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Research Output 2000 2020

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2020

Bayesian inference of a directional brain network model for intracranial EEG data

Zhang, T., Sun, Y., Li, H., Yan, G., Tanabe, S., Miao, R., Wang, Y., Caffo, B. S. & Quigg, M. S., Apr 2020, In : Computational Statistics and Data Analysis. 144, 106847.

Research output: Contribution to journalArticle

Bayesian inference
Electroencephalography
Network Model
Brain
Ordinary differential equations

Brain volumes as predictors of tDCS effects in primary progressive aphasia

de Aguiar, V., Zhao, Y., Faria, A., Ficek, B., Webster, K. T., Wendt, H., Wang, Z., Hillis, A. E., Onyike, C. U., Frangakis, C., Caffo, B. & Tsapkini, K., Jan 2020, In : Brain and Language. 200, 104707.

Research output: Contribution to journalArticle

Open Access
Primary Progressive Aphasia
speech disorder
brain
Brain
Parietal Lobe

Cognitive and language performance predicts effects of spelling intervention and tDCS in Primary Progressive Aphasia

de Aguiar, V., Zhao, Y., Ficek, B. N., Webster, K., Rofes, A., Wendt, H., Frangakis, C., Caffo, B., Hillis, A. E., Rapp, B. & Tsapkini, K., Mar 2020, In : Cortex. 124, p. 66-84 19 p.

Research output: Contribution to journalArticle

Primary Progressive Aphasia
Language
Short-Term Memory
Therapeutics
Language Therapy

Sparse principal component based high-dimensional mediation analysis

Zhao, Y., Lindquist, M. & Caffo, B. S., Feb 1 2020, In : Computational Statistics and Data Analysis. 142, 106835.

Research output: Contribution to journalArticle

Mediation
Mediator
Principal Components
Principal component analysis
High-dimensional
2019

Extended multimodal whole-brain anatomical covariance analysis: detection of disrupted correlation networks related to amyloid deposition

Ye, C., Albert, M., Brown, T., Bilgel, M., Hsu, J., Ma, T., Caffo, B., Miller, M. I., Mori, S. & Oishi, K., Jul 1 2019, In : Heliyon. 5, 7, e02074.

Research output: Contribution to journalArticle

Open Access
Amyloid
Brain
Pathologic Processes
Magnetic Resonance Imaging
Pathology

Improved state change estimation in dynamic functional connectivity using hidden semi-Markov models

Shappell, H., Caffo, B. S., Pekar, J. J. & Lindquist, M., May 1 2019, In : NeuroImage. 191, p. 243-257 15 p.

Research output: Contribution to journalArticle

Magnetic Resonance Imaging
Brain
Connectome
Brain Diseases
Anxiety

Mixed effect machine learning: A framework for predicting longitudinal change in hemoglobin A1c

Ngufor, C., Van Houten, H., Caffo, B. S., Shah, N. D. & McCoy, R. G., Jan 1 2019, In : Journal of Biomedical Informatics. 89, p. 56-67 12 p.

Research output: Contribution to journalArticle

Hemoglobin
Learning systems
Hemoglobins
Machine Learning
Nonlinear Dynamics

Modular preprocessing pipelines can reintroduce artifacts into fMRI data

Lindquist, M., Geuter, S., Wager, T. D. & Caffo, B. S., Jan 1 2019, (Accepted/In press) In : Human Brain Mapping.

Research output: Contribution to journalArticle

Artifacts
Magnetic Resonance Imaging
Head
Datasets

Neuroconductor: an R platform for medical imaging analysis

Muschelli, J., Gherman, A., Fortin, J. P., Avants, B., Whitcher, B., Clayden, J. D., Caffo, B. S. & Crainiceanu, C. M., Apr 1 2019, In : Biostatistics (Oxford, England). 20, 2, p. 218-239 22 p.

Research output: Contribution to journalArticle

Medical Imaging
Software
Computational Imaging
Testing
Software Quality

Template Independent Component Analysis: Targeted and Reliable Estimation of Subject-level Brain Networks Using Big Data Population Priors

Mejia, A. F., Nebel, M. B., Wang, Y., Caffo, B. S. & Guo, Y., Jan 1 2019, (Accepted/In press) In : Journal of the American Statistical Association.

Research output: Contribution to journalArticle

Independent Component Analysis
Template
Regression
Functional Magnetic Resonance Imaging
Expectation-maximization Algorithm

The Democratization of Data Science Education

Kross, S., Peng, R. D., Caffo, B. S., Gooding, I. & Leek, J. T., Jan 1 2019, (Accepted/In press) In : American Statistician.

