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LQMI Publications

Quantifying brain development in the HEALthy Brain and Child Development (HBCD) Study: The magnetic resonance imaging and spectroscopy protocol.
Dean DCTisdall MDWisnowski JLFeczko EGagoski BAlexander ALEdden RAEGao WHendrickson TJHowell BRHuang HHumphreys KLRiggins TSylvester CMWeldon KBYacoub EAhtam BBeck NBanerjee SBoroday SCaprihan ACaron BCarpenter SChang YChung AWCieslak MClarke WTDale ADas SDavies-Jenkins CWDufford AJEvans ACFesselier LGanji SKGilbert GGraham AMGudmundson ATMacgregor-Hannah MHarms MPHilbert THui SCNIrfanoglu MOKecskemeti SKober TKuperman JMLamichhane BLandman BALecour-Bourcher XLee EGLi XMacIntyre LMadjar CManhard MKMayer ARMehta KMoore LAMurali-Manohar SNavarro CNebel MBNewman SDNewton ATNoeske RNorton ESOeltzschner GOngaro-Carcy ROu XOuyang MParrish TBPekar JJPengo TPierpaoli CPoldrack RARajagopalan VRettmann DWRioux PRosenberg JTSalo TSatterthwaite TDScott LSShin ESimegn GSimmons WKSong YTikalsky BJTkach Jvan Zijl PCMVannest JVersluis MZhao YZöllner HJFair DASmyser CDElison JT
Dev Cogn Neurosci
2024 Dec

Neuroimaging Findings in US Government Personnel and Their Family Members Involved in Anomalous Health Incidents.
Pierpaoli CNayak AHafiz RIrfanoglu MOChen GTaylor PHallett MHoa MPham DChou YYMoses ADvan der Merwe AJLippa SMBrewer CCZalewski CKZampieri CTurtzo LCShahim PChan LMoore BStamps LFlynn SFontana JTata SLo JFernandez MALori-Joseph AMatsubara JGoldberg JNguyen TDSasson NLely JSmith BKing KAChisholm JChristensen JMagone MTCousineau-Krieger CFrench LMYonter SAttaripour SLai C
JAMA
2024 Apr 02

Clinical, Biomarker, and Research Tests Among US Government Personnel and Their Family Members Involved in Anomalous Health Incidents.
Chan LHallett MZalewski CKBrewer CCZampieri CHoa MLippa SMFitzgibbon EFrench LMMoses ADvan der Merwe AJPierpaoli CTurtzo LCYonter SShahim PMoore BStamps LFlynn SFontana JTata SLo JFernandez MAJoseph ALMatsubara JGoldberg JNguyen TDSasson NLely JSmith BKing KAChisholm JChristensen JMagone MTCousineau-Krieger CHafiz RNayak AIrfanoglu OAttaripour SLai CSmith WB
JAMA
2024 Apr 02

"Pscore": A Novel Percentile-Based Metric to Accurately Assess Individual Deviations in Non-Gaussian Distributions of Quantitative MRI Metrics.
Hafiz RIrfanoglu MONayak APierpaoli C
J Magn Reson Imaging
2024 Nov

'Pscore' - A Novel Percentile-Based Metric to Accurately Assess Individual Deviations in Non-Gaussian Distributions of Quantitative MRI Metrics.
Hafiz RIrfanoglu MONayak APierpaoli C
bioRxiv
2024 Jan 09

Translationally Relevant Magnetic Resonance Imaging Markers in a Ferret Model of Closed Head Injury.
Hutchinson EBRomero-Lozano AJohnson HRKnutsen AKBosomtwi AKorotcov AShunmugavel AKing SGSchwerin SCJuliano SLDardzinski BJPierpaoli C
Front Neurosci
2021

Mapping gradient nonlinearity and miscalibration using diffusion-weighted MR images of a uniform isotropic phantom.
Barnett ASIrfanoglu MOLandman BRogers BPierpaoli C
Magn Reson Med
2021 Dec

Improved reproducibility of diffusion MRI of the human brain with a four-way blip-up and down phase-encoding acquisition approach.
Irfanoglu MOSadeghi NSarlls JPierpaoli C
Magn Reson Med
2021 May

Empirical field mapping for gradient nonlinearity correction of multi-site diffusion weighted MRI.
Hansen CBRogers BPSchilling KGNath VBlaber JAIrfanoglu OBarnett APierpaoli CAnderson AWLandman BA
Magn Reson Imaging
2021 Feb

