Jeffrey Duda

mybrain3

This was my brain on grad school

I am currently a Research Specialist at Penn working in the  Penn Image Computing & Science Laboratory.  The primary focus of my work is the development of methods for using multivariate neuroimaging data to examine structural and functional networks in the brain in order to learn how their properties relate to behavior.

More info: Google Scholar / Research Gate / Homepage

My work has led to involvement in a number of research projects & topics such as:

This word-cloud from my 2010 doctoral dissertation provides a nice visualization of my interests.

thesiswords

Education

University of Pennsylvania

  • Bioengineering, PhD – 2010

Case Western Reserve University

  • Biomedical Engineering, B.S. – 2000
    • Major Concentration: Computing & Imaging
    • Minor: Studio Art

Previous Institutions

Journal and conference publications

  • B. B. Avants, J. T. Duda, E. Kilroy, K. Krasileva, K. Jann, B. T. Kandel, N. Tustison, L. Yan, M. Jog, R. Smith, Y. Wang, M. Dapretto, and D. J. J. Wang, “The pediatric template of brain perfusion,” Scientific Data, vol. 2, iss. 150003, p. EP -, 2015.
    [Bibtex]
    @ARTICLE{Avants2015SD,
    author = {Avants, Brian B and Duda, Jeffrey T and Kilroy, Emily and Krasileva,
    Kate and Jann, Kay and Kandel, Benjamin T and Tustison, Nicholas
    J and Yan, Lirong and Jog, Mayank and Smith, Robert and Wang, Yi
    and Dapretto, Mirella and Wang, Danny J J},
    title = {{T}he pediatric template of brain perfusion},
    journal = {{S}cientific {D}ata},
    year = {2015},
    volume = {2},
    pages = {EP -},
    number = {150003},
    month = {02},
    abstract = {Magnetic resonance imaging (MRI) captures the dynamics of brain development
    with multiple modalities that quantify both structure and function.
    These measurements may yield valuable insights into the neural patterns
    that mark healthy maturation or that identify early risk for psychiatric
    disorder. The Pediatric Template of Brain Perfusion (PTBP) is a free
    and public neuroimaging resource that will help accelerate the understanding
    of childhood brain development as seen through the lens of multiple
    modality neuroimaging and in relation to cognitive and environmental
    factors. The PTBP uses cross-sectional and longitudinal MRI to quantify
    cortex, white matter, resting state functional connectivity and brain
    perfusion, as measured by Arterial Spin Labeling (ASL), in 120 children
    7–18 years of age. We describe the PTBP and show, as a demonstration
    of validity, that global summary measurements capture the trajectories
    that demarcate critical turning points in brain maturation. This
    novel resource will allow a more detailed understanding of the network-level,
    structural and functional landmarks that are obtained during normal
    adolescent brain development.},
    bdsk-url-1 = {http://dx.doi.org/10.1038/sdata.2015.3},
    date = {2015/02/03/online},
    date-added = {2015-05-08 15:13:03 +0000},
    date-modified = {2015-05-08 15:13:03 +0000},
    day = {03},
    l3 = {10.1038/sdata.2015.3; http://www.nature.com/articles/sdata20153#supplementary-information},
    m3 = {Data Descriptor},
    owner = {jtduda},
    publisher = {Macmillan Publishers Limited SN -},
    timestamp = {2015.05.08},
    ty = {JOUR},
    url = {http://dx.doi.org/10.1038/sdata.2015.3}
    }
  • [DOI] M. Kumar, J. Duda, S. Y. Yoon, J. Bagel, P. O’Donnell, C. Vite, S. Pickup, J. C. Gee, J. W. H. Wolfe, and H. Poptani, “Diffusion Tensor Imaging for Assessing Brain Gray and White Matter Abnormalities in a Feline Model of \alpha-Mannosidosis,” Journal of Neuropathology & Experimental Neurology, 2015.
    [Bibtex]
    @ARTICLE{Kumar2015,
    author = {Kumar, Manoj and Duda, Jeffrey and Yoon, Sea Young and Bagel, Jessica
    and O'Donnell, Patricia and Vite, Charles and Pickup, Stephen and
    Gee, James C. and Wolfe, John H. Wolfe and Poptani, H.Harish},
    title = {{D}iffusion {T}ensor {I}maging for {A}ssessing {B}rain {G}ray and
    {W}hite {M}atter {A}bnormalities in a {F}eline {M}odel of \alpha-{M}annosidosis},
    journal = {{J}ournal of {N}europathology \& {E}xperimental {N}eurology},
    year = {2015},
    doi = {10.1093/jnen/nlv007},
    owner = {jtduda},
    timestamp = {2015.12.16}
    }
  • [DOI] J. T. Duda, P. A. Cook, and J. C. Gee, “Reproducibility of graph metrics of human brain structural networks.,” Front Neuroinform, vol. 8, p. 46, 2014.
    [Bibtex]
    @ARTICLE{Duda2014FNIF,
    author = {Duda, Jeffrey T. and Cook, Philip A. and Gee, James C.},
    title = {{R}eproducibility of graph metrics of human brain structural networks.},
    journal = {{F}ront {N}euroinform},
    year = {2014},
    volume = {8},
    pages = {46},
    abstract = {Recent interest in human brain connectivity has led to the application
    of graph theoretical analysis to human brain structural networks,
    in particular white matter connectivity inferred from diffusion imaging
    and fiber tractography. While these methods have been used to study
    a variety of patient populations, there has been less examination
    of the reproducibility of these methods. A number of tractography
    algorithms exist and many of these are known to be sensitive to user-selected
    parameters. The methods used to derive a connectivity matrix from
    fiber tractography output may also influence the resulting graph
    metrics. Here we examine how these algorithm and parameter choices
    influence the reproducibility of proposed graph metrics on a publicly
    available test-retest dataset consisting of 21 healthy adults. The
    dice coefficient is used to examine topological similarity of constant
    density subgraphs both within and between subjects. Seven graph metrics
    are examined here: mean clustering coefficient, characteristic path
    length, largest connected component size, assortativity, global efficiency,
    local efficiency, and rich club coefficient. The reproducibility
    of these network summary measures is examined using the intraclass
    correlation coefficient (ICC). Graph curves are created by treating
    the graph metrics as functions of a parameter such as graph density.
    Functional data analysis techniques are used to examine differences
    in graph measures that result from the choice of fiber tracking algorithm.
    The graph metrics consistently showed good levels of reproducibility
    as measured with ICC, with the exception of some instability at low
    graph density levels. The global and local efficiency measures were