Research output: Contribution to journalArticle

Open Access
Science Education
Specialization
Science education
Democratization
Data analysis

Using deep Siamese neural networks for detection of brain asymmetries associated with Alzheimer's Disease and Mild Cognitive Impairment

the BIOCARD Research Team & for the Alzheimer's Disease Neuroimaging Initiative, Jan 1 2019, (Accepted/In press) In : Magnetic Resonance Imaging.

Research output: Contribution to journalArticle

Brain
Alzheimer Disease
Atlases
Biomarkers
Pipelines
2018

Early functional connectome integrity and 1-year recovery in comatose survivors of cardiac arrest

Sair, H. I., Hannawi, Y., Li, S., Kornbluth, J., Demertzi, A., Di Perri, C., Chabanne, R., Jean, B., Benali, H., Perlbarg, V., Pekar, J., Luyt, C. E., Galanaud, D., Velly, L., Puybasset, L., Laureys, S., Caffo, B. & Stevens, R. D., Apr 1 2018, In : Radiology. 287, 1, p. 247-255 9 p.

Research output: Contribution to journalArticle

Connectome
Coma
Heart Arrest
Survivors
Magnetic Resonance Imaging

High-dimensional multivariate mediation with application to neuroimaging data

Chén, O. Y., Crainiceanu, C. M., Ogburn, E. L., Caffo, B. S., Wager, T. D. & Lindquist, M., Apr 1 2018, In : Biostatistics. 19, 2, p. 121-136 16 p.

Research output: Contribution to journalArticle

Neuroimaging
Mediation
Mediator
High-dimensional
Structural Equation Model

Improved estimation of subject-level functional connectivity using full and partial correlation with empirical Bayes shrinkage

Mejia, A. F., Nebel, M. B., Barber, A. D., Choe, A., Pekar, J. J., Caffo, B. S. & Lindquist, M., May 15 2018, In : NeuroImage. 172, p. 478-491 14 p.

Research output: Contribution to journalArticle

Bayes Theorem
Connectome
Research Design
Magnetic Resonance Imaging

The effect of tDCS on functional connectivity in primary progressive aphasia

Ficek, B. N., Wang, Z., Zhao, Y., Webster, K. T., Desmond, J., Hillis-Trupe, A., Frangakis, C., Faria, A. V., Caffo, B. S. & Tsapkini, K., Jan 1 2018, In : NeuroImage: Clinical. 19, p. 703-715 13 p.

Research output: Contribution to journalArticle

Primary Progressive Aphasia
Language
Prefrontal Cortex
Language Therapy
Transcranial Direct Current Stimulation
2017

An M-estimator for reduced-rank system identification

Chen, S., Liu, K., Yang, Y., Xu, Y., Lee, S., Lindquist, M., Caffo, B. S. & Vogelstein, J. T., Jan 15 2017, In : Pattern Recognition Letters. 86, p. 76-81 6 p.

Research output: Contribution to journalArticle

Time series
Identification (control systems)
Linear algebra
Parameter estimation
Magnetic Resonance Imaging

Bayesian inference of high-dimensional, cluster-structured ordinary differential equation models with applications to brain connectivity studies

Zhang, T., Yin, Q., Caffo, B. S., Sun, Y. & Boatman-Reich, D., Jun 1 2017, In : Annals of Applied Statistics. 11, 2, p. 868-897 30 p.

Research output: Contribution to journalArticle

Bayesian inference
Ordinary differential equations
Brain
Connectivity
Ordinary differential equation

Big Data and Neuroimaging

Webb-Vargas, Y., Chen, S., Fisher, A., Mejia, A., Xu, Y., Crainiceanu, C. M., Caffo, B. S. & Lindquist, M., May 22 2017, (Accepted/In press) In : Statistics in Biosciences. p. 1-16 16 p.

Research output: Contribution to journalArticle

Neuroimaging
Data analysis
Big data
Cover
Demonstrate

Comparing test-retest reliability of dynamic functional connectivity methods

Choe, A., Nebel, M. B., Barber, A. D., Cohen, J. R., Xu, Y., Pekar, J. J., Caffo, B. S. & Lindquist, M., Sep 1 2017, In : NeuroImage. 158, p. 155-175 21 p.

