Publications

Pulkit Khandelwal, Sala Young, Nathan Xi Ngo, Paul a Yushkevich, Andre Van Der Kouwe, Robin L Haynes, Hannah C Kinney, Lilla Zollei (2026). Cortical reconstruction and anatomical parcellation of high-resolution multi-modal postmortem ex vivo MRI of the human infant brain. bioRxiv.

M. K. Wyburd, N. K. Dinsdale, V. Kyriakopoulou, L. Venturini, R. Wright, A. Uus, J. Matthew, E. Skelton, L. Zöllei, J. Hajnal, A. I. L. Namburete (2025). Cross-Modality Comparison of Fetal Brain Phenotypes: Insights From Short-Interval Second-Trimester MRI and Ultrasound Imaging. Human Brain Mapping.

Henschel L, Kügler D, Zöllei L, Reuter M. (2024). VINNA for neonates: Orientation independence through latent augmentations. Imaging Neurosci (Camb).

Kelley W, Ngo N, Dalca AV, Fischl B, Zöllei L, Hoffmann M. (2024). BOOSTING SKULL-STRIPPING PERFORMANCE FOR PEDIATRIC BRAIN IMAGES. Proc IEEE Int Symp Biomed Imaging.

Spann MN, Wisnowski JL; HBCD Phase I Scanning Young Populations Working Group; Smyser CD; Fetal, Infant, And Toddler Neuroimaging Group (FIT'NG); Howell B, Dean DC 3rd. (2023). The Art, Science, and Secrets of Scanning Young Children. Biol Psychiatry.

Magnain C, Haynes R, Augustinack J, Kinney H, Zollei L. (2023). Integration of imaging measurements at micro-, meso and macro-scale of the caudal medulla on a postmortem infant subject. Proc Int Soc Magn Reson Med Sci Meet Exhib Int Soc Magn Reson Med Sci Meet Exhib.

Ntolkeras G, Jeong H, Zöllei L, Dmytriw AA, Purvaziri A, Lev MH, Grant PE, Bonmassar G. (2023). A high-resolution pediatric female whole-body numerical model with comparison to a male model. Phys Med Biol.

Yu X, Ferradal S, Dunstan J, Carruthers C, Sanfilippo J, Zuk J, Zöllei L, Gagoski B, Ou Y, Grant PE, Gaab N. (2022). Patterns of Neural Functional Connectivity in Infants at Familial Risk of Developmental Dyslexia. JAMA Netw Open.

Korom M, Camacho MC, Filippi CA, Licandro R, Moore LA, Dufford A, Zöllei L, Graham AM, Spann M, Howell B; FIT’NG; Shultz S, Scheinost D. (2022). Dear reviewers: Responses to common reviewer critiques about infant neuroimaging studies. Dev Cogn Neurosci.

Pollatou A, Filippi CA, Aydin E, Vaughn K, Thompson D, Korom M, Dufford AJ, Howell B, Zöllei L, Martino AD, Graham A; FIT’NG Group; Scheinost D, Spann MN. (2022). An ode to fetal, infant, and toddler neuroimaging: Chronicling early clinical to research applications with MRI, and an introduction to an academic society connecting the field. Dev Cogn Neurosci.

Terrier LM, Hadjikhani N, Velut S, Magnain C, Amelot A, Bernard F, Zöllei L, Destrieux C. (2021). The trigeminal system: The meningovascular complex- A review. J Anat.

Liu CJ, Ammon W, Siless V, Fogarty M, Wang R, Atzeni A, Aganj I, Iglesias JE, Zöllei L, Fischl B, Schmahmann JD, Wang H. (2021). Quantification of volumetric morphometry and optical property in the cortex of human cerebellum at micrometer resolution. Neuroimage.

Warton FL, Molteno CD, Warton CMR, Wintermark P, Lindinger NM, Dodge NC, Zöllei L, Van Der Kouwe AJW, Carter RC, Jacobson JL, Jacobson SW, Meintjes EM. (2021). Maternal choline supplementation mitigates alcohol exposure effects on neonatal brain volumes. Alcohol Clin Exp Res.

Ahtam B, Turesky TK, Zöllei L, Standish J, Grant PE, Gaab N, Im K. (2021). Intergenerational Transmission of Cortical Sulcal Patterns from Mothers to their Children. Cereb Cortex.

Yu X, Ferradal SL, Sliva DD, Dunstan J, Carruthers C, Sanfilippo J, Zuk J, Zöllei L, Boyd E, Gagoski B, Ou Y, Grant PE, Gaab N. (2021). Functional Connectivity in Infancy and Toddlerhood Predicts Long-Term Language and Preliteracy Outcomes. Cereb Cortex.

Jeong H, Ntolkeras G, Alhilani M, Atefi SR, Zöllei L, Fujimoto K, Pourvaziri A, Lev MH, Grant PE, Bonmassar G. (2021). Development, validation, and pilot MRI safety study of a high-resolution, open source, whole body pediatric numerical simulation model. PLoS One.