    the most robust to the choice of fiber tracking algorithm.},
    doi = {10.3389/fninf.2014.00046},
    institution = {{P}enn {I}mage {C}omputing and {S}cience {L}aboratory, {D}epartment
    of {R}adiology, {U}niversity of {P}ennsylvania {P}hiladelphia, {PA},
    {USA}.},
    language = {eng},
    medline-pst = {epublish},
    owner = {jtduda},
    pmid = {24847245},
    timestamp = {2014.05.30},
    url = {http://dx.doi.org/10.3389/fninf.2014.00046}
    }
  • J. T. Duda, J. A. Detre, J. Kim, J. Gee, and B. B. Avants, “Fusing Functional Signals by Sparse Canonical Correlation Analysis Improves Network Reproducibility,” in Medical Image Computing and Computer-Assisted Intervention–MICCAI 2013, Springer, 2013, pp. 635-642.
    [Bibtex]
    @INCOLLECTION{Duda2013,
    author = {Duda, Jeffrey T and Detre, John A and Kim, Junghoon and Gee, James
    C and Avants, Brian B},
    title = {{F}using {F}unctional {S}ignals by {S}parse {C}anonical {C}orrelation
    {A}nalysis {I}mproves {N}etwork {R}eproducibility},
    booktitle = {{M}edical {I}mage {C}omputing and {C}omputer-{A}ssisted {I}ntervention--{MICCAI}
    2013},
    publisher = {Springer},
    year = {2013},
    pages = {635--642},
    owner = {jtduda},
    timestamp = {2013.11.13},
    url = {http://link.springer.com/chapter/10.1007/978-3-642-40760-4_79}
    }
  • G. M. Lawson, J. T. Duda, B. B. Avants, J. Wu, and M. J. Farah, “Associations between children’s socioeconomic status and prefrontal cortical thickness,” Developmental Science, 2013.
    [Bibtex]
    @ARTICLE{Lawson2013,
    author = {Lawson, Gwendolyn M and Duda, Jeffrey T and Avants, Brian B and Wu,
    Jue and Farah, Martha J},
    title = {{A}ssociations between children's socioeconomic status and prefrontal
    cortical thickness},
    journal = {{D}evelopmental {S}cience},
    year = {2013},
    owner = {jtduda},
    publisher = {Wiley Online Library},
    timestamp = {2013.08.09},
    url = {http://onlinelibrary.wiley.com/doi/10.1111/desc.12096/full}
    }
  • [DOI] V. Jain, J. Duda, B. Avants, M. Giannetta, S. X. Xie, T. Roberts, J. A. Detre, H. Hurt, F. W. Wehrli, and D. J. J. Wang, “Longitudinal reproducibility and accuracy of pseudo-continuous arterial spin-labeled perfusion MR imaging in typically developing children.,” Radiology, vol. 263, iss. 2, pp. 527-536, 2012.
    [Bibtex]
    @ARTICLE{Jain2012,
    author = {Jain, Varsha and Duda, Jeffrey and Avants, Brian and Giannetta, Mariel
    and Xie, Sharon X. and Roberts, Timothy and Detre, John A. and Hurt,
    Hallam and Wehrli, Felix W. and Wang, Danny J J.},
    title = {{L}ongitudinal reproducibility and accuracy of pseudo-continuous
    arterial spin-labeled perfusion {MR} imaging in typically developing
    children.},
    journal = {{R}adiology},
    year = {2012},
    volume = {263},
    pages = {527--536},
    number = {2},
    month = {May},
    abstract = {To evaluate the longitudinal repeatability and accuracy of cerebral
    blood flow (CBF) measurements by using pseudo-continuous arterial
    spin-labeled (pCASL) perfusion magnetic resonance (MR) imaging in
    typically developing children.Institutional review board approval
    with HIPAA compliance and informed consent were obtained. Twenty-two
    children aged 7-17 years underwent repeated pCASL examinations 2-4
    weeks apart with a 3-T MR imager, along with in vivo blood T1 and
    arterial transit time measurements. Phase-contrast (PC) MR imaging
    was performed as the reference standard for global blood flow volume.
    Intraclass correlation coefficient (ICC) and within-subject coefficient
    of variation (wsCV) were used to evaluate accuracy and repeatability.The
    accuracy of pCASL against the reference standard of PC MR imaging
    increased on incorporating subjectwise in vivo blood T1 measurement
    (ICC: 0.32 vs 0.58). The ICC further increased to 0.65 by using a
    population-based model of blood T1. Additionally, CBF measurements
    with use of pCASL demonstrated a moderate to good level of longitudinal
    repeatability in whole brain (ICC = 0.61, wsCV = 15\%), in gray matter
    (ICC = 0.65, wsCV = 14\%), and across 16 brain regions (mean ICC
    = 0.55, wsCV = 17\%). The mean arterial transit time was 1538 msec
    ± 123 (standard deviation) in the pediatric cohort studied, which
    showed an increasing trend with age (P = .043).Incorporating developmental
    changes in blood T1 is important for improving the accuracy of pCASL
    CBF measurements in children and adolescents; the noninvasive nature,
    accuracy, and longitudinal repeatability should facilitate the use
    of pCASL perfusion MR imaging in neurodevelopmental studies.},
    doi = {10.1148/radiol.12111509},
    institution = {{D}epartment of {R}adiology and {B}iostatistics, {U}niversity of
    {P}ennsylvania {M}edical {C}enter, {P}hiladelphia, {PA}, {USA}.},
    keywords = {Adolescent; Artifacts; Blood Volume; Brain Mapping, methods; Brain,
    growth /&/ development; Cerebrovascular Circulation; Child; Female;
    Humans; Image Enhancement, methods; Image Processing, Computer-Assisted,
    methods; Magnetic Resonance Imaging, methods; Male; Prospective Studies;
    Reference Values; Reproducibility of Results; Spin Labels},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pii = {263/2/527},
    pmid = {22517961},
    timestamp = {2013.05.31},
    url = {http://dx.doi.org/10.1148/radiol.12111509}
    }
  • [DOI] R. Datta, J. Lee, J. Duda, B. Avants, C. H. Vite, B. Tseng, J. C. Gee, G. D. Aguirre, and G. K. Aguirre, “A digital atlas of the dog brain.,” PLoS One, vol. 7, iss. 12, p. e52140, 2012.
    [Bibtex]
    @ARTICLE{Datta2012,
    author = {Datta, Ritobrato and Lee, Jongho and Duda, Jeffrey and Avants, Brian
    B. and Vite, Charles H. and Tseng, Ben and Gee, James C. and Aguirre,
    Gustavo D. and Aguirre, Geoffrey K.},
    title = {{A} digital atlas of the dog brain.},
    journal = {{PL}o{S} {O}ne},
    year = {2012},
    volume = {7},
    pages = {e52140},
    number = {12},
    abstract = {There is a long history and a growing interest in the canine as a
    subject of study in neuroscience research and in translational neurology.
    In the last few years, anatomical and functional magnetic resonance
    imaging (MRI) studies of awake and anesthetized dogs have been reported.
    Such efforts can be enhanced by a population atlas of canine brain
    anatomy to implement group analyses. Here we present a canine brain
    atlas derived as the diffeomorphic average of a population of fifteen
    mesaticephalic dogs. The atlas includes: 1) A brain template derived