Research output: Contribution to journalArticle

Reproducibility of Results
Brain
Magnetic Resonance Imaging
Connectome
Signal-To-Noise Ratio

Imaging of glial cell activation and white matter integrity in brains of active and recently retired national football league players

Coughlin, J. M., Yuchuanwang, Y., Minn, I., Bienko, N., Ambinder, E., Xu, X., Peters, M., Dougherty, J. W., Vranesic, M., Koo, S. M., Ahn, H. H., Lee, M., Cottrell, C., Sair, H., Sawa, A., Munro, C., Nowinski, C. J., Dannals, R. F., Lyketsos, C. G., Kassiou, M. & 5 others, Smith, G., Caffo, B. S., Mori, S., Guilarte, T. R. & Pomper, M. G., Jan 1 2017, In : JAMA Neurology. 74, 1, p. 67-74 8 p.

Research output: Contribution to journalArticle

Football
Neuroglia
Brain
Athletes
Sports

Parallel group independent component analysis for massive fMRI data sets

Chen, S., Huang, L., Qiu, H., Nebel, M. B., Mostofsky, S. H., Pekar, J. J., Lindquist, M., Eloyan, A. & Caffo, B. S., Mar 1 2017, In : PLoS One. 12, 3, e0173496.

Research output: Contribution to journalArticle

Independent component analysis
Magnetic Resonance Imaging
computer techniques
Functional Neuroimaging
Functional neuroimaging

PCA leverage: Outlier detection for high-dimensional functional magnetic resonance imaging data

Mejia, A. F., Nebel, M. B., Eloyan, A., Caffo, B. S. & Lindquist, M., Jul 1 2017, In : Biostatistics. 18, 3, p. 521-536 16 p.

Research output: Contribution to journalArticle

Magnetic Resonance Image
Functional Magnetic Resonance Imaging
Outlier Detection
Leverage
Principal Component Analysis

Practical no-gold-standard evaluation framework for quantitative imaging methods: Application to lesion segmentation in positron emission tomography

Jha, A. K., Mena, E., Caffo, B. S., Ashrafinia, S., Rahmim, A., Frey, E. & Subramaniam, R. M., Jan 1 2017, In : Journal of Medical Imaging. 4, 1, 011011.

Research output: Contribution to journalArticle

Positron emission tomography
Gold
Positron-Emission Tomography
Imaging techniques
Uncertainty
Brain Mapping
Brain Neoplasms
Magnetic Resonance Imaging
Noise

Trajectories of Glycemic Change in a National Cohort of Adults with Previously Controlled Type 2 Diabetes

McCoy, R. G., Ngufor, C., Van Houten, H. K., Caffo, B. S. & Shah, N. D., 2017, In : Medical Care. 55, 11, p. 956-964 9 p.

Research output: Contribution to journalArticle

Hemoglobin A
Type 2 Diabetes Mellitus
Cohort Studies
Comorbidity
Research Design
2016

A Multicenter Longitudinal Study of Hospital-Onset Bacteremia: Time for a New Quality Outcome Measure?

Rock, C., Thom, K. A., Harris, A. D., Li, S., Morgan, D., Milstone, A., Caffo, B. S., Joshi, M. & Leekha, S., Feb 1 2016, In : Infection Control and Hospital Epidemiology. 37, 2, p. 143-148 6 p.

Research output: Contribution to journalArticle

Bacteremia
Multicenter Studies
Longitudinal Studies
Outcome Assessment (Health Care)
Infection

A no-gold-standard technique for objective assessment of quantitative nuclear-medicine imaging methods

Jha, A. K., Caffo, B. S. & Frey, E., Mar 15 2016, In : Physics in Medicine and Biology. 61, 7, p. 2780-2801 22 p.

Research output: Contribution to journalArticle

Nuclear Medicine
Gold
Noise
Organ Size
Task Performance and Analysis

A parcellation based nonparametric algorithm for independent component analysis with application to fMRI data

Li, S., Chen, S., Yue, C. & Caffo, B. S., 2016, In : Frontiers in Neuroscience. 10, JAN, 15.

Research output: Contribution to journalArticle

Magnetic Resonance Imaging
Brain
Research

Decoupling of reaction time-related default mode network activity with cognitive demand

Barber, A. D., Caffo, B. S., Pekar, J. J. & Mostofsky, S. H., Mar 22 2016, (Accepted/In press) In : Brain Imaging and Behavior. p. 1-11 11 p.