Turesky T, Xie W, Kumar S, Sliva DD, Gagoski B, Vaughn J, Zöllei L, Haque R, Kakon SH, Islam N, Petri WA Jr, Nelson CA, Gaab N. (2020). Relating anthropometric indicators to brain structure in 2-month-old Bangladeshi infants growing up in poverty: A pilot study. Neuroimage.

Warton FL, Taylor PA, Warton CMR, Molteno CD, Wintermark P, Zöllei L, Van Der Kouwe AJ, Jacobson JL, Jacobson SW, Meintjes EM. (2020). Reduced fractional anisotropy in projection, association, and commissural fiber networks in neonates with prenatal methamphetamine exposure. Dev Neurobiol.

Zöllei L, Iglesias JE, Ou Y, Grant PE, Fischl B. (2020). Infant FreeSurfer: An automated segmentation and surface extraction pipeline for T1-weighted neuroimaging data of infants 0-2 years. Neuroimage.

Cheng J, Dalca AV, Fischl B, Zöllei L; Alzheimer’s Disease Neuroimaging Initiative. (2020). Cortical surface registration using unsupervised learning. Neuroimage.

Admin (2019). An example preprint / working paper.

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Zöllei L, Jaimes C, Saliba E, Grant PE, Yendiki A. (2019). TRActs constrained by UnderLying INfant anatomy (TRACULInA): An automated probabilistic tractography tool with anatomical priors for use in the newborn brain. Neuroimage.

Turesky TK, Jensen SKG, Yu X, Kumar S, Wang Y, Sliva DD, Gagoski B, Sanfilippo J, Zöllei L, Boyd E, Haque R, Hafiz Kakon S, Islam N, Petri WA Jr, Nelson CA, Gaab N. (2019). The relationship between biological and psychosocial risk factors and resting-state functional connectivity in 2-month-old Bangladeshi infants: A feasibility and pilot study. Dev Sci.

Ferradal SL, Gagoski B, Jaimes C, Yi F, Carruthers C, Vu C, Litt JS, Larsen R, Sutton B, Grant PE, Zöllei L. (2019). System-Specific Patterns of Thalamocortical Connectivity in Early Brain Development as Revealed by Structural and Functional MRI. Cereb Cortex.

Cohen MA, Dilks DD, Koldewyn K, Weigelt S, Feather J, Kell AJ, Keil B, Fischl B, Zöllei L, Wald L, Saxe R, Kanwisher N. (2019). Representational similarity precedes category selectivity in the developing ventral visual pathway. Neuroimage.

Jaimes C, Cheng HH, Soul J, Ferradal S, Rathi Y, Gagoski B, Newburger JW, Grant PE, Zöllei L. (2018). Probabilistic tractography-based thalamic parcellation in healthy newborns and newborns with congenital heart disease. J Magn Reson Imaging.

Warton FL, Meintjes EM, Warton CMR, Molteno CD, Lindinger NM, Carter RC, Zöllei L, Wintermark P, Jacobson JL, Van Der Kouwe A, Jacobson SW. (2018). Prenatal methamphetamine exposure is associated with reduced subcortical volumes in neonates. Neurotoxicol Teratol.

Ou Y, Zöllei L, Da X, Retzepi K, Murphy SN, Gerstner ER, Rosen BR, Grant PE, Kalpathy-Cramer J, Gollub RL. (2018). Field of View Normalization in Multi-Site Brain MRI. Neuroinformatics.

Ou Y, Zöllei L, Retzepi K, Castro V, Bates SV, Pieper S, Andriole KP, Murphy SN, Gollub RL, Grant PE. (2017). Using clinically acquired MRI to construct age-specific ADC atlases: Quantifying spatiotemporal ADC changes from birth to 6-year old. Hum Brain Mapp.

Papadelis C, Butler EE, Rubenstein M, Sun L, Zollei L, Nimec D, Snyder B, Grant PE. (2017). Reorganization of the somatosensory cortex in hemiplegic cerebral palsy associated with impaired sensory tracts. Neuroimage Clin.

Jacobson SW, Jacobson JL, Molteno CD, Warton CMR, Wintermark P, Hoyme HE, De Jong G, Taylor P, Warton F, Lindinger NM, Carter RC, Dodge NC, Grant E, Warfield SK, Zöllei L, Van Der Kouwe AJW, Meintjes EM. (2017). Heavy Prenatal Alcohol Exposure is Related to Smaller Corpus Callosum in Newborn MRI Scans. Alcohol Clin Exp Res.

Narayanan PL, Warton C, Rosella Boonzaier N, Molteno CD, Joseph J, Jacobson JL, Jacobson SW, Zöllei L, Meintjes EM. (2016). Improved segmentation of cerebellar structures in children. J Neurosci Methods.

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. (2016). Comprehensive cellular-resolution atlas of the adult human brain. J Comp Neurol.

Admin, Robert Ford (2015). An example journal article. Journal of Source Themes, 1(1).

Ou Y, Gollub RL, Retzepi K, Reynolds N, Pienaar R, Pieper S, Murphy SN, Grant PE, Zöllei L. (2015). Brain extraction in pediatric ADC maps, toward characterizing neuro-development in multi-platform and multi-institution clinical images. Neuroimage.