    from in-vivo, T1-weighted imaging at 1 mm isotropic resolution at
    3 Tesla (with and without the soft tissues of the head); 2) A co-registered,
    high-resolution (0.33 mm isotropic) template created from imaging
    of ex-vivo brains at 7 Tesla; 3) A surface representation of the
    gray matter/white matter boundary of the high-resolution atlas (including
    labeling of gyral and sulcal features). The properties of the atlas
    are considered in relation to historical nomenclature and the evolutionary
    taxonomy of the Canini tribe. The atlas is available for download
    (https://cfn.upenn.edu/aguirre/wiki/public:data_plosone_2012_datta).},
    doi = {10.1371/journal.pone.0052140},
    institution = {{D}epartment of {N}eurology, {S}chool of {M}edicine, {U}niversity
    of {P}ennsylvania, {P}hiladelphia, {P}ennsylvania, {USA}.},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pii = {PONE-D-12-25989},
    pmid = {23284904},
    timestamp = {2013.05.31},
    url = {http://dx.doi.org/10.1371/journal.pone.0052140}
    }
  • J. T. Duda, “Characterizing connectivity in brain networks using magnetic resonance imaging,” PhD Thesis, 2010.
    [Bibtex]
    @PHDTHESIS{Duda2010Thesis,
    author = {Duda, Jeffrey T.},
    title = {{C}haracterizing connectivity in brain networks using magnetic resonance
    imaging},
    school = {University of Pennsylvania},
    year = {2010},
    owner = {jtduda},
    timestamp = {2013.06.04},
    url = {http://repository.upenn.edu/dissertations/AAI3447623/}
    }
  • J. T. Duda, C. McMillan, M. Grossman, and J. C. Gee, “Relating structural and functional connectivity to performance in a communication task.,” Med Image Comput Comput Assist Interv, vol. 13, iss. Pt 2, pp. 282-289, 2010.
    [Bibtex]
    @ARTICLE{Duda2010,
    author = {Duda, Jeffrey T. and McMillan, Corey and Grossman, Murray and Gee,
    James C.},
    title = {{R}elating structural and functional connectivity to performance
    in a communication task.},
    journal = {{M}ed {I}mage {C}omput {C}omput {A}ssist {I}nterv},
    year = {2010},
    volume = {13},
    pages = {282--289},
    number = {Pt 2},
    abstract = {Measures from event-related functional MRI, diffusion tensor imaging
    tractography and cognitive performance in a language-based task were
    used to test the hypothesis that both functional and structural connectivity
    provide independent and complementary information that aids in the
    identification of network components most related to the neurobiological
    basis for language and cognitive processing. Structural connectivity
    was measured by averaging fractional anisotropy (FA) over a geometric
    fiber bundle model that projects local white matter properties onto
    a centerline. In the uncinate fasciculus FA was found to predict
    performance on a measure of decision-making regarding homonym meaning.
    Functional synchronization of BOLD fMRI signals between frontal and
    temporal regions connected by the uncinate fasciculus was also found
    to predict the performance measure. Multiple regression analysis
    demonstrated that combining equidimensional measures of functional
    and structural connectivity identified the network components that
    most significantly predict performance.},
    institution = {{D}epartment of {B}ioengineering, {U}niversity of {P}ennsylvania,
    {USA}. jtduda@seas.upenn.edu},
    keywords = {Brain Mapping, methods; Diffusion Tensor Imaging, methods; Humans;
    Image Interpretation, Computer-Assisted, methods; Language; Magnetic
    Resonance Imaging, methods; Neural Pathways, anatomy /&/ histology/physiology;
    Task Performance and Analysis},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pmid = {20879326},
    timestamp = {2013.05.31}
    }
  • [DOI] B. Avants, J. T. Duda, J. Kim, H. Zhang, J. Pluta, J. C. Gee, and J. Whyte, “Multivariate analysis of structural and diffusion imaging in traumatic brain injury.,” Acad Radiol, vol. 15, iss. 11, pp. 1360-1375, 2008.
    [Bibtex]
    @ARTICLE{Avants2008,
    author = {Avants, Brian and Duda, Jeffrey T. and Kim, Junghoon and Zhang, Hui
    and Pluta, John and Gee, James C. and Whyte, John},
    title = {{M}ultivariate analysis of structural and diffusion imaging in traumatic
    brain injury.},
    journal = {{A}cad {R}adiol},
    year = {2008},
    volume = {15},
    pages = {1360--1375},
    number = {11},
    month = {Nov},
    abstract = {Diffusion tensor (DT) and T1 structural magnetic resonance images
    provide unique and complementary tools for quantifying the living
    brain. We leverage both modalities in a diffeomorphic normalization
    method that unifies analysis of clinical datasets in a consistent
    and inherently multivariate (MV) statistical framework. We use this
    technique to study MV effects of traumatic brain injury (TBI).We
    contrast T1 and DT image-based measurements in the thalamus and hippocampus
    of 12 TBI survivors and nine matched controls normalized to a combined
    DT and T1 template space. The normalization method uses maps that
    are topology-preserving and unbiased. Normalization is based on the
    full tensor of information at each voxel and, simultaneously, the
    similarity between high-resolution features derived from T1 data.
    The technique is termed symmetric normalization for MV neuroanatomy
    (SyNMN). Voxel-wise MV statistics on the local volume and mean diffusion
    are assessed with Hotelling's T(2) test with correction for multiple
    comparisons.TBI significantly (false discovery rate P < .05) reduces
    volume and increases mean diffusion at coincident locations in the
    mediodorsal thalamus and anterior hippocampus.SyNMN reveals evidence
    that TBI compromises the limbic system. This TBI morphometry study
    and an additional performance evaluation contrasting SyNMN with other
    methods suggest that the DT component may aid normalization quality.},
    doi = {10.1016/j.acra.2008.07.007},
    institution = {{D}epartment of {R}adiology, {U}niversity of {P}ennsylvania, {P}hiladelphia,
    {PA} 19104, {USA}.},
    keywords = {Adult; Brain Injuries, diagnosis; Brain, pathology; Cohort Studies;
    Diffusion Magnetic Resonance Imaging, methods; Echo-Planar Imaging,
    methods; Female; Hippocampus, pathology; Humans; Image Processing,
    Computer-Assisted, methods; Male; Middle Aged; Multivariate Analysis;
    Thalamus, pathology},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pii = {S1076-6332(08)00395-4},
    pmid = {18995188},
    timestamp = {2013.05.31},
