K, Hopson RD, Vandekar SN, Roalf DR, Elliott MA, Jackson C, Gennatas ED, Leibenluft E, Pine DS, Shinohara RT, Hakonarson H, Gur RC, Gur RE, Satterthwaite TD.

Am J Psychiatry. 2016 May 1;173(5):517-26. doi: 10.1176/appi.ajp.2015.15060725. Epub 2016 Jan 22.


Statistical estimation of T1 relaxation times using conventional magnetic resonance imaging.

Mejia AF, Sweeney EM, Dewey B, Nair G, Sati P, Shea C, Reich DS, Shinohara RT.

Neuroimage. 2016 Jun;133:176-188. doi: 10.1016/j.neuroimage.2015.12.037. Epub 2015 Dec 28.


Relating multi-sequence longitudinal intensity profiles and clinical covariates in incident multiple sclerosis lesions.

Sweeney EM, Shinohara RT, Dewey BE, Schindler MK, Muschelli J, Reich DS, Crainiceanu CM, Eloyan A.

Neuroimage Clin. 2015 Nov 11;10:1-17. doi: 10.1016/j.nicl.2015.10.013. eCollection 2016.


Addressing Confounding in Predictive Models with an Application to Neuroimaging.

Linn KA, Gaonkar B, Doshi J, Davatzikos C, Shinohara RT.

Int J Biostat. 2016 May 1;12(1):31-44. doi: 10.1515/ijb-2015-0030.


Cost comparison of Transcatheter and Operative Pulmonary Valve Replacement (from the Pediatric Health Information Systems Database).

O'Byrne ML, Gillespie MJ, Shinohara RT, Dori Y, Rome JJ, Glatz AC.

Am J Cardiol. 2016 Jan 1;117(1):121-6. doi: 10.1016/j.amjcard.2015.10.011. Epub 2015 Oct 17.


Glutamate imaging (GluCEST) lateralizes epileptic foci in nonlesional temporal lobe epilepsy.

Davis KA, Nanga RP, Das S, Chen SH, Hadar PN, Pollard JR, Lucas TH, Shinohara RT, Litt B, Hariharan H, Elliott MA, Detre JA, Reddy R.

Sci Transl Med. 2015 Oct 14;7(309):309ra161. doi: 10.1126/scitranslmed.aaa7095.


Traumatic brain injury in Africa in 2050: a modeling study.

Wong JC, Linn KA, Shinohara RT, Mateen FJ.

Eur J Neurol. 2016 Feb;23(2):382-6. doi: 10.1111/ene.12877. Epub 2015 Oct 5.


Dimensional depression severity in women with major depression and post-traumatic stress disorder correlates with fronto-amygdalar hypoconnectivty.

Satterthwaite TD, Cook PA, Bruce SE, Conway C, Mikkelsen E, Satchell E, Vandekar SN, Durbin T, Shinohara RT, Sheline YI.

Mol Psychiatry. 2016 Jul;21(7):894-902. doi: 10.1038/mp.2015.149. Epub 2015 Sep 29.


Predictors of Catastrophic Adverse Outcomes in Children With Pulmonary Hypertension Undergoing Cardiac Catheterization: A Multi-Institutional Analysis From the Pediatric Health Information Systems Database.

O'Byrne ML, Glatz AC, Hanna BD, Shinohara RT, Gillespie MJ, Dori Y, Rome JJ, Kawut SM.

J Am Coll Cardiol. 2015 Sep 15;66(11):1261-1269. doi: 10.1016/j.jacc.2015.07.032.


A Multicenter Cohort Study of Inferior Vena Cava Filter Use in Children.

Blevins EM, Glanz K, Huang YS, Raffini L, Shinohara RT, Witmer C.

Pediatr Blood Cancer. 2015 Dec;62(12):2089-93. doi: 10.1002/pbc.25662. Epub 2015 Jul 23.


Stroke in HIV-infected African Americans: a retrospective cohort study.

Thakur KT, Lyons JL, Smith BR, Shinohara RT, Mateen FJ.

J Neurovirol. 2016 Feb;22(1):50-5. doi: 10.1007/s13365-015-0363-x. Epub 2015 Jul 9.


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