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Expected Label Value Computation for Atlas-Based Image Segmentation.

Aganj I, Fischl B.

Proc IEEE Int Symp Biomed Imaging. 2019 Apr;2019:334-338. doi: 10.1109/ISBI.2019.8759484. Epub 2019 Jul 11.


PSACNN: Pulse sequence adaptive fast whole brain segmentation.

Jog A, Hoopes A, Greve DN, Van Leemput K, Fischl B.

Neuroimage. 2019 Oct 1;199:553-569. doi: 10.1016/j.neuroimage.2019.05.033. Epub 2019 May 24.


Representational similarity precedes category selectivity in the developing ventral visual pathway.

Cohen MA, Dilks DD, Koldewyn K, Weigelt S, Feather J, Kell AJ, Keil B, Fischl B, Zöllei L, Wald L, Saxe R, Kanwisher N.

Neuroimage. 2019 Aug 15;197:565-574. doi: 10.1016/j.neuroimage.2019.05.010. Epub 2019 May 8.


Maturational Changes in Human Dorsal and Ventral Visual Networks.

Ciesielski KTR, Stern ME, Diamond A, Khan S, Busa EA, Goldsmith TE, van der Kouwe A, Fischl B, Rosen BR.

Cereb Cortex. 2019 Mar 30. pii: bhz053. doi: 10.1093/cercor/bhz053. [Epub ahead of print]


Markerless high-frequency prospective motion correction for neuroanatomical MRI.

Frost R, Wighton P, Karahanoğlu FI, Robertson RL, Grant PE, Fischl B, Tisdall MD, van der Kouwe A.

Magn Reson Med. 2019 Jul;82(1):126-144. doi: 10.1002/mrm.27705. Epub 2019 Feb 28.


Primum non nocere: a call for balance when reporting on CTE.

Stewart W, Allinson K, Al-Sarraj S, Bachmeier C, Barlow K, Belli A, Burns MP, Carson A, Crawford F, Dams-O'Connor K, Diaz-Arrastia R, Dixon CE, Edlow BL, Ferguson S, Fischl B, Folkerth RD, Gentleman S, Giza CC, Grady MS, Helmy A, Herceg M, Holton JL, Howell D, Hutchinson PJ, Iacono D, Iglesias JE, Ikonomovic MD, Johnson VE, Keene CD, Kofler JK, Koliatsos VE, Lee EB, Levin H, Lifshitz J, Ling H, Loane DJ, Love S, Maas AI, Marklund N, Master CL, McElvenny DM, Meaney DF, Menon DK, Montine TJ, Mouzon B, Mufson EJ, Ojo JO, Prins M, Revesz T, Ritchie CW, Smith C, Sylvester R, Tang CY, Trojanowski JQ, Urankar K, Vink R, Wellington C, Wilde EA, Wilson L, Yeates K, Smith DH.

Lancet Neurol. 2019 Mar;18(3):231-233. doi: 10.1016/S1474-4422(19)30020-1. Epub 2019 Feb 12. No abstract available. Erratum in: Lancet Neurol. 2019 Apr;18(4):e3.


Intracortical smoothing of small-voxel fMRI data can provide increased detection power without spatial resolution losses compared to conventional large-voxel fMRI data.

Blazejewska AI, Fischl B, Wald LL, Polimeni JR.

Neuroimage. 2019 Apr 1;189:601-614. doi: 10.1016/j.neuroimage.2019.01.054. Epub 2019 Jan 25.


Quantification of structural brain connectivity via a conductance model.

Frau-Pascual A, Fogarty M, Fischl B, Yendiki A, Aganj I; Alzheimer's Disease Neuroimaging Initiative.

Neuroimage. 2019 Apr 1;189:485-496. doi: 10.1016/j.neuroimage.2019.01.033. Epub 2019 Jan 21.


The Lifespan Human Connectome Project in Aging: An overview.

Bookheimer SY, Salat DH, Terpstra M, Ances BM, Barch DM, Buckner RL, Burgess GC, Curtiss SW, Diaz-Santos M, Elam JS, Fischl B, Greve DN, Hagy HA, Harms MP, Hatch OM, Hedden T, Hodge C, Japardi KC, Kuhn TP, Ly TK, Smith SM, Somerville LH, Uğurbil K, van der Kouwe A, Van Essen D, Woods RP, Yacoub E.

Neuroimage. 2019 Jan 15;185:335-348. doi: 10.1016/j.neuroimage.2018.10.009. Epub 2018 Oct 15.


