Xiaofu He, Ph.D.

Assistant Professor

Columbia University

1051 Riverside Drive, Unit43

New York, NY 10032

 

Tel. 646-774-5875

Email: xh2170@cumc.columbia.edu

 

Profile: http://datascience.columbia.edu/xiaofu-he

 
photo_XiaofuHe6

 

EXPERTISE

˛  Machine learning, Image Processing and Pattern Recognition

˛  Brain Computer Interaction, real-time fMRI/fNIRS/EEG neurofeedback, and Diffusion Tensor Imaging (DTI)

˛  Computer Vision, Biometrics, and Computational Modeling

˛  Software Engineering

 

EDUCATION / TRAINING

2014                 Postdoctoral Research Scientist        Columbia University

2011                 Postdoctoral Research Fellow           Georgia Health Sciences University

2007                 Ph.D. in Pattern Recognition and Intelligent Systems             Shanghai Jiao Tong University

 

PROFESSIONAL EXPERIENCE

2018 – Present   Faculty member, Data Science Institute, Columbia University, New York, NY

2014 – Present   Assistant Professor, Department of Psychiatry, Columbia University, New York, NY

2014 – Present   Research Scientist, Research Foundation for Mental Hygiene, Inc., New York State Psychiatric Institute, New York, NY

2011 – 2014      Postdoctoral Research Scientist, Brain Imaging Lab, Department of Psychiatry, Columbia University, New York, NY

2009 – 2011      Postdoctoral Research Fellow, Brain & Behavior Discovery Institute, Georgia Health Sciences University, Augusta, GA

2007 – 2009      Assistant Professor, Department of Computer Science and Technology, East China Normal University, Shanghai, China

 

SELECTED HONORS / AWARDS

2015                 Columbia Irving Institute Imaging Pilot Award, New York, NY

2014                 New York State Psychiatry Institute MRI Pilot Award, New York, NY

2013                 NARSAD Young Investigator Award, New York, NY

2010                 Travel Award for Oral Presentation, Joint South East Nerve Net and Georgia/South Carolina, Neuroscience Consortium Conference, Atlanta, GA

 

MEMBERSHIP

2019 –           Program Committee, New York Scientific Data Summit

2018 –           Committee member, Health Analytics, Data Science Institute, Columbia University

2018 –           Member, Computing Systems for Data-Driven Science, Data Science Institute, Columbia University

2017 –           Member, Foundations of Data Science, Data Science Institute, Columbia University

2017 –           Program Committee, Real-time Functional Imaging and Neurofeedback (rtFIN)

2013 –           Senior member, the Institute of Electrical and Electronics Engineers (IEEE)

2012 –           Member, the Organization for Human Brain Mapping (OHBM)

 

SELECTED PUBLICATIONS/PRESENTATIONS

2019

Feng Y, Chuang E, Cycowicz Y, He X (2019), Motor Imagery Classification using Cascade ResNet-LSTM, The 25th Annual Meeting of the Organization for Human Brain Mapping (OHBM), accepted.

 

He X,  Moreno D, Li T, Tang H, Cycowicz Y, Wang Z, Amsel L, Musa J, Cheslack-Postava K, Bisaga A, Geronazzo-Alman L, Bresnahan M, Hoven (2019), Increased Functional Connectivity between DMN and FPN in Adolescents with Familial History of SUD, The 25th Annual Meeting of the Organization for Human Brain Mapping (OHBM), accepted

 

Choi J, He X (2019) , Classification of Autism based on Resting-state fMRI using Convolutional Neural Networks, The 25th Annual Meeting of the Organization for Human Brain Mapping (OHBM), accepted

 

Merz E.C., Maskus E.A., Melvin S., He X., & Noble K.G. (in press). Socioeconomic disparities in language input are associated with children’s language-related brain structure and reading skills. Child Development.

 

Merz E.C., Maskus E.A., Melvin S., He X., & Noble K.G. (in press). Parental punitive discipline and children’s depressive symptoms: Associations with striatal volume. Developmental Psychobiology

 

Domakonda M, He X, Lee S, Cyr M, Marsh R (2019), Increased functional Connectivity between Ventral Attention and Default Mode Networks in Adolescents with Bulimia Nervosa, Journal of the American Academy of Child and Adolescent Psychiatry, 58(2):232-241

 

2018

He X, Steinberg E, Stefan M, Fontaine, Simpson HB, Marsh R. (2018), Altered Frontal Inter-hemispheric and Fronto-limbic Structural Connectivity in Unmedicated Adults with Obsessive-Compulsive Disorder, Human Brain Mapping, DOI: 10.1002/hbm.23883.

 

Merz EC, He X, Noble KG (2018), Anxiety, depression, impulsivity, and brain structure in children and adolescents, NeuroImage: Clinical 20: 243–251.