    url = {http://dx.doi.org/10.1016/j.acra.2008.07.007}
    }
  • J. Duda, B. Avants, J. Kim, H. Zhang, S. Patel, J. Whyte, and J. Gee, “Multivariate analysis of thalamo-cortical connectivity loss in TBI,” in Computer Vision and Pattern Recognition Workshops, 2008. CVPRW’08. IEEE Computer Society Conference on, 2008, pp. 1-8.
    [Bibtex]
    @INPROCEEDINGS{Duda2008,
    author = {Duda, Jeffrey and Avants, Brian and Kim, Junghoon and Zhang, Hui
    and Patel, Sunil and Whyte, John and Gee, James},
    title = {{M}ultivariate analysis of thalamo-cortical connectivity loss in
    {TBI}},
    booktitle = {{C}omputer {V}ision and {P}attern {R}ecognition {W}orkshops, 2008.
    {CVPRW}'08. {IEEE} {C}omputer {S}ociety {C}onference on},
    year = {2008},
    pages = {1--8},
    organization = {IEEE},
    owner = {jtduda},
    timestamp = {2013.05.31},
    url = {http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=4562992}
    }
  • J. T. Duda, B. B. Avants, J. C. Asmuth, H. Zhang, M. Grossman, and J. C. Gee, “A fiber tractography based examination of neurodegeneration on language-network neuroanatomy,” in Workshop on Computational Diffusion MRI, Medical Image Computing and Computer-Assisted Intervention, 2008, pp. 191-198.
    [Bibtex]
    @INPROCEEDINGS{Duda2008a,
    author = {Duda, Jeffrey T and Avants, Brian B and Asmuth, Jane C and Zhang,
    Hui and Grossman, Murray and Gee, James C},
    title = {{A} fiber tractography based examination of neurodegeneration on
    language-network neuroanatomy},
    booktitle = {{W}orkshop on {C}omputational {D}iffusion {MRI}, {M}edical {I}mage
    {C}omputing and {C}omputer-{A}ssisted {I}ntervention},
    year = {2008},
    pages = {191--198},
    owner = {jtduda},
    timestamp = {2013.05.31}
    }
  • [DOI] H. Sun, P. A. Yushkevich, H. Zhang, P. Cook, J. T. Duda, T. J. Simon, and J. C. Gee, “Shape-based normalization of the corpus callosum for DTI connectivity analysis.,” IEEE Trans Med Imaging, vol. 26, iss. 9, pp. 1166-1178, 2007.
    [Bibtex]
    @ARTICLE{Sun2007ITMI,
    author = {Sun, Hui and Yushkevich, Paul A. and Zhang, Hui and Cook, Philip
    A. and Duda, Jeffrey T. and Simon, Tony J. and Gee, James C.},
    title = {{S}hape-based normalization of the corpus callosum for {DTI} connectivity
    analysis.},
    journal = {{IEEE} {T}rans {M}ed {I}maging},
    year = {2007},
    volume = {26},
    pages = {1166--1178},
    number = {9},
    month = {Sep},
    abstract = {The continuous medial representation (cm-rep) is an approach that
    makes it possible to model, normalize, and analyze anatomical structures
    on the basis of medial geometry. Having recently presented a partial
    differential equation (PDE)-based approach for 3-D cm-rep modeling
    [1], here we present an equivalent 2-D approach that involves solving
    an ordinary differential equation. This paper derives a closed form
    solution of this equation and shows how Pythagorean hodograph curves
    can be used to express the solution as a piecewise polynomial function,
    allowing efficient and robust medial modeling. The utility of the
    approach in medical image analysis is demonstrated by applying it
    to the problem of shape-based normalization of the midsagittal section
    of the corpus callosum. Using diffusion tensor tractography, we show
    that shape-based normalization aligns subregions of the corpus callosum,
    defined by connectivity, more accurately than normalization based
    on volumetric registration. Furthermore, shape-based normalization
    helps increase the statistical power of group analysis in an experiment
    where features derived from diffusion tensor tractography are compared
    between two cohorts. These results suggest that cm-rep is an appropriate
    tool for normalizing the corpus callosum in white matter studies.},
    doi = {10.1109/TMI.2007.900322},
    institution = {{P}enn {I}mage {C}omputing and {S}cience {L}aboratory, {D}epartment
    of {R}adiology, {U}niversity of {P}ennsylvania, {P}hiladelphia, {PA}
    19104, {USA} . sunhui@seas.upenn.edu},
    keywords = {Agenesis of Corpus Callosum; Algorithms; Artificial Intelligence;
    Child; Computer Simulation; Corpus Callosum, pathology; Diffusion
    Magnetic Resonance Imaging, methods; Humans; Image Enhancement, methods;
    Image Interpretation, Computer-Assisted, methods; Imaging, Three-Dimensional,
    methods; Models, Neurological; Models, Statistical; Nerve Fibers,
    Myelinated, pathology; Pattern Recognition, Automated, methods; Reproducibility
    of Results; Sensitivity and Specificity; Subtraction Technique},
    language = {eng},
    medline-pst = {ppublish},
    owner = {pcook},
    pmid = {17896590},
    timestamp = {2013.02.19},
    url = {http://dx.doi.org/10.1109/TMI.2007.900322}
    }
  • J. T. Duda, H. Sun, G. H. Zhang, T. J. Simon, and J. C. Gee, “Fiber statistics in the corpus callosum,” in Proceedings 14th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Berlin, 2007, p. 5760.
    [Bibtex]
    @INPROCEEDINGS{Duda2007ISMRM,
    author = {Duda, Jeffrey T. and Sun, Hui and Zhang, Gary H and Simon, Tony J
    and Gee, James C.},
    title = {{F}iber statistics in the corpus callosum},
    booktitle = {{P}roceedings 14th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {B}erlin},
    year = {2007},
    pages = {5760},
    keywords = {Berlin5760}
    }
  • H. Sun, P. A. Yushkevich, H. Zhang, P. Cook, J. T. Duda, T. J. Simon, and J. C. Gee, “Evaluation of shape-based normalization in the corpus callosum for white matter connectivity analysis.,” Med Image Comput Comput Assist Interv, vol. 10, iss. Pt 2, pp. 777-784, 2007.
    [Bibtex]
    @ARTICLE{Sun2007MICCAI,
    author = {Sun, Hui and Yushkevich, Paul A. and Zhang, Hui and Cook, Philip
    A. and Duda, Jeffrey T. and Simon, Tony J. and Gee, James C.},
    title = {{E}valuation of shape-based normalization in the corpus callosum
    for white matter connectivity analysis.},
    journal = {{M}ed {I}mage {C}omput {C}omput {A}ssist {I}nterv},
    year = {2007},
    volume = {10},
    pages = {777--784},
    number = {Pt 2},
    abstract = {Recently, concerns have been raised that the correspondences computed
    by volumetric registration within homogeneous structures are primarily
    driven by regularization priors that differ among algorithms. This
    paper explores the correspondence based on geometric models for one
    of those structures, midsagittal section of the corpus callosum (MSCC),
    and compared the result with registration paradigms. We use geometric
    model called continuous medial representation (cm-rep) to normalize