De Macedo Rodrigues K, Ben-Avi E, Sliva DD, Choe MS, Drottar M, Wang R, Fischl B, Grant PE, Zöllei L. (2015). A FreeSurfer-compliant consistent manual segmentation of infant brains spanning the 0-2 year age range. Front Hum Neurosci.

Miller JA, Ding SL, Sunkin SM, Smith KA, Ng L, Szafer A, Ebbert A, Riley ZL, Royall JJ, Aiona K, Arnold JM, Bennet C, Bertagnolli D, Brouner K, Butler S, Caldejon S, Carey A, Cuhaciyan C, Dalley RA, Dee N, Dolbeare TA, Facer BA, Feng D, Fliss TP, Gee G, Goldy J, Gourley L, Gregor BW, Gu G, Howard RE, Jochim JM, Kuan CL, Lau C, Lee CK, Lee F, Lemon TA, Lesnar P, McMurray B, Mastan N, Mosqueda N, Naluai-Cecchini T, Ngo NK, Nyhus J, Oldre A, Olson E, Parente J, Parker PD, Parry SE, Stevens A, Pletikos M, Reding M, Roll K, Sandman D, Sarreal M, Shapouri S, Shapovalova NV, Shen EH, Sjoquist N, Slaughterbeck CR, Smith M, Sodt AJ, Williams D, Zöllei L, Fischl B, Gerstein MB, Geschwind DH, Glass IA, Hawrylycz MJ, Hevner RF, Huang H, Jones AR, Knowles JA, Levitt P, Phillips JW, Sestan N, Wohnoutka P, Dang C, Bernard A, Hohmann JG, Lein ES. (2014). Transcriptional landscape of the prenatal human brain. Nature.

Admin, Robert Ford (2013). An example conference paper. In ICW.

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Kolasinski J, Takahashi E, Stevens AA, Benner T, Fischl B, Zöllei L, Grant PE. (2013). Radial and tangential neuronal migration pathways in the human fetal brain: anatomically distinct patterns of diffusion MRI coherence. Neuroimage.

Toews M, Zöllei L, Wells WM. (2013). Feature-based alignment of volumetric multi-modal images. Inf Process Med Imaging.

Toews M, Wells WM 3rd, Zöllei L. (2012). A feature-based developmental model of the infant brain in structural MRI. Med Image Comput Comput Assist Interv.

Yeo BT, Krienen FM, Sepulcre J, Sabuncu MR, Lashkari D, Hollinshead M, Roffman JL, Smoller JW, Zöllei L, Polimeni JR, Fischl B, Liu H, Buckner RL. (2011). The organization of the human cerebral cortex estimated by intrinsic functional connectivity. J Neurophysiol.

Petrović A, Zöllei L. (2011). Evaluating volumetric brain registration performance using structural connectivity information. Med Image Comput Comput Assist Interv.

Yendiki A, Panneck P, Srinivasan P, Stevens A, Zöllei L, Augustinack J, Wang R, Salat D, Ehrlich S, Behrens T, Jbabdi S, Gollub R, Fischl B. (2011). Automated probabilistic reconstruction of white-matter pathways in health and disease using an atlas of the underlying anatomy. Front Neuroinform.

Tu P, Buckner RL, Zollei L, Dyckman KA, Goff DC, Manoach DS. (2010). Reduced functional connectivity in a right-hemisphere network for volitional ocular motor control in schizophrenia. Brain.

Zöllei L, Stevens A, Huber K, Kakunoori S, Fischl B. (2010). Improved tractography alignment using combined volumetric and surface registration. Neuroimage.

Augustinack JC, Helmer K, Huber KE, Kakunoori S, Zöllei L, Fischl B. (2010). Direct visualization of the perforant pathway in the human brain with ex vivo diffusion tensor imaging. Front Hum Neurosci.

Propper RE, O'Donnell LJ, Whalen S, Tie Y, Norton IH, Suarez RO, Zollei L, Radmanesh A, Golby AJ. (2010). A combined fMRI and DTI examination of functional language lateralization and arcuate fasciculus structure: Effects of degree versus direction of hand preference. Brain Cogn.

Postelnicu G, Zollei L, Fischl B. (2009). Combined volumetric and surface registration. IEEE Trans Med Imaging.

Maddah M, Zöllei L, Grimson WE, Westin CF, Wells WM. (2008). A Mathematical Framework for Incorporating Anatomical Knowledge in DT-MRI Analysis. Proc IEEE Int Symp Biomed Imaging.

Postelnicu G, Zollei L, Desikan R, Fischl B. (2007). Geometry driven volumetric registration. Inf Process Med Imaging.

Mewes AU, Zöllei L, Hüppi PS, Als H, McAnulty GB, Inder TE, Wells WM, Warfield SK. (2007). Displacement of brain regions in preterm infants with non-synostotic dolichocephaly investigated by MRI. Neuroimage.

Zöllei L, Jenkinson M, Timoner S, Wells W. (2007). A marginalized MAP approach and EM optimization for pair-wise registration. Inf Process Med Imaging.

Zöllei L, Fisher JW, Wells WM. (2003). A unified statistical and information theoretic framework for multi-modal image registration. Inf Process Med Imaging.