Colocalization of neurons in optical coherence microscopy and Nissl-stained histology in Brodmann's area 32 and area 21.

Magnain C, Augustinack JC, Tirrell L, Fogarty M, Frosch MP, Boas D, Fischl B, Rockland KS.

Brain Struct Funct. 2019 Jan;224(1):351-362. doi: 10.1007/s00429-018-1777-z. Epub 2018 Oct 17.


Joint registration and synthesis using a probabilistic model for alignment of MRI and histological sections.

Iglesias JE, Modat M, Peter L, Stevens A, Annunziata R, Vercauteren T, Lein E, Fischl B, Ourselin S; Alzheimer’s Disease Neuroimaging Initiative.

Med Image Anal. 2018 Dec;50:127-144. doi: 10.1016/ Epub 2018 Sep 22.


Extending the Human Connectome Project across ages: Imaging protocols for the Lifespan Development and Aging projects.

Harms MP, Somerville LH, Ances BM, Andersson J, Barch DM, Bastiani M, Bookheimer SY, Brown TB, Buckner RL, Burgess GC, Coalson TS, Chappell MA, Dapretto M, Douaud G, Fischl B, Glasser MF, Greve DN, Hodge C, Jamison KW, Jbabdi S, Kandala S, Li X, Mair RW, Mangia S, Marcus D, Mascali D, Moeller S, Nichols TE, Robinson EC, Salat DH, Smith SM, Sotiropoulos SN, Terpstra M, Thomas KM, Tisdall MD, Ugurbil K, van der Kouwe A, Woods RP, Zöllei L, Van Essen DC, Yacoub E.

Neuroimage. 2018 Dec;183:972-984. doi: 10.1016/j.neuroimage.2018.09.060. Epub 2018 Sep 24.


Regionally specific TSC1 and TSC2 gene expression in tuberous sclerosis complex.

Li Y, Barkovich MJ, Karch CM, Nillo RM, Fan CC, Broce IJ, Tan CH, Cuneo D, Hess CP, Dillon WP, Glenn OA, Glastonbury CM, Olney N, Yokoyama JS, Bonham LW, Miller B, Kao A, Schmansky N, Fischl B, Andreassen OA, Jernigan T, Dale A, Barkovich AJ, Desikan RS, Sugrue LP.

Sci Rep. 2018 Sep 6;8(1):13373. doi: 10.1038/s41598-018-31075-4.


Unsupervised Medical Image Segmentation Based on the Local Center of Mass.

Aganj I, Harisinghani MG, Weissleder R, Fischl B.

Sci Rep. 2018 Aug 29;8(1):13012. doi: 10.1038/s41598-018-31333-5.


A probabilistic atlas of the human thalamic nuclei combining ex vivo MRI and histology.

Iglesias JE, Insausti R, Lerma-Usabiaga G, Bocchetta M, Van Leemput K, Greve DN, van der Kouwe A; Alzheimer's Disease Neuroimaging Initiative, Fischl B, Caballero-Gaudes C, Paz-Alonso PM.

Neuroimage. 2018 Dec;183:314-326. doi: 10.1016/j.neuroimage.2018.08.012. Epub 2018 Aug 17.


Accurate nonlinear mapping between MNI volumetric and FreeSurfer surface coordinate systems.

Wu J, Ngo GH, Greve D, Li J, He T, Fischl B, Eickhoff SB, Yeo BTT.

Hum Brain Mapp. 2018 May 16. doi: 10.1002/hbm.24213. [Epub ahead of print]


White matter abnormalities and cognition in patients with conflicting diagnoses and CSF profiles.

Lindemer ER, Greve DN, Fischl B, Salat DH, Gomez-Isla T.

Neurology. 2018 Apr 24;90(17):e1461-e1469. doi: 10.1212/WNL.0000000000005353. Epub 2018 Mar 23.


Microstructural parcellation of the human brain.

Fischl B, Sereno MI.

Neuroimage. 2018 Nov 15;182:219-231. doi: 10.1016/j.neuroimage.2018.01.036. Epub 2018 Feb 26. Review.


Multimodal Characterization of the Late Effects of Traumatic Brain Injury: A Methodological Overview of the Late Effects of Traumatic Brain Injury Project.

