Overview

Dr. Yangming Ou's research focuses on improving healthcare by medical image analysis, machine learning and imaging informatics.

One pillar of Dr. Ou's lab is in developing MRI analysis and MRI machine learning algorithms. This includes algorithms for spatiotemporal MRI analysis, multi-modal MRI integration, quantification of normal brain development, detection of abnormalities, prediction of outcomes, treatment evaluation, and disease subtyping.

Another pillar of Dr. Ou's lab is in applying advanced imaging informatics for clinical studies. The topics span mild, moderate and severe brain abnormalities. Mild conditions studied in the lab includes nutrition insufficiency and kids with in-utero exposure to opioid. Moderate conditions include hypoxic ischemic injury, rare diseases such as Sturge-Weber Syndrom, early screening of psychosis, dyslexia, etc. Severe diesease include pediatric brain tumor and how to improve neurocognitive outcomes in survivors.

Background

Dr. Ou holds a PhD degree in Medical Image Analysis and an MS degree in Applied Mathematics, both from the University of Pennsylvania. His BS degree was in Electrical Engineering (Biomedical Engineering Division) from Tsinghua University. His research interest lies in the intersection of big data, machine learning, data science, imaging informatics, and medicine.

Researcher Services

Researcher Areas

  • Imaging Informatics
  • Machine Learning
  • Medical Image Analysis

Research Departments

Researcher Programs

Researcher Centers

PUBLICATIONS

Publications powered by Harvard Catalyst Profiles

  1. Machado I, Toews M, George E, Unadkat P, Essayed W, Luo J, Teodoro P, Carvalho H, Martins J, Golland P, Pieper S, Frisken S, Golby A, Wells W, Ou Y. Deformable MRI-Ultrasound registration using correlation-based attribute matching for brain shift correction: Accuracy and generality in multi-site data. Neuroimage. 2019 Aug 22; 116094. View abstract
  2. Ly KI, Vakulenko-Lagun B, Emblem KE, Ou Y, Da X, Betensky RA, Kalpathy-Cramer J, Duda DG, Jain RK, Chi AS, Plotkin SR, Batchelor TT, Sorensen G, Rosen BR, Gerstner ER. Publisher Correction: Probing tumor microenvironment in patients with newly diagnosed glioblastoma during chemoradiation and adjuvant temozolomide with functional MRI. Sci Rep. 2019 Jun 14; 9(1):8721. View abstract
  3. Cole AR, Perry DA, Raza A, Nedder AP, Pollack E, Regan WL, van den Bosch SJ, Polizzotti BD, Yang E, Davila D, Afacan O, Warfield SK, Ou Y, Sefton B, Everett AD, Neil JJ, Lidov HGW, Mayer JE, Kheir JN. Perioperatively Inhaled Hydrogen Gas Diminishes Neurologic Injury Following Experimental Circulatory Arrest in Swine. JACC Basic Transl Sci. 2019 Apr; 4(2):176-187. View abstract
  4. Ly KI, Vakulenko-Lagun B, Emblem KE, Ou Y, Da X, Betensky RA, Kalpathy-Cramer J, Duda DG, Jain RK, Chi AS, Plotkin SR, Batchelor TT, Sorensen G, Rosen BR, Gerstner ER. Probing tumor microenvironment in patients with newly diagnosed glioblastoma during chemoradiation and adjuvant temozolomide with functional MRI. Sci Rep. 2018 Nov 20; 8(1):17062. View abstract
  5. Ou Y, Zöllei L, Da X, Retzepi K, Murphy SN, Gerstner ER, Rosen BR, Grant PE, Kalpathy-Cramer J, Gollub RL. Field of View Normalization in Multi-Site Brain MRI. Neuroinformatics. 2018 10; 16(3-4):431-444. View abstract
  6. Pinto ALR*, Ou Y*, Sahin M, Grant PE. Quantitative Apparent Diffusion Coefficient Mapping May Predict Seizure Onset in Children With Sturge-Weber Syndrome. Pediatric Neurology. 2018. View abstract