Investigation of the effect of dietary intake of omega-3 polyunsaturated fatty acids on trauma-induced white matter injury with quantitative diffusion MRI in mice.
Reyes LDHaight TDesai AChen HBosomtwi AKorotcov ADardzinski BKim HYPierpaoli C
J Neurosci Res
2020 Nov

Brain connections derived from diffusion MRI tractography can be highly anatomically accurate-if we know where white matter pathways start, where they end, and where they do not go.
Schilling KGPetit LRheault FRemedios SPierpaoli CAnderson AWLandman BADescoteaux M
Brain Struct Funct
2020 Nov

Direct and specific assessment of axonal injury and spinal cord microenvironments using diffusion correlation imaging.
Benjamini DHutchinson EBKomlosh MEComrie CJSchwerin SCZhang GPierpaoli CBasser PJ
Neuroimage
2020 Nov 01

Brain phenotyping in Moebius syndrome and other congenital facial weakness disorders by diffusion MRI morphometry.
Sadeghi NHutchinson EVan Ryzin CFitzGibbon EJButman JAWebb BDFacio FBrooks BPCollins FSJabs EWEngle ECManoli IPierpaoli C
Brain Commun
2020

Hypoplasia of cerebellar afferent networks in Down syndrome revealed by DTI-driven tensor based morphometry.
Lee NRNayak AIrfanoglu MOSadeghi NStoodley CJAdeyemi EClasen LSPierpaoli C
Sci Rep
2020 Mar 25

Consideration of Cerebrospinal Fluid Intensity Variation in Diffusion Weighted MRI.
Hansen CBNath VHainline AESchilling KGParvathaneni PBayrak RGBlaber JAWilliams OResnick SBeason-Held LIrfanoglu OPierpaoli CAnderson AWRogers BPLandman BA
Proc SPIE Int Soc Opt Eng
2019 Mar

Image processing and analysis methods for the Adolescent Brain Cognitive Development Study.
Hagler DJHatton SCornejo MDMakowski CFair DADick ASSutherland MTCasey BJBarch DMHarms MPWatts RBjork JMGaravan HPHilmer LPung CJSicat CSKuperman JBartsch HXue FHeitzeg MMLaird ARTrinh TTGonzalez RTapert SFRiedel MCSqueglia LMHyde LWRosenberg MDEarl EAHowlett KDBaker FCSoules MDiaz Jde Leon ORThompson WKNeale MCHerting MSowell ERAlvarez RPHawes SWSanchez MBodurka JBreslin FJMorris ASPaulus MPSimmons WKPolimeni JRvan der Kouwe ANencka ASGray KMPierpaoli CMatochik JANoronha AAklin WMConway KGlantz MHoffman ELittle RLopez MPariyadath VWeiss SRWolff-Hughes DLDelCarmen-Wiggins RFeldstein Ewing SWMiranda-Dominguez ONagel BJPerrone AJSturgeon DTGoldstone APfefferbaum APohl KMProuty DUban KBookheimer SYDapretto MGalvan ABagot KGiedd JInfante MAJacobus JPatrick KShilling PDDesikan RLi YSugrue LBanich MTFriedman NHewitt JKHopfer CSakai JTanabe JCottler LBNixon SJChang LCloak CErnst TReeves GKennedy DNHeeringa SPeltier SSchulenberg JSripada CZucker RAIacono WGLuciana MCalabro FJClark DBLewis DALuna BSchirda CBrima TFoxe JJFreedman EGMruzek DWMason MJHuber RMcGlade EPrescot ARenshaw PFYurgelun-Todd DAAllgaier NADumas JAIvanova MPotter AFlorsheim PLarson CLisdahl KCharness MEFuemmeler BHettema JMMaes HHSteinberg JAnokhin APGlaser PHeath ACMadden PABaskin-Sommers AConstable RTGrant SJDowling GJBrown SAJernigan TLDale AM
Neuroimage
2019 Nov 15

The effect of Zika virus infection in the ferret.
Hutchinson EBChatterjee MReyes LDjankpa FTValiant WGDardzinski BMattapallil JJPierpaoli CJuliano SL
J Comp Neurol
2019 Jul 01

The phenotypic landscape of a Tbc1d24 mutant mouse includes convulsive seizures resembling human early infantile epileptic encephalopathy.
Tona RChen WNakano YReyes LDPetralia RSWang YXStarost MFWafa TTMorell RJCravedi KDdu Hoffmann JMiyoshi TMunasinghe JPFitzgerald TSChudasama YOmori KPierpaoli CBanfi BDong LBelyantseva IAFriedman TB
Hum Mol Genet
2019 May 01