Edlow BL, Keene CD, Perl DP, Iacono D, Folkerth RD, Stewart W, Mac Donald CL, Augustinack J, Diaz-Arrastia R, Estrada C, Flannery E, Gordon WA, Grabowski TJ, Hansen K, Hoffman J, Kroenke C, Larson EB, Lee P, Mareyam A, McNab JA, McPhee J, Moreau AL, Renz A, Richmire K, Stevens A, Tang CY, Tirrell LS, Trittschuh EH, van der Kouwe A, Varjabedian A, Wald LL, Wu O, Yendiki A, Young L, Zöllei L, Fischl B, Crane PK, Dams-O'Connor K.

J Neurotrauma. 2018 Jul 15;35(14):1604-1619. doi: 10.1089/neu.2017.5457. Epub 2018 May 3.


Characterizing the optical properties of human brain tissue with high numerical aperture optical coherence tomography.

Wang H, Magnain C, Sakadžić S, Fischl B, Boas DA.

Biomed Opt Express. 2017 Nov 14;8(12):5617-5636. doi: 10.1364/BOE.8.005617. eCollection 2017 Dec 1.


False positive rates in surface-based anatomical analysis.

Greve DN, Fischl B.

Neuroimage. 2018 May 1;171:6-14. doi: 10.1016/j.neuroimage.2017.12.072. Epub 2017 Dec 26.


Factors influencing accuracy of cortical thickness in the diagnosis of Alzheimer's disease.

Belathur Suresh M, Fischl B, Salat DH; Alzheimer's Disease Neuroimaging Initiative (ADNI).

Hum Brain Mapp. 2018 Apr;39(4):1500-1515. doi: 10.1002/hbm.23922. Epub 2017 Dec 21.


Dementia After Moderate-Severe Traumatic Brain Injury: Coexistence of Multiple Proteinopathies.

Kenney K, Iacono D, Edlow BL, Katz DI, Diaz-Arrastia R, Dams-O'Connor K, Daneshvar DH, Stevens A, Moreau AL, Tirrell LS, Varjabedian A, Yendiki A, van der Kouwe A, Mareyam A, McNab JA, Gordon WA, Fischl B, McKee AC, Perl DP.

J Neuropathol Exp Neurol. 2018 Jan 1;77(1):50-63. doi: 10.1093/jnen/nlx101.


Multimodal Image Registration through Simultaneous Segmentation.

Aganj I, Fischl B.

IEEE Signal Process Lett. 2017 Nov;24(11):1661-1665. doi: 10.1109/LSP.2017.2754263. Epub 2017 Sep 19.


AnatomiCuts: Hierarchical clustering of tractography streamlines based on anatomical similarity.

Siless V, Chang K, Fischl B, Yendiki A.

Neuroimage. 2018 Feb 1;166:32-45. doi: 10.1016/j.neuroimage.2017.10.058. Epub 2017 Nov 1.


as-PSOCT: Volumetric microscopic imaging of human brain architecture and connectivity.

Wang H, Magnain C, Wang R, Dubb J, Varjabedian A, Tirrell LS, Stevens A, Augustinack JC, Konukoglu E, Aganj I, Frosch MP, Schmahmann JD, Fischl B, Boas DA.

Neuroimage. 2018 Jan 15;165:56-68. doi: 10.1016/j.neuroimage.2017.10.012. Epub 2017 Oct 7.


Advantages of cortical surface reconstruction using submillimeter 7 T MEMPRAGE.

Zaretskaya N, Fischl B, Reuter M, Renvall V, Polimeni JR.

Neuroimage. 2018 Jan 15;165:11-26. doi: 10.1016/j.neuroimage.2017.09.060. Epub 2017 Sep 29.


Functional density and edge maps: Characterizing functional architecture in individuals and improving cross-subject registration.

Tong T, Aganj I, Ge T, Polimeni JR, Fischl B.

Neuroimage. 2017 Sep;158:346-355. doi: 10.1016/j.neuroimage.2017.07.019. Epub 2017 Jul 14.


High-resolution magnetic resonance imaging reveals nuclei of the human amygdala: manual segmentation to automatic atlas.

Saygin ZM, Kliemann D, Iglesias JE, van der Kouwe AJW, Boyd E, Reuter M, Stevens A, Van Leemput K, McKee A, Frosch MP, Fischl B, Augustinack JC; Alzheimer's Disease Neuroimaging Initiative.

Neuroimage. 2017 Jul 15;155:370-382. doi: 10.1016/j.neuroimage.2017.04.046. Epub 2017 May 4.


A probabilistic template of human mesopontine tegmental nuclei from in vivo 7T MRI.