Research output: Contribution to journalArticle

Reaction Time
Oxygen
Short-Term Memory

Factors affecting characterization and localization of interindividual differences in functional connectivity using MRI

Airan, R. D., Vogelstein, J. T., Pillai, J., Caffo, B. S., Pekar, J. J. & Sair, H., 2016, (Accepted/In press) In : Human Brain Mapping.

Research output: Contribution to journalArticle

Magnetic Resonance Imaging
Functional Neuroimaging
Executive Function
Brain
Datasets

Fast, Exact Bootstrap Principal Component Analysis for p > 1 Million

Fisher, A., Caffo, B. S., Schwartz, B. S. & Zipunnikov, V., Apr 2 2016, In : Journal of the American Statistical Association. 111, 514, p. 846-860 15 p.

Research output: Contribution to journalArticle

Bootstrap
Principal Component Analysis
Principal Components
Magnetic Resonance Image
Subspace

Joint estimation of multiple graphical models from high dimensional time series

Qiu, H., Han, F., Liu, H. & Caffo, B. S., Mar 1 2016, In : Journal of the Royal Statistical Society. Series B: Statistical Methodology. 78, 2, p. 487-504 18 p.

Research output: Contribution to journalArticle

Multiple Models
Graphical Models
High-dimensional
Time series
Parameter Estimation

Lesion heterogeneity on high-field susceptibility MRI Is associated with multiple sclerosis severity

Harrison, D. M., Li, X., Liu, H., Jones, C., Caffo, B. S., Calabresi, P. & Van Zijl, P. C., Aug 1 2016, In : American Journal of Neuroradiology. 37, 8, p. 1447-1453 7 p.

Research output: Contribution to journalArticle

Multiple Sclerosis
Fatigue
Oligodendroglia
Iron
Inflammation

Parameterization of White Matter Manifold-Like Structures Using Principal Surfaces

Yue, C., Zipunnikov, V., Bazin, P. L., Pham, D., Reich, D., Crainiceanu, C. M. & Caffo, B. S., Jul 2 2016, In : Journal of the American Statistical Association. 111, 515, p. 1050-1060 11 p.

Research output: Contribution to journalArticle

Parameterization
Tensor
Anisotropy
Fractional
Imaging

Presurgical brain mapping of the language network in patients with brain tumors using resting-state fMRI: Comparison with task fMRI

Sair, H., Yahyavi-Firouz-Abadi, N., Calhoun, V. D., Airan, R. D., Agarwal, S., Intrapiromkul, J., Choe, A., Gujar, S. K., Caffo, B. S., Lindquist, M. & Pillai, J., Mar 1 2016, In : Human Brain Mapping. 37, 3, p. 913-923 11 p.

Research output: Contribution to journalArticle

Brain Mapping
Brain Neoplasms
Language
Magnetic Resonance Imaging
Noise

Sparse median graphs estimation in a high-dimensional semiparametric model

Han, F., Han, X., Liu, H. & Caffo, B. S., Sep 1 2016, In : Annals of Applied Statistics. 10, 3, p. 1397-1426 30 p.

Research output: Contribution to journalArticle

Median Graph
Sparse Graphs
Semiparametric Model
Numerical analysis
High-dimensional
2015

A Dynamic Directional Model for Effective Brain Connectivity Using Electrocorticographic (ECoG) Time Series

Zhang, T., Wu, J., Li, F., Caffo, B. S. & Boatman-Reich, D., Jan 2 2015, In : Journal of the American Statistical Association. 110, 509, p. 93-106 14 p.

Research output: Contribution to journalArticle

Connectivity
Time series
Potts Model
Spatial Resolution
Penalized Regression

A Phase 1 Randomized, Blinded Comparison of the Pharmacokinetics and Colonic Distribution of Three Candidate Rectal Microbicide Formulations of Tenofovir 1% Gel with Simulated Unprotected Sex (CHARM-02)

Hiruy, H., Fuchs, E., Marzinke, M. A., Bakshi, R., Breakey, J. C., Aung, W. S., Manohar, M., Yue, C., Caffo, B. S., Du, Y., Abebe, K. Z., Spiegel, H. M. L., Rohan, L. C., McGowan, I. & Hendrix, C., Nov 1 2015, In : AIDS Research and Human Retroviruses. 31, 11, p. 1098-1108 11 p.

Research output: Contribution to journalArticle

Tenofovir
Unsafe Sex
Anti-Infective Agents
Glycerol
Pharmacokinetics
Cognition
Multiple Sclerosis
Magnetic Resonance Imaging
Odds Ratio
Brain

Connectivity supporting attention in children with attention deficit hyperactivity disorder

Barber, A. D., Jacobson, L. A., Wexler, J. L., Nebel, M. B., Caffo, B. S., Pekar, J. J. & Mostofsky, S. H., 2015, In : NeuroImage: Clinical. 7, p. 68-81 14 p.