Characterization and correlation of signal drift in diffusion weighted MRI.
Hansen CBNath VHainline AESchilling KGParvathaneni PBayrak RGBlaber JAIrfanoglu OPierpaoli CAnderson AWRogers BPLandman BA
Magn Reson Imaging
2019 Apr

Evaluating corrections for Eddy-currents and other EPI distortions in diffusion MRI: methodology and a dataset for benchmarking.
Irfanoglu MOSarlls JNayak APierpaoli C
Magn Reson Med
2019 Apr

Limits to anatomical accuracy of diffusion tractography using modern approaches.
Schilling KGNath VHansen CParvathaneni PBlaber JGao YNeher PAydogan DBShi YOcampo-Pineda MSchiavi SDaducci AGirard GBarakovic MRafael-Patino JRomascano DRensonnet GPizzolato MBates AFischi EThiran JPCanales-Rodríguez EJHuang CZhu HZhong LCabeen RToga AWRheault FTheaud GHoude JCSidhu JChamberland MWestin CFDyrby TBVerma RRathi YIrfanoglu MOThomas CPierpaoli CDescoteaux MAnderson AWLandman BA
Neuroimage
2019 Jan 15

The spectrum of brainstem malformations associated to mutations of the tubulin genes family: MRI and DTI analysis.
Arrigoni FRomaniello RPeruzzo DPoretti ABassi MTPierpaoli CValente EMNuovo SBoltshauser EHuisman TAGMTriulzi FBorgatti R
Eur Radiol
2019 Feb

Using double pulsed-field gradient MRI to study tissue microstructure in traumatic brain injury (TBI).
Komlosh MEBenjamini DHutchinson EBKing SHaber MAvram AVHoltzclaw LADesai APierpaoli CBasser PJ
Microporous Mesoporous Mater
2018 Oct

Tensor-based morphometry using scalar and directional information of diffusion tensor MRI data (DTBM): Application to hereditary spastic paraplegia.
Sadeghi NArrigoni FD'Angelo MGThomas CIrfanoglu MOHutchinson EBNayak AModi PBassi MTPierpaoli C
Hum Brain Mapp
2018 Dec

Detection and Distinction of Mild Brain Injury Effects in a Ferret Model Using Diffusion Tensor MRI (DTI) and DTI-Driven Tensor-Based Morphometry (D-TBM).
Hutchinson EBSchwerin SCRadomski KLSadeghi NKomlosh MEIrfanoglu MOJuliano SLPierpaoli C
Front Neurosci
2018

Neuronal-Specific TUBB3 Is Not Required for Normal Neuronal Function but Is Essential for Timely Axon Regeneration.
Latremoliere ACheng LDeLisle MWu CChew SHutchinson EBSheridan AAlexandre CLatremoliere FSheu SHGolidy SOmura THuebner EAFan YWhitman MCNguyen EHermawan CPierpaoli CTischfield MAWoolf CJEngle EC
Cell Rep
2018 Aug 14

Phantom-based field maps for gradient nonlinearity correction in diffusion imaging.
Rogers BPBlaber JNewton ATHansen CBWelch EBAnderson AWLuci JJPierpaoli CLandman BA
Proc SPIE Int Soc Opt Eng
2018 Mar

Impact of time-of-day on diffusivity measures of brain tissue derived from diffusion tensor imaging.
Thomas CSadeghi NNayak ATrefler ASarlls JBaker CIPierpaoli C
Neuroimage
2018 Jun

Progression of histopathological and behavioral abnormalities following mild traumatic brain injury in the male ferret.
Schwerin SCChatterjee MImam-Fulani AORadomski KLHutchinson EBPierpaoli CMJuliano SL
J Neurosci Res
2018 Apr

Diffusion MRI and the detection of alterations following traumatic brain injury.
Hutchinson EBSchwerin SCAvram AVJuliano SLPierpaoli C
J Neurosci Res
2018 Apr

Establishing the ferret as a gyrencephalic animal model of traumatic brain injury: Optimization of controlled cortical impact procedures.
Schwerin SCHutchinson EBRadomski KLNgalula KPPierpaoli CMJuliano SL
J Neurosci Methods
2017 Jun 15

Analysis of the effects of noise, DWI sampling, and value of assumed parameters in diffusion MRI models.
Hutchinson EBAvram AVIrfanoglu MOKoay CGBarnett ASKomlosh MEÖzarslan ESchwerin SCJuliano SLPierpaoli C
Magn Reson Med
2017 Nov

