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Hao Huang, PhD

Hao Huang, PhD Researcher

Research Associate Professor of Radiology

Dr. Huang is employed by Penn Medicine.

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American Society of Functional Neuroradiology, National EITN Study Section, National Institute of Health (NIH), National International Society of Magnetic Resonance in Medicine (ISMRM), International NIEHS ZES1 JAB-D(R1), National Institutes of Health (NIH), National NIH ERB-S (02), National Institutes of Health (NIH), National NIH ZRG1 SBIB Z-(83), National Institutes of Health (NIH), National Society for Neuroscience, International

Hospital Affiliation

Dr. Huang is employed by Penn Medicine.


Description of Research Expertise:

Research Interests:
brain development; brain connectivity and network; neurodevelopmental and psychiatric disorders; neuroimaging; small animal imaging;

Key words: brain development; cortical microstructure; developmental connectome; white matter tract; tractography; atlas; diffusion MRI; functional MRI; cerebral blood flow; big data; biomarker; Alzheimer's; autism

Research Summary

Research in the Huang lab focuses on the structural and functional connectivity as well as micro-structural quantifications and brain atlases using the latest noninvasive neuroimaging techniques. The research goal is to address the neuroscientific questions and identify diagnostic or therapeutic neuroimaging biomarkers. The neuroscientific questions include how the human brain functional networks emerge and what the structural and metabolic underpinnings of the brain networks are during development. The neurological and neuropsychiatric disorders include autism and Alzheimer’s. Brain atlases are made with tractography of the white matter tracts. Micro-structural quantification of neural structures uses the approaches of measuring diffusion properties of water molecules inside the brain at the level of micrometers. These studies are made possible with recent advancement of cutting-edge neuroimaging acquisition techniques and big-data analytics of brain images.

Dr Huang is probably known best for initializing comprehensive brain mapping studies of developmental human brains during middle and late fetal stage, a critical development phase for CNS, using advanced diffusion MRI. The significance of this work is that it provides unprecedented neuroscientific knowledge on connectivity, anatomy and microstructure of early developing brains. The three research areas in the Huang lab is extended from this early work to delineate connectivity, create quantitative normal developmental brain charts and identify early biomarkers in brains with psychiatric disorders. Huang lab is continuously supported by NIH funding. Dr Huang is on the Editorial Board of Neuroimage, at top neuroimaging journal. He is the committee member of NIH-sponsored BrainSpan Consortium ( He has been the Ad Hoc member of various NIH Study Sections for multiple times. He is the faculty director of Small Animal Imaging Facility (SAIF) at CHOP.

Next-generation Infant Brain Charts:
Based on high resolution diffusion tensor imaging (DTI) of 150 fetal and preterm brains, the Huang lab established the atlases and quantified cortical microstructure with cortical fractional anisotropy, validated by histological images and correlated with transcriptomic (RNA) expression. The Huang lab is working on establishing next-generation quantitative diffusion MRI infant brain atlases (UPenn-CHOP atlases) which can create charts showing normal MRI developmental trajectories (like height and weight). These atlases and charts will provide reference standards for “pre-diagnostic” risk assessment, and thus in future studies examining individuals at risk for neurodevelopmental disorders such as autism or schizophrenia. The next-generation brain charts fill a gap in precision health of infants. The Huang lab will develop techniques and generate databases for measuring cortical microstructure, brain function and behavior during infancy using MRI, magnetoencephalography (MEG) and behavioral assessment. Using multi-modality approach, the Huang lab hopes to reveal mechanistic structure-function and structure-behavior relationship during brain maturation.

Structural and Metabolic Underpinnings of Developmental Functional Connectivity:
The human brain architecture at birth already comprises a large scale of connections, many of which are found in adult resting-state networks. However, it is unknown how these connections are integrated into highly functional and differentiated networks during early brain development. Work in Huang lab has found that with segregation process in brains of 31-42 postmenstrual weeks, the brain architecture undergoes a gradual transition from a relatively random to a more organized network, characterized by increased local network clustering. The Huang lab suggests balanced maturation of the long-range and short-range white matter tracts may mediate the emergence of the brain hubs and rich-clubs and essentially the maturation of primary and higher-order functional networks. The white matter tracts can be accessed through noninvasive tractography with diffusion MRI. The functional connectivity is characterized by spontaneous low-frequency fluctuations in brain activities, monitored by blood oxygen level-dependent signals using resting-state functional magnetic resonance imaging. The Huang lab also maps spatiotemporally heterogeneous cerebral blood flow in developmental brains through arterial spin labeling magnetic resonance imaging to understand the metabolic demand of hub emergence. By understanding these underpinnings, the Huang lab hopes to identify the structural and metabolic targets for facilitating early diagnosis of a suite of brain disorders manifesting aberrant brain connectivity.