Research output: Contribution to journalArticle

Attention Deficit Disorder with Hyperactivity
Brain
Occipital Lobe
Frontal Lobe
Short-Term Memory

Estimating a graphical intra-class correlation coefficient (GICC) using multivariate probit-linear mixed models

Yue, C., Chen, S., Sair, H., Airan, R. & Caffo, B. S., Sep 1 2015, In : Computational Statistics and Data Analysis. 89, p. 126-133 8 p., 6045.

Research output: Contribution to journalArticle

Intraclass Correlation Coefficient
Probit
Linear Mixed Model
Markov processes
Reproducibility

Evaluating model misspecification in independent component analysis

Lee, S., Caffo, B. S., Lakshmanan, B. & Pham, D. L., Apr 13 2015, In : Journal of Statistical Computation and Simulation. 85, 6, p. 1151-1164 14 p.

Research output: Contribution to journalArticle

Model Misspecification
Independent component analysis
Independent Component Analysis
Mixing Conditions
Instantaneous

Evidence for Specificity of Motor Impairments in Catching and Balance in Children with Autism

Ament, K., Mejia, A., Buhlman, R., Erklin, S., Caffo, B. S., Mostofsky, S. H. & Wodka, E., 2015, In : Journal of Autism and Developmental Disorders. 45, 3, p. 742-751 10 p.

Research output: Contribution to journalArticle

Autistic Disorder
Developmental Disabilities
Attention Deficit Disorder with Hyperactivity
Logistic Models
Sensory Feedback

Fluoxetine maintains a state of heightened responsiveness to motor training early after stroke in a mouse model

Ng, K. L., Gibson, E. M., Hubbard, R., Yang, J., Caffo, B. S., O'Brien, R. J., Krakauer, J. & Zeiler, S., 2015, In : Stroke. 46, 10, p. 2951-2960 10 p.

Research output: Contribution to journalArticle

Fluoxetine
Stroke
Forelimb
Neuronal Plasticity
Motor Cortex

Improving reliability of subject-level resting-state fMRI parcellation with shrinkage estimators

Mejia, A. F., Nebel, M. B., Shou, H., Crainiceanu, C. M., Pekar, J. J., Mostofsky, S. H., Caffo, B. S. & Lindquist, M., May 5 2015, In : NeuroImage. 112, p. 14-29 16 p.

Research output: Contribution to journalArticle

Cluster Analysis
Magnetic Resonance Imaging
Brain
Motor Cortex
Signal-To-Noise Ratio

Motor overflow in children with attention-deficit/hyperactivity disorder is associated with decreased extent of neural activation in the motor cortex

Gaddis, A., Rosch, K. S., Dirlikov, B., Crocetti, D., MacNeil, L., Barber, A. D., Muschelli, J., Caffo, B. S., Pekar, J. J. & Mostofsky, S. H., 2015, In : Psychiatry Research - Neuroimaging. 233, 3, p. 488-495 8 p.

Research output: Contribution to journalArticle

Motor Cortex
Attention Deficit Disorder with Hyperactivity
Fingers
Hand
Magnetic Resonance Imaging

Neural Correlates of Visuomotor Learning in Autism

Sharer, E., Crocetti, D., Muschelli, J., Barber, A. D., Nebel, M. B., Caffo, B. S., Pekar, J. J. & Mostofsky, S. H., Dec 1 2015, In : Journal of Child Neurology. 30, 14, p. 1877-1886 10 p.

Research output: Contribution to journalArticle

Autistic Disorder
Learning
Reaction Time
Motor Skills
Gyrus Cinguli

Neuroinflammation and brain atrophy in former NFL players: An in vivo multimodal imaging pilot study

Coughlin, J. M., Wang, Y., Munro, C., Ma, S., Yue, C., Chen, S., Airan, R., Kim, P. K., Adams, A. V., Garcia, C., Higgs, C., Sair, H., Sawa, A., Smith, G., Lyketsos, C. G., Caffo, B. S., Kassiou, M., Guilarte, T. R. & Pomper, M. G., Feb 1 2015, In : Neurobiology of Disease. 74, p. 58-65 8 p.

Research output: Contribution to journalArticle

Multimodal Imaging
Football
Atrophy
Verbal Learning
Brain Injuries