Quantitative MRI and DTI Abnormalities During the Acute Period Following CCI in the Ferret.
Hutchinson EBSchwerin SCRadomski KLIrfanoglu MOJuliano SLPierpaoli CM
Shock
2016 Sep

DR-TAMAS: Diffeomorphic Registration for Tensor Accurate Alignment of Anatomical Structures.
Irfanoglu MONayak AJenkins JHutchinson EBSadeghi NThomas CPPierpaoli C
Neuroimage
2016 May 15

Impact of time-of-day on brain morphometric measures derived from T1-weighted magnetic resonance imaging.
Trefler ASadeghi NThomas AGPierpaoli CBaker CIThomas C
Neuroimage
2016 Jun

Tract Orientation and Angular Dispersion Deviation Indicator (TOADDI): A framework for single-subject analysis in diffusion tensor imaging.
Koay CGYeh PHOllinger JMİrfanoğlu MOPierpaoli CBasser PJOakes TRRiedy G
Neuroimage
2016 Feb 01

Clinical feasibility of using mean apparent propagator (MAP) MRI to characterize brain tissue microstructure.
Avram AVSarlls JEBarnett ASÖzarslan EThomas CIrfanoglu MOHutchinson EPierpaoli CBasser PJ
Neuroimage
2016 Feb 15

The diffusion tensor imaging (DTI) component of the NIH MRI study of normal brain development (PedsDTI).
Walker LChang LCNayak AIrfanoglu MOBotteron KNMcCracken JMcKinstry RCRivkin MJWang DJRumsey JPierpaoli C
Neuroimage
2016 Jan 01

Investigation of vibration-induced artifact in clinical diffusion-weighted imaging of pediatric subjects.
Berl MMWalker LModi PIrfanoglu MOSarlls JENayak APierpaoli C
Hum Brain Mapp
2015 Dec

The DTI Challenge: Toward Standardized Evaluation of Diffusion Tensor Imaging Tractography for Neurosurgery.
Pujol SWells WPierpaoli CBrun CGee JCheng GVemuri BCommowick OPrima SStamm AGoubran MKhan APeters TNeher PMaier-Hein KHShi YTristan-Vega AVeni GWhitaker RStyner MWestin CFGouttard SNorton IChauvin LMamata HGerig GNabavi AGolby AKikinis R
J Neuroimaging
2015

Superficial white matter fiber systems impede detection of long-range cortical connections in diffusion MR tractography.
Reveley CSeth AKPierpaoli CSilva ACYu DSaunders RCLeopold DAYe FQ
Proc Natl Acad Sci U S A
2015 May 26

Diffusion MRI properties of the human uncinate fasciculus correlate with the ability to learn visual associations.
Thomas CAvram APierpaoli CBaker C
Cortex
2015 Nov

Analysis of the contribution of experimental bias, experimental noise, and inter-subject biological variability on the assessment of developmental trajectories in diffusion MRI studies of the brain.
Sadeghi NNayak AWalker LOkan Irfanoglu MAlbert PSPierpaoli C
Neuroimage
2015 Apr 01

DR-BUDDI (Diffeomorphic Registration for Blip-Up blip-Down Diffusion Imaging) method for correcting echo planar imaging distortions.
Irfanoglu MOModi PNayak AHutchinson EBSarlls JPierpaoli C
Neuroimage
2015 Feb 01

Anatomical accuracy of brain connections derived from diffusion MRI tractography is inherently limited.
Thomas CYe FQIrfanoglu MOModi PSaleem KSLeopold DAPierpaoli C
Proc Natl Acad Sci U S A
2014 Nov 18

DR-BUDDI: diffeomorphic registration for blip up-down diffusion imaging.
Irfanoglu MOModi PNayak AKnutsen ASarlls JPierpaoli C
Med Image Comput Comput Assist Interv
2014

Diffusion tensor histogram analysis of pediatric diffuse intrinsic pontine glioma.
Steffen-Smith EASarlls JEPierpaoli CShih JHBent RSWalker LWarren KE
Biomed Res Int
2014

Mean apparent propagator (MAP) MRI: a novel diffusion imaging method for mapping tissue microstructure.
Özarslan EKoay CGShepherd TMKomlosh MEİrfanoğlu MOPierpaoli CBasser PJ
Neuroimage
2013 Sep

A framework for the analysis of phantom data in multicenter diffusion tensor imaging studies.
Walker LCurry MNayak ALange NPierpaoli C
Hum Brain Mapp
2013 Oct