Bianciardi M, Strong C, Toschi N, Edlow BL, Fischl B, Brown EN, Rosen BR, Wald LL.

Neuroimage. 2018 Apr 15;170:222-230. doi: 10.1016/j.neuroimage.2017.04.070. Epub 2017 May 3.


Analysis strategies for high-resolution UHF-fMRI data.

Polimeni JR, Renvall V, Zaretskaya N, Fischl B.

Neuroimage. 2018 Mar;168:296-320. doi: 10.1016/j.neuroimage.2017.04.053. Epub 2017 Apr 29. Review.


Entorhinal Cortex: Antemortem Cortical Thickness and Postmortem Neurofibrillary Tangles and Amyloid Pathology.

Thaker AA, Weinberg BD, Dillon WP, Hess CP, Cabral HJ, Fleischman DA, Leurgans SE, Bennett DA, Hyman BT, Albert MS, Killiany RJ, Fischl B, Dale AM, Desikan RS.

AJNR Am J Neuroradiol. 2017 May;38(5):961-965. doi: 10.3174/ajnr.A5133. Epub 2017 Mar 9.


Shared genetic risk between corticobasal degeneration, progressive supranuclear palsy, and frontotemporal dementia.

Yokoyama JS, Karch CM, Fan CC, Bonham LW, Kouri N, Ross OA, Rademakers R, Kim J, Wang Y, Höglinger GU, Müller U, Ferrari R, Hardy J; International FTD-Genomics Consortium (IFGC), Momeni P, Sugrue LP, Hess CP, James Barkovich A, Boxer AL, Seeley WW, Rabinovici GD, Rosen HJ, Miller BL, Schmansky NJ, Fischl B, Hyman BT, Dickson DW, Schellenberg GD, Andreassen OA, Dale AM, Desikan RS.

Acta Neuropathol. 2017 May;133(5):825-837. doi: 10.1007/s00401-017-1693-y. Epub 2017 Mar 7.


Mid-space-independent deformable image registration.

Aganj I, Iglesias JE, Reuter M, Sabuncu MR, Fischl B.

Neuroimage. 2017 May 15;152:158-170. doi: 10.1016/j.neuroimage.2017.02.055. Epub 2017 Feb 24.


Studying neuroanatomy using MRI.

Lerch JP, van der Kouwe AJ, Raznahan A, Paus T, Johansen-Berg H, Miller KL, Smith SM, Fischl B, Sotiropoulos SN.

Nat Neurosci. 2017 Feb 23;20(3):314-326. doi: 10.1038/nn.4501. Review.


Differential Regional Distribution of Juxtacortical White Matter Signal Abnormalities in Aging and Alzheimer's Disease.

Lindemer ER, Greve DN, Fischl B, Augustinack JC, Salat DH; Alzheimer’s Disease Neuroimaging Initiative.

J Alzheimers Dis. 2017;57(1):293-303. doi: 10.3233/JAD-161057.


Regional staging of white matter signal abnormalities in aging and Alzheimer's disease.

Lindemer ER, Greve DN, Fischl BR, Augustinack JC, Salat DH.

Neuroimage Clin. 2017 Jan 23;14:156-165. doi: 10.1016/j.nicl.2017.01.022. eCollection 2017.


Comprehensive cellular-resolution atlas of the adult human brain.

Ding SL, Royall JJ, Sunkin SM, Ng L, Facer BA, Lesnar P, Guillozet-Bongaarts A, McMurray B, Szafer A, Dolbeare TA, Stevens A, Tirrell L, Benner T, Caldejon S, Dalley RA, Dee N, Lau C, Nyhus J, Reding M, Riley ZL, Sandman D, Shen E, van der Kouwe A, Varjabedian A, Write M, Zollei L, Dang C, Knowles JA, Koch C, Phillips JW, Sestan N, Wohnoutka P, Zielke HR, Hohmann JG, Jones AR, Bernard A, Hawrylycz MJ, Hof PR, Fischl B, LeinReference ES.

J Comp Neurol. 2017 Feb 1;525(2):407. doi: 10.1002/cne.24130. No abstract available.


The Cytoarchitecture of Domain-specific Regions in Human High-level Visual Cortex.

Weiner KS, Barnett MA, Lorenz S, Caspers J, Stigliani A, Amunts K, Zilles K, Fischl B, Grill-Spector K.