Neuroimaging Techniques for Biomarker of Psychiatric Disorders:
Huang lab is also dedicated to developing advanced clinical and preclinical MR imaging and analysis techniques. One technique is tract analysis combining white matter tractography and metric measurements from diffusion MRI. Huang lab has been one of the first few groups developing this technique and has standardized it. This technique has been successfully implemented to clinical research studies of a suite of psychiatric disorders including Alzheimer’s disease, high-risk major depressive disorder, maltreatment and bipolar disorder to identify early neuroimaging biomarkers. In addition, in his graduate study, Huang has been developing a DTI-based brute-force and multi-ROI approach tractography method which is robust to noise. This tractography method has been widely used in the streamline tracing technique. Huang has also developed a method to correct for geometric distortion caused by B0 susceptibility using an approach with nonlinear image registration. Recently Huang lab has built up the diffusion MRI signal analysis technique to more accurately estimate white matter tract fractional anisotropy at the crossing-fiber regions using a Gaussian-mixture multi-tensor model. By developing and improving techniques for early neuroimaging biomarker detection, the Huang lab hopes to identify novel targets for early therapeutic intervention to treat psychiatric disorders.

Selected Publications:

Ouyang M, Jeon T, Sotiras A, Peng Q, Mishra V, Halovanic C, Chen M, Chalak L, Rollins N, Roberts T, Davatzikos C, Huang H: Differential cortical microstructural maturation in the preterm human brain with diffusion kurtosis and tensor imaging Proceedings of the National Academy of Sciences of the United States of America 116 (10): 4671-4680,2019.

Farahany NA, Greely HT, Hyman S, Koch C, Grady C, Pasca SP, Sestan N, Arlotta P, Bernat JL, Ting J, Lunshof JE, Iyer EPR, Hyun I, Capestany BH, Church GM, Huang H, Song H: The ethics of experimenting with human brain tissue Nature 556 (7702): 429-432,2018.

Cao M, He Y, Dai Z, Liao X, Jeon T, Chalak L, Bi Y, Rollins N, Dong Q, Huang H: Early development of functional network segregation revealed by connectomic analysis of the preterm human brain Cerebral Cortex 27 (3): 1949-1963,2017.

Cao M, Huang H, He Y: Developmental connectomics from infancy through early childhood Trends in neuroscience 40 (8): 494-506,2017.

Miller J, Ding SL, Sunkin S, Smith K, Ng L, Szafer A, Ebbert A, Riley Z, Aiona K, Arnold J, Bennet C, Bertagnolli D, Brouner K, Butler S, Caldejon S, Carey A, Cuhaciyan C, Dalley R, Dee N, Dolbeare T, Facer B, Feng D, Fliss T, Gee G, Goldy J, Gourley L, Gregor B, Gu G, Howard R, Jochim J, Kuan C, Lau C, Lee C, Lee F, Lemon T, Lesnar P, McMurray B, Mastan N, Mosqueda N, Naluai-Cecchini T, Ngo NK, Nyhus J, Oldre A, Olson E, Parente J, Parker P, Parry S, Player A, Pletikos M, Reding M, Royall J, Roll K: Transcriptional landscape of the prenatal human brain Nature 508 (7495): 199-206,2014.

Huang H, Fan X, Weiner M, Martin-Cook K, Xiao G, Davis J, Devous M, Rosenberg R, Diaz-Arrastia R: Distinctive disruption patterns of white matter tracts in Alzheimer’s disease with full diffusion tensor characterization Neurobiology of Aging 33 (9): 2029-2045,2012.

Huang H, Jeon T, Sedmak G, Pletikos M, Vasung L, Xu X, Yarowsky P, Richards L, Kostovic I, Sestan N, Mori S: Coupling diffusion imaging with histological and gene expression analysis to examine the dynamics of cortical areas across the fetal period of human brain development Cerebral Cortex 23 (11): 2620-2631,2013.

Ouyang M, Cheng H, Mishra V, Gong G, Mosconi M, Sweeney J, Peng Y, Huang H: Atypical age-dependent effects of autism on white matter microstructure in children of 2-7 years Human Brain Mapping 37 (2): 819-832,2016.

Ouyang M, Kang H, Detre JA, Roberts TPL, Huang H: Short-range connections in the developmental connectome during typical and atypical brain maturation Neuroscience and Bio-behavioral Reviews 83 : 109-122,2017.

Huang H, Gundapuneedi T, Rao U: White matter disruptions in adolescents exposed to childhood maltreatment and vulnerability to psychopathology Neuropsychopharmacology 37 (12): 2693-2701,2012.

Mishra V, Gundapuneedi T, Guo X, Delgado MR, Huang H: Towards tract-specific fractional anisotropy (TSFA) at crossing-fiber regions with clinical diffusion MRI Magnetic Resonance in Medicine 74 (6): 1768-79,2015.

Academic Contact Info

Children's Hospital of Philadelphia
Department of Radiology
3401 Civic Center Blvd.

Philadelphia, PA 19104
Phone: (267) 425-1599