    anatomical structures on the basis of medial geometry, and use features
    derived from diffusion tensor tractography for validation. We show
    that shape-based normalization aligns subregions of the MSCC, defined
    by connectivity, more accurately than normalization based on volumetric
    registration. Furthermore, shape-based normalization helps increase
    the statistical power of group analysis in an experiment where features
    derived from diffusion tensor tractography are compared between two
    cohorts. These results suggest that cm-rep is an appropriate tool
    for normalizing the MSCC in white matter studies.},
    institution = {{P}enn {I}mage {C}omputing and {S}cience {L}aboratory, {D}epartment
    of {R}adiology, {U}niversity of {P}ennsylvania, {P}hiladelphia, {USA}.},
    keywords = {Algorithms; Artificial Intelligence; Chromosome Disorders, pathology;
    Computer Simulation; Corpus Callosum, pathology; Diffusion Magnetic
    Resonance Imaging, methods; Humans; Image Interpretation, Computer-Assisted,
    methods; Imaging, Three-Dimensional, methods; Models, Neurological;
    Models, Statistical; Nerve Fibers, Myelinated, pathology; Pattern
    Recognition, Automated, methods; Reproducibility of Results; Sensitivity
    and Specificity; Subtraction Technique},
    language = {eng},
    medline-pst = {ppublish},
    owner = {pcook},
    pmid = {18044639},
    timestamp = {2013.02.19}
    }
  • B. B. Avants, J. T. Duda, H. Zhang, and J. C. Gee, “Multivariate normalization with symmetric diffeomorphisms for multivariate studies.,” Med Image Comput Comput Assist Interv, vol. 10, iss. Pt 1, pp. 359-366, 2007.
    [Bibtex]
    @ARTICLE{Avants2007,
    author = {Avants, B. B. and Duda, J. T. and Zhang, H. and Gee, J. C.},
    title = {{M}ultivariate normalization with symmetric diffeomorphisms for multivariate
    studies.},
    journal = {{M}ed {I}mage {C}omput {C}omput {A}ssist {I}nterv},
    year = {2007},
    volume = {10},
    pages = {359--366},
    number = {Pt 1},
    abstract = {Current clinical and research neuroimaging protocols acquire images
    using multiple modalities, for instance, T1, T2, diffusion tensor
    and cerebral blood flow magnetic resonance images (MRI). These multivariate
    datasets provide unique and often complementary anatomical and physiological
    information about the subject of interest. We present a method that
    uses fused multiple modality (scalar and tensor) datasets to perform
    intersubject spatial normalization. Our multivariate approach has
    the potential to eliminate inconsistencies that occur when normalization
    is performed on each modality separately. Furthermore, the multivariate
    approach uses a much richer anatomical and physiological image signature
    to infer image correspondences and perform multivariate statistical
    tests. In this initial study, we develop the theory for Multivariate
    Symmetric Normalization (MVSyN), establish its feasibility and discuss
    preliminary results on a multivariate statistical study of 22q deletion
    syndrome.},
    institution = {{P}enn {I}mage {C}omputing and {S}cience {L}aboratory, {U}niversity
    of {P}ennsylvania, {P}hiladelphia, {PA} 19104-6389, {USA}. avants@grasp.cis.upenn.edu},
    keywords = {Adult; Algorithms; Artificial Intelligence; Brain, pathology; Demyelinating
    Diseases, diagnosis; DiGeorge Syndrome, diagnosis; Diffusion Magnetic
    Resonance Imaging, methods; Humans; Image Enhancement, methods; Image
    Interpretation, Computer-Assisted, methods; Imaging, Three-Dimensional,
    methods; Multivariate Analysis; Pattern Recognition, Automated, methods;
    Reproducibility of Results; Sensitivity and Specificity; Subtraction
    Technique},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pmid = {18051079},
    timestamp = {2013.05.31}
    }
  • J. C. Gee, H. Zhang, A. Dubb, B. B. Avants, P. A. Yushkevich, and J. T. Duda, “Anatomy-based visualizations of diffusion tensor images of brain white matter,” in Visualization and Processing of Tensor Fields, Springer, 2006, pp. 155-163.
    [Bibtex]
    @INCOLLECTION{Gee2006,
    author = {Gee, James C and Zhang, Hui and Dubb, Abraham and Avants, Brian B
    and Yushkevich, Paul A and Duda, Jeffrey T},
    title = {{A}natomy-based visualizations of diffusion tensor images of brain
    white matter},
    booktitle = {{V}isualization and {P}rocessing of {T}ensor {F}ields},
    publisher = {Springer},
    year = {2006},
    pages = {155--163},
    owner = {jtduda},
    timestamp = {2013.05.31},
    url = {http://link.springer.com/chapter/10.1007/3-540-31272-2_8}
    }
  • [DOI] E. D. Schwartz, J. Duda, J. S. Shumsky, E. T. Cooper, and J. Gee, “Spinal cord diffusion tensor imaging and fiber tracking can identify white matter tract disruption and glial scar orientation following lateral funiculotomy.,” J Neurotrauma, vol. 22, iss. 12, pp. 1388-1398, 2005.
    [Bibtex]
    @ARTICLE{Schwartz2005,
    author = {Schwartz, Eric D. and Duda, Jeffrey and Shumsky, Jed S. and Cooper,
    Emily T. and Gee, James},
    title = {{S}pinal cord diffusion tensor imaging and fiber tracking can identify
    white matter tract disruption and glial scar orientation following
    lateral funiculotomy.},
    journal = {{J} {N}eurotrauma},
    year = {2005},
    volume = {22},
    pages = {1388--1398},
    number = {12},
    month = {Dec},
    abstract = {Diffusion tensor magnetic resonance imaging (DTI) provides data concerning
    water diffusion in the spinal cord, from which white matter tracts
    may be inferred, and connectivity between spinal cord segments may
    be determined. We evaluated this potential application by imaging
    spinal cords from normal adult rats and rats that received cervical
    lateral funiculotomies, disrupting the rubrospinal tract (RST). Vitrogen
    and fibroblasts were transplanted into the surgical lesion at time
    of injury in order to fill the cavity. At 10 weeks, animals were
    sacrificed; the spinal cords were dissected out and then imaged in
    a 9.4-Tesla magnet. DTI tractography demonstrated the disruption
    of the rubrospinal tract axons while indicating which axon tracts
    were preserved. Additionally, DTI imaging could identify the orientation
    of glial processes in the gray matter adjacent to the site of injury.
    In the injured animals, reactive astrocytes in adjacent gray matter
    appeared to orient themselves perpendicular to white matter tracts.
    In summary, DTI identified not only white matter disruption following
    injury, but could distinguish the orientation of the accompanying