 

Choi J, He X (2018) , Classification of Autism Spectrum Disorder based on Brain Image using Convolutional Neural Networks, ITU/WHO workshop and Focus Group meeting on Artificial Intelligence for Health, Nov 14-16, New York, NY

 

Domakonda M, He X, Lee S, Cyr M, Marsh R (2018), Increased Functional Connectivity Between Ventral Attention and Default Mode Networks in Adolescents with Bulimia Nervosa, AACAP’s 65th Annual Meeting, October 22–27, Seattle, WA, Oral presentation.

 

Lee YC, Chung EY, He X (2018), Brain State Classification on Functional Near Infrared Spectroscopy using Convolutional Neural Networks, Annual Data Science Town Hall Meeting, September 28–27, Columbia University, NYC, Poster.

 

He X, Huang S, Liu Z, Moreno DR, Amsel L, Musa1 G, Hoven C (2018), Real-time Brain States Classification using 3D Convolutional Neural Networks, The 24th Annual Meeting of the Organization for Human Brain Mapping (OHBM), Jun 17-21, Singapore. Abstract.

 

Merz EC, Maskus EA, He X, Meyer J, Noble KG (2018). The joint effects of socioeconomic disadvantage and parental depression on children’s stress physiology and brain development. In M. Stallen and W. Molenmaker (Chairs), How neuroscience can contribute to solving societal problems. Symposium at the Association for Psychological Science (APS) Annual Convention, San Francisco, California, May.

 

Desai PM, Merz EC, Maskus EA, He X, Noble KG (2018). Socioeconomic disadvantage, prefrontal cortical structure, and executive function in school-aged children. Poster presented at the Cognitive Neuroscience Society Annual Meeting, Boston, Massachusetts, March.

 

2017

He X, Huang SK, Moreno DR, Kishon R, Amsel L, Musa G, Noriega A, Wang Z, Hoven C (2017), Connectivity-based Real-time fMRI Neurofeedback in Youth with a History of Major Depression, the Real-time Functional Imaging and Neurofeedback, Nov. 29-Dec.1, Nara, Japan

 

Merz EC, Maskus EA, He X, Meyer J, Melvin S, Noble KG (2017). Family stress, hair cortisol, and children’s amygdala and hippocampal volumes. Talk given at the International Society for Developmental Psychobiology (ISDP) meeting, Washington, D.C., November.

 

Maskus EA, Merz EC, Desai P, He X, Noble KG (2017). Exploring links among subjective social status, prefrontal cortex structure, and cognitive skills in children. Poster presented at the Cognitive Development Society (CDS) Biennial Conference, Portland, Oregon, October

 

Noble KG, Piccolo L, Merz EC, Brito N, He, X. (2017). Socioeconomic inequality modifies links among cortical thickness, age, and cognition. In J. Booth (Chair), The effect of socioeconomic inequality on the brain depends on age, cognitive, and environmental factors. Paper symposium at the SRCD Biennial Meeting, Austin, Texas, April

 

Domakonda M, He X, Marsh , (2017), A Resting State Functional Magnetic Resonance Imaging (fMRI) Study of Attention Network Dysfunction in Adolescents With Bulimia Nervosa, Journal of the American Academy of Child & Adolescent Psychiatry, October 2017, Volume 56, Issue 10, Supplement, Page S160.

 

He X, Moreno DR, Liu Z, Amsel L, Musa G, Wang Z, Hoven C (2017), Amygdala response may distinguish participants with history of major depressive disorder, The 23nd Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 25-29,Vancouver, Canada.

 

He X, Stefan M, Fontaine M, Cha J, Simpson HB, Marsh R (2017), A DTI Quality control pipeline for running TRACULA, The 23nd Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 25-29,Vancouver, Canada.

 

2016

Piccolo, L.R., Merz, E.C., He, X., Sowell, E.R., Noble, K.G. (2016). Age-related changes in cortical thickness vary by socioeconomic status. PLoS One 11(9):e0162511.

 

He X, Moreno DR, Geronazzo L, Amsel L, Hoven C, Wang Z (2016), Region of Interests in Local EPI Space for Real-time fMRI. The 22nd Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 26-30, Geneva, Switzerland.

 

He X, Geronazzo L,  Amsel L,  Moreno DR, Wang Z, Fan B, Musa G, Eisenberg R, Doan S, Wicks J, Bresnahan M, Hoven C (2016), White Matter Abnormalities in Individuals at High Risk of Depression. The 22nd Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 26-30, Geneva, Switzerland.

 

Rowny S, He X, Yang R, Zhou S, Prudic J, Javitt D, Hoven C (2016), Effects of ECT and MST on White Matter Integrity in Patients with Major Depression. The 22nd Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 26-30, Geneva, Switzerland.