Cereb Cortex. 2017 Jan 1;27(1):146-161. doi: 10.1093/cercor/bhw361.


Morphometricity as a measure of the neuroanatomical signature of a trait.

Sabuncu MR, Ge T, Holmes AJ, Smoller JW, Buckner RL, Fischl B; Alzheimer's Disease Neuroimaging Initiative.

Proc Natl Acad Sci U S A. 2016 Sep 27;113(39):E5749-56. doi: 10.1073/pnas.1604378113. Epub 2016 Sep 9.


Volumetric and fiber-tracing MRI methods for gray and white matter.

Larvie M, Fischl B.

Handb Clin Neurol. 2016;135:39-60. doi: 10.1016/B978-0-444-53485-9.00003-9. Review.


Bayesian longitudinal segmentation of hippocampal substructures in brain MRI using subject-specific atlases.

Iglesias JE, Van Leemput K, Augustinack J, Insausti R, Fischl B, Reuter M; Alzheimer's Disease Neuroimaging Initiative.

Neuroimage. 2016 Nov 1;141:542-555. doi: 10.1016/j.neuroimage.2016.07.020. Epub 2016 Jul 15.


Comprehensive cellular-resolution atlas of the adult human brain.

Ding SL, Royall JJ, Sunkin SM, Ng L, Facer BA, Lesnar P, Guillozet-Bongaarts A, McMurray B, Szafer A, Dolbeare TA, Stevens A, Tirrell L, Benner T, Caldejon S, Dalley RA, Dee N, Lau C, Nyhus J, Reding M, Riley ZL, Sandman D, Shen E, van der Kouwe A, Varjabedian A, Wright M, Zöllei L, Dang C, Knowles JA, Koch C, Phillips JW, Sestan N, Wohnoutka P, Zielke HR, Hohmann JG, Jones AR, Bernard A, Hawrylycz MJ, Hof PR, Fischl B, Lein ES.

J Comp Neurol. 2016 Nov 1;524(16):3127-481. doi: 10.1002/cne.24080. Erratum in: J Comp Neurol. 2017 Feb 1;525(2):407.


En face speckle reduction in optical coherence microscopy by frequency compounding.

Magnain C, Wang H, Sakadžić S, Fischl B, Boas DA.

Opt Lett. 2016 May 1;41(9):1925-8. doi: 10.1364/OL.41.001925.


Multivariate statistical analysis of diffusion imaging parameters using partial least squares: Application to white matter variations in Alzheimer's disease.

Konukoglu E, Coutu JP, Salat DH, Fischl B; Alzheimer's Disease Neuroimaging Initiative (ADNI).

Neuroimage. 2016 Jul 1;134:573-586. doi: 10.1016/j.neuroimage.2016.04.038. Epub 2016 Apr 19.


Progression from selective to general involvement of hippocampal subfields in schizophrenia.

Ho NF, Iglesias JE, Sum MY, Kuswanto CN, Sitoh YY, De Souza J, Hong Z, Fischl B, Roffman JL, Zhou J, Sim K, Holt DJ.

Mol Psychiatry. 2017 Jan;22(1):142-152. doi: 10.1038/mp.2016.4. Epub 2016 Feb 23.


Mid-Space-Independent Symmetric Data Term for Pairwise Deformable Image Registration.

Aganj I, Iglesias JE, Reuter M, Sabuncu MR, Fischl B.

Med Image Comput Comput Assist Interv. 2015 Oct;9350:263-271. Epub 2015 Nov 20.


Joint reconstruction of white-matter pathways from longitudinal diffusion MRI data with anatomical priors.

Yendiki A, Reuter M, Wilkens P, Rosas HD, Fischl B.

Neuroimage. 2016 Feb 15;127:277-286. doi: 10.1016/j.neuroimage.2015.12.003. Epub 2015 Dec 21.


A Fast Approach to Automatic Detection of Brain Lesions.

Koley S, Chakraborty C, Mainero C, Fischl B, Aganj I.

Brainlesion. 2016;10154:52-61. doi: 10.1007/978-3-319-55524-9_6. Epub 2017 Apr 12.


Prospective motion correction with volumetric navigators (vNavs) reduces the bias and variance in brain morphometry induced by subject motion.

Tisdall MD, Reuter M, Qureshi A, Buckner RL, Fischl B, van der Kouwe AJW.

Neuroimage. 2016 Feb 15;127:11-22. doi: 10.1016/j.neuroimage.2015.11.054. Epub 2015 Dec 2.

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