    glial scar.},
    doi = {10.1089/neu.2005.22.1388},
    institution = {{D}epartment of {R}adiology, {U}niversity of {P}ennsylvania {S}chool
    of {M}edicine, 1 {S}ilverstein, 3400 {S}pruce {S}treet, {P}hiladelphia,
    {PA} 19104, {USA}. {E}ric.{S}chwartz@uphs.upenn.edu},
    keywords = {Animals; Anisotropy; Axotomy; Diffusion Magnetic Resonance Imaging;
    Female; Neuroglia, pathology; Rats; Rats, Sprague-Dawley; Spinal
    Cord Injuries, pathology; Spinocerebellar Tracts, pathology},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pmid = {16379577},
    timestamp = {2013.05.31},
    url = {http://dx.doi.org/10.1089/neu.2005.22.1388}
    }
  • J. T. Duda, M. Rivera, D. C. Alexander, and J. C. Gee, “A method for non-rigid registration of diffusion tensor magnetic resonance images,” in Medical Imaging 2003, 2003, pp. 1186-1196.
    [Bibtex]
    @INPROCEEDINGS{Duda2003,
    author = {Duda, Jeffrey T and Rivera, Mariano and Alexander, Daniel C and Gee,
    James C},
    title = {{A} method for non-rigid registration of diffusion tensor magnetic
    resonance images},
    booktitle = {{M}edical {I}maging 2003},
    year = {2003},
    pages = {1186--1196},
    organization = {International Society for Optics and Photonics},
    owner = {jtduda},
    timestamp = {2013.05.31},
    url = {http://proceedings.spiedigitallibrary.org/proceeding.aspx?articleid=758229}
    }
  • J. Duda, H. K. Song, R. Wolf, A. Wright, J. C. Gee, and F. W. Wehrli, “Method for quantitative assessment of atherosclerotic lesion burden on the basis of high-resolution black-blood MRI,” in Medical Imaging 2002, 2002, pp. 1798-1806.
    [Bibtex]
    @INPROCEEDINGS{Duda2002,
    author = {Duda, Jeffrey and Song, Hee K and Wolf, Ronald and Wright, Alex and
    Gee, James C and Wehrli, Felix W},
    title = {{M}ethod for quantitative assessment of atherosclerotic lesion burden
    on the basis of high-resolution black-blood {MRI}},
    booktitle = {{M}edical {I}maging 2002},
    year = {2002},
    pages = {1798--1806},
    organization = {International Society for Optics and Photonics},
    owner = {jtduda},
    timestamp = {2013.05.31},
    url = {http://proceedings.spiedigitallibrary.org/proceeding.aspx?articleid=880226}
    }
  • B. Diehl, I. Najm, P. Ruggieri, J. Tkach, A. Mohamed, H. Morris, E. Wyllie, E. Fisher, J. Duda, M. Lieber, W. Bingaman, and H. O. Lüders, “Postictal diffusion-weighted imaging for the localization of focal epileptic areas in temporal lobe epilepsy.,” Epilepsia, vol. 42, iss. 1, pp. 21-28, 2001.
    [Bibtex]
    @ARTICLE{Diehl2001,
    author = {Diehl, B. and Najm, I. and Ruggieri, P. and Tkach, J. and Mohamed,
    A. and Morris, H. and Wyllie, E. and Fisher, E. and Duda, J. and
    Lieber, M. and Bingaman, W. and Lüders, H. O.},
    title = {{P}ostictal diffusion-weighted imaging for the localization of focal
    epileptic areas in temporal lobe epilepsy.},
    journal = {{E}pilepsia},
    year = {2001},
    volume = {42},
    pages = {21--28},
    number = {1},
    month = {Jan},
    abstract = {Diffusion-weighted MR imaging (DWI) is a novel technique to delineate
    focal areas of cytotoxic edema of various etiologies. We hypothesized
    that DWI may also detect the epileptogenic region and adjacent areas
    during the ictal and early postictal periods in patients with temporal
    lobe epilepsy (TLE).We studied patients with intractable TLE (n =
    9), due to hippocampal sclerosis (HS, n = 7), left mesial temporal
    lobe tumor (n = 1), and of unknown etiology (n = 1). Informed consent
    was obtained before inclusion in the study. All patients with single
    short seizures were scanned immediately after EEG-documented seizures
    (between 45 and 150 min); one of two patients in status was scanned
    14 h after cessation of seizures. DWI results were analyzed visually
    and by calculating apparent diffusion coefficient (ADC) maps.We found
    significant decreases in ADC postictally in one of six patients with
    TLE due to HS and single short seizures. One patient with an incompletely
    resected temporal lobe tumor also exhibited ADC abnormalities. One
    patient in focal status epilepticus revealed a decrease in ADC, and
    one patient with a continuous aura had no DWI abnormality.Postictal
    DWI technique may occasionally help delineate epileptic areas in
    some patients with TLE. Yield is low in patients with HS and single
    short seizures: it may be higher in patients with tumor or status
    epilepticus.},
    institution = {{D}epartment of {N}eurology, {T}he {C}leveland {C}linic {F}oundation,
    9500 {E}uclid {A}ve., {C}leveland, {O}hio 44195, {U}.{S}.{A}. diehlb@ccf.org},
    keywords = {Adolescent; Adult; Body Water, metabolism; Brain, metabolism; Diffusion;
    Electroencephalography, statistics /&/ numerical data; Epilepsy,
    Temporal Lobe, diagnosis/metabolism/physiopathology; Female; Hippocampus,
    metabolism/pathology; Humans; Magnetic Resonance Imaging, methods;
    Male; Middle Aged; Sclerosis, metabolism; Temporal Lobe, metabolism/physiopathology},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pii = {epi19500},
    pmid = {11207781},
    timestamp = {2013.05.31}
    }
  • R. A. Rudick, E. Fisher, J. C. Lee, J. T. Duda, and J. Simon, “Brain atrophy in relapsing multiple sclerosis: relationship to relapses, EDSS, and treatment with interferon beta-1a.,” Mult Scler, vol. 6, iss. 6, pp. 365-372, 2000.
    [Bibtex]
    @ARTICLE{Rudick2000,
    author = {Rudick, R. A. and Fisher, E. and Lee, J. C. and Duda, J. T. and Simon,
    J.},
    title = {{B}rain atrophy in relapsing multiple sclerosis: relationship to
    relapses, {EDSS}, and treatment with interferon beta-1a.},
    journal = {{M}ult {S}cler},
    year = {2000},
    volume = {6},
    pages = {365--372},
    number = {6},
    month = {Dec},
    abstract = {Brain atrophy is a relevant surrogate marker of the disease process
    in multiple sclerosis (MS) because it represents the net effect of
    various pathological processes leading to brain tissue loss. There
    are various approaches to quantifying central nervous system atrophy
    in MS. We have focused on a normalized measure of whole brain atrophy,
    the brain parenchymal fraction (BPF). BPF is defined as the brain
    parenchymal volume, divided by the volume within the surface of the
    brain. We applied this method to an MRI data set generated during
    a phase III clinical trial of interferon beta-1a (AVONEX). The purpose
    of the current study is to further explore clinical and MRI correlates