 

He X, Stefan M, Fontaine M, Steinberg E, Simpson HB, Marsh R (2016). Tractography in Unmedicated Adults with Obsessive-Compulsive Disorder, 2016 Annual Meeting-Society of Biological Psychiatry (SOBP), May 12-14, Atlanta, Georgia, USA.

 

He X, Stefan M, Fontaine M, Terranova K, Marsh R (2016), Using Tractography to Assess Structural Connectivity in Adolescents with Bulimia Nervosa, 2016 Annual Meeting-Society of Biological Psychiatry (SOBP), May 12-14, Atlanta, Georgia, USA.

 

2015

He, X., Stefan, M., Terranova, K., Steinglass, J., Marsh, R. (2015), Altered White Matter Microstructure in Adolescents and Adults with Bulimia Nervosa, Neuropsychopharmacology, 2015 Dec 9. doi: 10.1038/npp.2015.354.

 

Qiao, J., Wang, Z., Geronazzo-Alman, L., Amsel, L., Duarte, C., Lee, S., Musa, G., Long, J., He, X., Doan. T, Hirsch, J., Hoven, C. (2015). Brain Activity under Emotional Conflicts Classifies Adolescents with and without a Familial History of Substance Use Disorders, Frontiers in Human Neuroscience, 9:219. doi: 10.3389/fnhum.2015.00219

 

He X, Simpson HB, Marsh R (2015), White Matter Integrity in Unmedicated Adults with Obsessive-Compulsive Disorder, 2015 Annual Meeting-Society of Biological Psychiatry (SOBP), May 14-16, Toronto, Canada. Abstract.

 

He X, Stefan M, Terranova K, Steinglass J, Walsh T, Marsh R (2015), Analyses of White Matter Integrity in Adolescents and Adults with Bulimia Nervosa, 2015 Annual Meeting-Society of Biological Psychiatry (SOBP 2015), May 14-16, Toronto, Canada. Abstract.

 

He X, Geronazzo L.A, Lee S, Amsel L, Wang Z, Musa G.J, Duarte C.S, Doan T, Hirsh J, Hirsch, Hoven C (2015), White matter abnormalities in Adolescents with a Familial History of Substance Use Disorders. The 21st Annual Meeting of the Organization for Human Brain Mapping (OHBM), Jun.14-18, Hawaii, USA. Abstract.

 

He X, Liu F, Amsel L, Kangarlu A, Gerber A, Wang Z, Musa G, Geronazzo L, Duarte C, Duan Y, Doan T, Hirsch J, Hoven C (2015), A New Quality Control Pipeline for Diffusion Tensor Imaging. The 21st Annual Meeting of the Organization for Human Brain Mapping (OHBM), Jun.14-18, Hawaii, USA. Abstract

 

2014

He, X., Liu, W., Li, X., Li, Q., Liu, F., Rauh, V.A., Yin D., Bansal, R., Duan, Y., Kangarlu, A., Peterson, B., Xu, D. (2014). Automated Assessment of Diffusion Tensor Imaging Data Quality Using the Color Cast of Color-Encoded Fractional Anisotropy Images. Magnetic Resonance Imaging, 32(5): 446-456.

 

He X, Liu F, Amsel L, Geronazzo L, Wang Z, Musa G, Duarte C, Kangarlu A, Gerber A, Duan Y, Qiao J, Doan T, Hirsch J, Hoven C (2014), Quality Criteria for DTI Data by Assessing Color-Encoded Fractional Anisotropy Images. The 20th Annual Meeting of the Organization for Human Brain Mapping (OHBM), Jun. 8-12, Hamburg, Germany. Abstract.

 

2013

Li, Q., Xu, D., He, X., Wang, Y., Chen, Z., Liu, H., Xu Q., Guo, F. (2013). AOTF based Molecular Hyperspectral Imaging System and Its Applications on Nerve Morphometry, Applied Optics, 52(17):3891-3901.

 

Li Q, He X, Wang Y, Liu H, Xu D, Guo F (2013),  Review of spectral imaging technology in biomedical engineering: Achievements and challenges, Journal of Biomedical Optics, 18: 100901-1-100901-28. PMID: 24114019

 

Hu, S., Xu D., Peterson B.S., Wang Q.D, He, X., Hu, J., Xu, X., Wei N., Long, D., Huang, M., Zhou, W., Xu, W., Zhang, M., Xu, Y. (2013). Association of Cerebral Networks in Resting State with Sexual Preference of Homosexual Men, PLoS ONE, 8(3), e59426, Mar. 2013.

 

He X, Yan X, Hao X, Bansal R, Wang Z, Peterson B, Xu D (2013), A New Volume Preserved Warping Method for Measuring Changes of Local Brain Volume, the 19th Annual Meeting of the Organization for Human Brain Mapping (OHBM), Jun.16-20, Seattle, WA, USA. Abstract.