Quantitative brain MRI.
Pierpaoli C
Top Magn Reson Imaging
2010 Apr

In vivo diffusion tensor imaging of the human optic chiasm at sub-millimeter resolution.
Sarlls JEPierpaoli C
Neuroimage
2009 Oct 01

Probabilistic Identification and Estimation of Noise (PIESNO): a self-consistent approach and its applications in MRI.
Koay CGOzarslan EPierpaoli C
J Magn Reson
2009 Jul

T(2) relaxometry of normal pediatric brain development.
Leppert IRAlmli CRMcKinstry RCMulkern RVPierpaoli CRivkin MJPike GB
J Magn Reson Imaging
2009 Feb

Gleaning multicomponent T1 and T2 information from steady-state imaging data.
Deoni SCRutt BKArun TPierpaoli CJones DK
Magn Reson Med
2008 Dec

Diffusion-weighted radial fast spin-echo for high-resolution diffusion tensor imaging at 3T.
Sarlls JEPierpaoli C
Magn Reson Med
2008 Aug

Linear least-squares method for unbiased estimation of T1 from SPGR signals.
Chang LCKoay CGBasser PJPierpaoli C
Magn Reson Med
2008 Aug

The elliptical cone of uncertainty and its normalized measures in diffusion tensor imaging.
Koay CGNevo UChang LCPierpaoli CBasser PJ
IEEE Trans Med Imaging
2008 Jun

Three-dimensional mapping of lingual myoarchitecture by diffusion tensor MRI.
Kim SBarnett ASPierpaoli CChi-Fishman G
NMR Biomed
2008 Jun

Genetic contributions to white matter architecture revealed by diffusion tensor imaging in Williams syndrome.
Marenco SSiuta MAKippenhan JSGrodofsky SChang WLKohn PMervis CBMorris CAWeinberger DRMeyer-Lindenberg APierpaoli CBerman KF
Proc Natl Acad Sci U S A
2007 Sep 18

Error propagation framework for diffusion tensor imaging via diffusion tensor representations.
Koay CGChang LCPierpaoli CBasser PJ
IEEE Trans Med Imaging
2007 Aug

Variance of estimated DTI-derived parameters via first-order perturbation methods.
Chang LCKoay CGPierpaoli CBasser PJ
Magn Reson Med
2007 Jan

A unifying theoretical and algorithmic framework for least squares methods of estimation in diffusion tensor imaging.
Koay CGChang LCCarew JDPierpaoli CBasser PJ
J Magn Reson
2006 Sep

Regional distribution of measurement error in diffusion tensor imaging.
Marenco SRawlings RRohde GKBarnett ASHonea RAPierpaoli CWeinberger DR
Psychiatry Res
2006 Jun 30

Age effects on diffusion tensor magnetic resonance imaging tractography measures of frontal cortex connections in schizophrenia.
Jones DKCatani MPierpaoli CReeves SJShergill SSO'Sullivan MGolesworthy PMcGuire PHorsfield MASimmons AWilliams SCHoward RJ
Hum Brain Mapp
2006 Mar

A diffusion tensor magnetic resonance imaging study of frontal cortex connections in very-late-onset schizophrenia-like psychosis.
Jones DKCatani MPierpaoli CReeves SJShergill SSO'Sullivan MMaguire PHorsfield MASimmons AWilliams SCHoward RJ
Am J Geriatr Psychiatry
2005 Dec

Dependence on diffusion time of apparent diffusion tensor of ex vivo calf tongue and heart.
Kim SChi-Fishman GBarnett ASPierpaoli C
Magn Reson Med
2005 Dec

Estimating intensity variance due to noise in registered images: applications to diffusion tensor MRI.
Rohde GKBarnett ASBasser PJPierpaoli C
Neuroimage
2005 Jul 01

PASTA: pointwise assessment of streamline tractography attributes.
Jones DKTravis AREden GPierpaoli CBasser PJ
Magn Reson Med
2005 Jun

RESTORE: robust estimation of tensors by outlier rejection.
Chang LCJones DKPierpaoli C
Magn Reson Med
2005 May

Confidence mapping in diffusion tensor magnetic resonance imaging tractography using a bootstrap approach.
Jones DKPierpaoli C
Magn Reson Med
2005 May

The future for diffusion tensor imaging in neuropsychiatry.
Taber KHPierpaoli CRose SERugg-Gunn FJChalk JBJones DKHurley RA
J Neuropsychiatry Clin Neurosci
2002