    of the BPF, particularly as they relate to relapse rate and Kurtzke's
    Expanded Disability Status Score (EDSS); and to further explore the
    therapeutic effects observed in interferon beta-1a recipients. Of
    all demographic and disease measures in the clinical trial data base,
    T2 lesion volume most closely correlated with BPF in cross sectional
    studies, and was the baseline factor most closely correlated with
    progressive brain atrophy in the subsequent 2 years. We also observed
    that change in T2 lesion volume was the disease measure most closely
    correlated with change in BPF during 2 years of observation. Of interest,
    relapse number and EDSS change during 2 years were only weakly correlated
    with BPF change during the same period. Disability progression, defined
    as sustained worsening of at least 1.0 EDSS points from baseline,
    persisting at least 6 months, was associated with significantly greater
    brain atrophy progression. We observed a therapeutic effect of interferon
    beta-1a in the second year of the clinical trial, and this beneficial
    effect was not accounted for by change in gadolinium enhanced lesion
    volume, or by corticosteroid medication within 40 days of the final
    MRI scan. The BPF is an informative surrogate marker for destructive
    pathological processes in relaping MS patients, and is useful in
    demonstrating treatment effects in controlled clinical trials. The
    significance of progressive brain atrophy during relapsing MS will
    be assessed by measuring clinical and MRI changes in prospective
    follow up studies.},
    institution = {{D}epartment of {N}eurology, {M}ellon {C}enter, {T}he {C}leveland
    {C}linic {F}oundation, {O}hio 44195, {USA}.},
    keywords = {Adjuvants, Immunologic, therapeutic use; Adult; Atrophy; Brain, drug
    effects/pathology/physiopathology; Clinical Trials, Phase III as
    Topic; Cohort Studies; Disability Evaluation; Follow-Up Studies;
    Humans; Interferon-beta, therapeutic use; Magnetic Resonance Imaging;
    Multicenter Studies as Topic; Multiple Sclerosis, Relapsing-Remitting,
    drug therapy/pathology/physiopathology; Prospective Studies; Randomized
    Controlled Trials as Topic; Treatment Outcome},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pmid = {11212130},
    timestamp = {2013.05.31}
    }
  • P. J. Basser, S. Pajevic, C. Pierpaoli, J. Duda, and A. Aldroubi, “In vivo fiber tractography using DT-MRI data.,” Magn Reson Med, vol. 44, iss. 4, pp. 625-632, 2000.
    [Bibtex]
    @ARTICLE{Basser2000,
    author = {Basser, P. J. and Pajevic, S. and Pierpaoli, C. and Duda, J. and
    Aldroubi, A.},
    title = {{I}n vivo fiber tractography using {DT}-{MRI} data.},
    journal = {{M}agn {R}eson {M}ed},
    year = {2000},
    volume = {44},
    pages = {625--632},
    number = {4},
    month = {Oct},
    abstract = {Fiber tract trajectories in coherently organized brain white matter
    pathways were computed from in vivo diffusion tensor magnetic resonance
    imaging (DT-MRI) data. First, a continuous diffusion tensor field
    is constructed from this discrete, noisy, measured DT-MRI data. Then
    a Frenet equation, describing the evolution of a fiber tract, was
    solved. This approach was validated using synthesized, noisy DT-MRI
    data. Corpus callosum and pyramidal tract trajectories were constructed
    and found to be consistent with known anatomy. The method's reliability,
    however, degrades where the distribution of fiber tract directions
    is nonuniform. Moreover, background noise in diffusion-weighted MRIs
    can cause a computed trajectory to hop from tract to tract. Still,
    this method can provide quantitative information with which to visualize
    and study connectivity and continuity of neural pathways in the central
    and peripheral nervous systems in vivo, and holds promise for elucidating
    architectural features in other fibrous tissues and ordered media.},
    institution = {{S}ection on {T}issue {B}iophysics and {B}iomimetics, {NICHD}, {B}ethesda,
    {M}aryland 20892-5772, {USA}. pjbasser@helix.nih.gov},
    keywords = {Artifacts; Brain, anatomy /&/ histology; Humans; Image Processing,
    Computer-Assisted; Magnetic Resonance Imaging, methods; Nerve Fibers},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pii = {3.0.CO;2-O},
    pmid = {11025519},
    timestamp = {2013.05.31}
    }
  • B. Diehl, I. Najm, P. Ruggieri, N. Foldvary, A. Mohamed, J. Tkach, H. Morris, G. Barnett, E. Fisher, J. Duda, and H. O. Lüders, “Periictal diffusion-weighted imaging in a case of lesional epilepsy.,” Epilepsia, vol. 40, iss. 11, pp. 1667-1671, 1999.
    [Bibtex]
    @ARTICLE{Diehl1999,
    author = {Diehl, B. and Najm, I. and Ruggieri, P. and Foldvary, N. and Mohamed,
    A. and Tkach, J. and Morris, H. and Barnett, G. and Fisher, E. and
    Duda, J. and Lüders, H. O.},
    title = {{P}eriictal diffusion-weighted imaging in a case of lesional epilepsy.},
    journal = {{E}pilepsia},
    year = {1999},
    volume = {40},
    pages = {1667--1671},
    number = {11},
    month = {Nov},
    abstract = {Diffusion-weighted MR imaging (DWI) has been used for the early diagnosis
    of acute ischemic lesions in humans and in animal models of focal
    status epilepticus. We hypothesized that DWI may be a sensitive,
    noninvasive tool for the localization of the epileptogenic area during
    the periictal period.A periictal DWI study was performed on a 35-year-old
    patient during focal status epilepticus with repetitive prolonged
    focal motor seizures originating from a lesion in the right frontal
    lobe. DWI results were analyzed visually and by calculating apparent
    diffusion coefficient (ADC) maps.On DWI, a single area of signal
    increase (decrease in ADC) was found in the region of focal electrocorticographic
    seizures that was mapped intraoperatively.Ictal/postictal DWI may
    be a useful technique for seizure localization in patients with lesional
    epilepsy.},
    institution = {{D}epartment of {N}eurology, {T}he {C}leveland {C}linic {F}oundation,
    {O}hio, {USA}. diehlb@ccf.org},
    keywords = {Adult; Brain Neoplasms, diagnosis/pathology/surgery; Echo-Planar Imaging,
    methods/statistics /&/ numerical data; Electroencephalography, statistics
    /&/ numerical data; Epilepsies, Partial, diagnosis/pathology/surgery;
    Female; Frontal Lobe, pathology/surgery; Glioma, diagnosis/pathology/surgery;
    Humans},
    language = {eng},
    medline-pst = {ppublish},
    owner = {jtduda},
    pmid = {10565599},
    timestamp = {2013.05.31}
    }