 

2012

Li, Q., Chen,Z., He,X., Wang,Y., Liu, H., Xu, Q. (2012). Automatic identification and quantitative morphometry of unstained spinal nerve using molecular hyperspectral imaging technology, Neurochemistry, 61(8):1375-84.

 

Parikh P, Wen Y, He X, Xu D, Peterson B, Delapaz L, Claassen J (2012), Feasibility of Advanced MR Imaging and Imaging Phenotype of Ictal-Interictal EEG Patterns in Critically III Patients with Nonstructural, Severe Brain Injury, American Society of Neuroradiology (ASNR) 50th Annual Meeting & The Foundation of the ASNR Symposium, New York, NY, USA. Abstract.

 

Liu W, Liu X, He X, Zhou Z, Wen Y, Zhou Y, Peterson BS, Xu D (2012), Spatial normalization of diffusion tensor images with voxel-wise reconstruction of the diffusion gradient direction, 2nd International Workshop on Multimodal Brain Image Analysis (MBIA) in conjunction with MICCAI (pp. 134-146).

 

2011

He, X., Yang, Z., Tsien J. (2011). A Hierarchical Probabilistic Model for Rapid Object Categorization in Natural Scenes, PLoS One, 6(5):1-15.

 

2010

He X, Yang Z, Tsien J (2010), Object recognition based on hierarchically organized structures of natural objects, Journal of Vision, 10(7):989,2010, the 10th Annual Meeting of Vision Sciences Society (VSS2010), Journal of Vision, 10(7):989, Naples, Florida, USA, May. Poster.

 

He X, Yang Z, Tsien J (2010), Is categorizing objects in Natural scenes achievable? Frontiers in Neuroscience 2010, Joint South East Nerve Net (SENN) and Georgia/South Carolina Neuroscience Consortium Conference (GASCNC), Atlanta, USA, Mar. Travel award. Oral presentation.

 

He X, Tsien J, Yang Z (2010), Object recognition based on hierarchically organized structures of natural objects. Journal of Vision; 10: 989. http://dx.doi.org/10.1167/10.7.789. Abstract

 

2009

Shen D, He X, Lu L (2009), A cattle iris segmentation method based on least square principle. Journal of Image and Graphics. 14: 2132-2136. (Published in Chinese with English abstract)

 

He X, Lu Y, Shi P (2009), A new fake iris detection method, Advances in Biometrics - 3rd International Conference on Biometrics, (pp. 1139-1146), Alghero, Italy, June.

 

2008

He, X., Yan, J., Chen G., Shi, P. (2008). Contactless auto-feedback iris capture design, IEEE Transactions on Instrumentation and Measurement, 57(7):1369-1375, 2008.

 

An S, He X, Shi P (2008), Method for fake iris detection based on wavelet packet decomposition. Measurement & Control Technology; 27: 9-11. (Published in Chinese with English abstract)   

 

He X, Shi P (2008), Extraction of Complex Wavelet Features for Iris Recognition, 19th International Conference on Pattern Recognition (ICPR2008), Florida, USA, Dec.

 

He X, Lu Y, Shi P (2008), A fake iris detection method based on FFT and quality assessment, Chinese Conference on Pattern Recognition, (pp. 316-319), Beijing China, Oct.

 

2007

He, X., Shi, P. (2007). A New Segmentation Approach for Iris Recognition Based on Hand-held Capture Device, Pattern Recognition, 40(4):1326-1333.

 

Wan J, He X, Shi P (2007), An Iris Image Quality Assessment Method Based on Laplacian of Gaussian Operation, IAPR Conference on Machine Vision Applications 2007 (MVA 2007) (pp.248-251).

 

He X, An S, Shi P (2007),  Statistical texture analysis-based approach for fake iris detection using support vector machines, Advances in Biometrics - International Conference on Biometrics (pp. 540-546).

 

2006

He, X., Shi, P. (2006), An Efficient Iris Recognition System, Journal of Computational Information Systems, 2(4), 1269-1275.

 

He X, Shi P (2006), A novel iris segmentation method for hand-held capture device, Advances in Biometrics - International Conference on Biometrics, (pp. 479-485)

 

2005

He X, Shi P (2005), Enhancement method for low quality fingerprint images. Journal of Data Acquisition & Processing; 20: 440-443.

 

He X, Shi P (2005), An efficient iris segmentation method for recognition, Pattern Recognition and Image Analysis - 3rd International Conference on Advances in Pattern Recognition, (pp. 120-126)

 

He X, Shi P: An Eyelid Estimation Method for Iris Segmentation, Regional Inter-University Postgraduate Electrical and Electronic Engineering Conference (RIUPEEEC 2005), Hong Kong, China, Jul. Oral presentation