Short conference papers and abstracts

  • J. T. Duda, E. Kilroy, J. C. Gee, D. Wang, and B. B. Avants, “Examining the relationship between cerebral blood flow and grey matter structure in typically developing children,” in Proceedings 21th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Salt Lake City, 2013, p. 6702.
    [Bibtex]
    @INPROCEEDINGS{Duda2013ISMRM,
    author = {Duda, Jeffrey T. and Kilroy, Emily and Gee, James C. and Wang, Danny
    and Avants, Brian B.},
    title = {{E}xamining the relationship between cerebral blood flow and grey
    matter structure in typically developing children},
    booktitle = {{P}roceedings 21th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {S}alt {L}ake {C}ity},
    year = {2013},
    pages = {6702},
    keywords = {SaltLakeCity6702}
    }
  • J. T. Duda, D. J. J. Wang, E. Kilroy, J. C. Gee, and B. B. Avants, “Relating cerebral blood flow to structural and functional metrics in typically developing children,” in Proceedings of Perfusion MRI: Standardization, Beyond CBF and Everyday Clinical Applications, International Society for Magnetic Resonance in Medicine Scientific Workshop, Amsterdam, 2012, p. 40.
    [Bibtex]
    @INPROCEEDINGS{Duda2012ISMRMASL,
    author = {Duda, Jeffrey T. and Wang, Danny J.J. and Kilroy, Emily and Gee,
    James C. and Avants, Brian B.},
    title = {{R}elating cerebral blood flow to structural and functional metrics
    in typically developing children},
    booktitle = {{P}roceedings of {P}erfusion {MRI}: {S}tandardization, {B}eyond {CBF}
    and {E}veryday {C}linical {A}pplications, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine {S}cientific {W}orkshop,
    {A}msterdam},
    year = {2012},
    pages = {40}
    }
  • J. T. Duda, H. Sun, G. H. Zhang, T. J. Simon, and J. C. Gee, “Fiber statistics in the corpus callosum,” in Proceedings 14th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Berlin, 2007, p. 5760.
    [Bibtex]
    @INPROCEEDINGS{Duda2007ISMRM,
    author = {Duda, Jeffrey T. and Sun, Hui and Zhang, Gary H and Simon, Tony J
    and Gee, James C.},
    title = {{F}iber statistics in the corpus callosum},
    booktitle = {{P}roceedings 14th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {B}erlin},
    year = {2007},
    pages = {5760},
    keywords = {Berlin5760}
    }
  • J. T. Duda, G. H. Zhang, T. J. Simon, and J. Gee, “Fiber tract based interrogation of white matter,” in Proceedings 13th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Seattle, 2006, p. 2745.
    [Bibtex]
    @INPROCEEDINGS{Duda2006ISMRM,
    author = {Duda, Jeffrey T. and Zhang, Gary H and Simon, Tony J and Gee, James
    C.},
    title = {{F}iber tract based interrogation of white matter},
    booktitle = {{P}roceedings 13th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {S}eattle},
    year = {2006},
    pages = {2745},
    keywords = {Seattle2745},
    url = {http://cds.ismrm.org/ismrm-2006/files/02745.pdf}
    }
  • J. T. Duda, B. B. Avants, and J. C. Gee, “Examining tissue micro-architecture via interrogation of diffusion tensor fiber tractography,” in Proceedings 12th Annual Meeting of the Organization for Human Brain Mapping, Florence, 2006.
    [Bibtex]
    @INPROCEEDINGS{Duda2006HBMb,
    author = {Duda, Jeffrey T. and Avants, Brian B. and Gee, James C.},
    title = {{E}xamining tissue micro-architecture via interrogation of diffusion
    tensor fiber tractography},
    booktitle = {{P}roceedings 12th {A}nnual {M}eeting of the {O}rganization for {H}uman
    {B}rain {M}apping, {F}lorence},
    year = {2006}
    }
  • J. T. Duda, B. B. Avants, and J. C. Gee, “A Tool for the quantitative comparison of fiber tractography,” in Proceedings 12th Annual Meeting of the Organization for Human Brain Mapping, Florence, 2006.
    [Bibtex]
    @INPROCEEDINGS{Duda2006HBMa,
    author = {Duda, Jeffrey T. and Avants, Brian B. and Gee, James C.},
    title = {{A} {T}ool for the quantitative comparison of fiber tractography},
    booktitle = {{P}roceedings 12th {A}nnual {M}eeting of the {O}rganization for {H}uman
    {B}rain {M}apping, {F}lorence},
    year = {2006}
    }
  • B. B. Avants, S. K. Lakshmikanth, J. Duda, J. A. Detre, and M. Grossman, “Robust cerebral blood flow reconstruction from perfusion imaging with an open-source, multi-platform toolkit,” in Proceedings of Perfusion MRI: Standardization, Beyond CBF and Everyday Clinical Applications, International Society for Magnetic Resonance in Medicine Scientific Workshop, Amsterdam, 2006, p. 21.
    [Bibtex]
    @INPROCEEDINGS{Avants2012ISMRMASL,
    author = {Avants, Brian B. and Lakshmikanth, Shrinidhi K. and Duda, Jeffrey
    T. and Detre, John A. and Grossman, Murray},
    title = {{R}obust cerebral blood flow reconstruction from perfusion imaging
    with an open-source, multi-platform toolkit},
    booktitle = {{P}roceedings of {P}erfusion {MRI}: {S}tandardization, {B}eyond {CBF}
    and {E}veryday {C}linical {A}pplications, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine {S}cientific {W}orkshop,
    {A}msterdam},
    year = {2006},
    pages = {21}
    }
  • R. Wolf, J. T. Duda, H. K. Song, A. Wright, P. K. Saha, E. Mohler, and F. W. Wehrli, “Semi-automatic analysis of atherosclerotic lesion burden using an ellipse-fitting and histogram based thresholding method,” in Proceedings 10th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Honolulu, 2002, p. 1569.
    [Bibtex]
    @INPROCEEDINGS{Wolf2002ISMRM,
    author = {Wolf, Ronald and Duda, Jeffrey T. and Song, Hee K. and Wright, Alexander
    C. and Saha, P.K and Mohler, E. and Wehrli, Felix W.},
    title = {{S}emi-automatic analysis of atherosclerotic lesion burden using
    an ellipse-fitting and histogram based thresholding method},
    booktitle = {{P}roceedings 10th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {H}onolulu},
    year = {2002},
    pages = {1569},
    keywords = {Honolulu1569},
    url = {http://cds.ismrm.org/ismrm-2002/PDF6/1569.PDF}
    }
  • J. C. Gee, D. C. Alexander, M. Rivera, and J. T. Duda, “Non-rigid registration of diffusion tensor MR images,” in Proceedings IEEE International Symposim on Biomedical Imaging, 2002.
    [Bibtex]
    @INPROCEEDINGS{Gee2002IEEE,
    author = {Gee, James C. and Alexander, Daniel C. and Rivera, Mariano and Duda,
    Jeffrey T.},
    title = {{N}on-rigid registration of diffusion tensor {MR} images},
    booktitle = {{P}roceedings {IEEE} {I}nternational {S}ymposim on {B}iomedical {I}maging},
    year = {2002},
    location = {Piscataway}
    }
  • P. J. Basser, S. Pajevic, C. Peirpaoli, A. Aldroubi, and J. T. Duda, “Fiber-tractography in human brain using diffusion tensor MRI DT-MRI,,” in Proceedings 8th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Denver, 2000, p. 784.
    [Bibtex]
    @INPROCEEDINGS{Basser2000ISMRM,
    author = {Basser, Peter J. and Pajevic, Sini and Peirpaoli, Carlo and Aldroubi,
    Akram and Duda, Jeffrey T.},
    title = {{F}iber-tractography in human brain using diffusion tensor {MRI}
    {DT}-{MRI},},
    booktitle = {{P}roceedings 8th {S}cientific {M}eeting, {I}nternational {S}ociety
    for {M}agnetic {R}esonance in {M}edicine, {D}enver},
    year = {2000},
    pages = {784},
    keywords = {Denver784},
    url = {http://cds.ismrm.org/ismrm-2000/PDF3/0784.pdf}
    }