  7. Davatzikos C, Rathore S, Bakas S, Pati S, Bergman M, Kalarot R, Sridharan P, Gastounioti A, Jahani N, Cohen E, Akbari H, Tunc B, Doshi J, Parker D, Hsieh M, Sotiras A, Li H, Ou Y, Doot RK, Bilello M, Fan Y, Shinohara RT, Yushkevich P, Verma R, Kontos D. Cancer imaging phenomics toolkit: quantitative imaging analytics for precision diagnostics and predictive modeling of clinical outcome. J Med Imaging (Bellingham). 2018 Jan; 5(1):011018. View abstract
  8. Lauer A, Da X, Hansen MB, Boulouis G, Ou Y, Cai X, Liberato Celso Pedrotti A, Kalpathy-Cramer J, Caruso P, Hayden DL, Rost N, Mouridsen K, Eichler FS, Rosen B, Musolino PL. ABCD1 dysfunction alters white matter microvascular perfusion. Brain. 2017 Dec 01; 140(12):3139-3152. View abstract
  9. Zhou M, Scott J, Chaudhury B, Hall L, Goldgof D, Yeom KW, Iv M, Ou Y, Kalpathy-Cramer J, Napel S, Gillies R, Gevaert O, Gatenby R. Radiomics in Brain Tumor: Image Assessment, Quantitative Feature Descriptors, and Machine-Learning Approaches. AJNR Am J Neuroradiol. 2018 02; 39(2):208-216. View abstract
  10. Tu X, Xie M, Gao J, Ma Z, Chen D, Wang Q, Finlayson SG, Ou Y, Cheng JZ. Automatic Categorization and Scoring of Solid, Part-Solid and Non-Solid Pulmonary Nodules in CT Images with Convolutional Neural Network. Sci Rep. 2017 09 01; 7(1):8533. View abstract
  11. Bernardis E, Zhang Y, Konukoglu E, Ou Y, Javitz HS, Axel L, Metaxas D, Desjardins B, Pohl KM. eCurves: A Temporal Shape Encoding. IEEE Trans Biomed Eng. 2018 04; 65(4):733-744. View abstract
  12. Ou Y, Zöllei L, Retzepi K, Castro V, Bates SV, Pieper S, Andriole KP, Murphy SN, Gollub RL, Grant PE. Using clinically acquired MRI to construct age-specific ADC atlases: Quantifying spatiotemporal ADC changes from birth to 6-year old. Hum Brain Mapp. 2017 06; 38(6):3052-3068. View abstract
  13. Dinh CV, Steenbergen P, Ghobadi G, van der Poel H, Heijmink SW, de Jong J, Isebaert S, Haustermans K, Lerut E, Oyen R, Ou Y, Christos D, van der Heide UA. Multicenter validation of prostate tumor localization using multiparametric MRI and prior knowledge. Med Phys. 2017 Mar; 44(3):949-961. View abstract
  14. Kalpathy-Cramer J, Chandra V, Da X, Ou Y, Emblem KE, Muzikansky A, Cai X, Douw L, Evans JG, Dietrich J, Chi AS, Wen PY, Stufflebeam S, Rosen B, Duda DG, Jain RK, Batchelor TT, Gerstner ER. Phase II study of tivozanib, an oral VEGFR inhibitor, in patients with recurrent glioblastoma. J Neurooncol. 2017 02; 131(3):603-610. View abstract
  15. Doshi J, Erus G, Ou Y, Resnick SM, Gur RC, Gur RE, Satterthwaite TD, Furth S, Davatzikos C. MUSE: MUlti-atlas region Segmentation utilizing Ensembles of registration algorithms and parameters, and locally optimal atlas selection. Neuroimage. 2016 Feb 15; 127:186-195. View abstract
  16. Ou Y, Gollub RL, Retzepi K, Reynolds N, Pienaar R, Pieper S, Murphy SN, Grant PE, Zöllei L. Brain extraction in pediatric ADC maps, toward characterizing neuro-development in multi-platform and multi-institution clinical images. Neuroimage. 2015 Nov 15; 122:246-61. View abstract
  17. Rojas KD, Montero ML, Yao J, Messing E, Fazili A, Joseph J, Ou Y, Rubens DJ, Parker KJ, Davatzikos C, Castaneda B. Methodology to study the three-dimensional spatial distribution of prostate cancer and their dependence on clinical parameters. J Med Imaging (Bellingham). 2015 Jul; 2(3):037502. View abstract
  18. Sotiras A*, Ou Y*, Paragios N, Davatzikos C. Handbook of Biomedical Imaging; Methodologies and Clinical Research. Graph-based Deformable Image Registration. 2015. View abstract
  19. Wu J, Ou Y, Weinstein SP, Conant EF, Yu N, Hoshmand V, Keller B, Ashraf AB, Rosen M, DeMichele A, Davatzikos C, Kontos D. SPIE Medical Imaging. Quantification of Tumor Changes during Neoadjuvant Chemotherapy with Longitudinal Breast DCE-MRI Registration. 2015; 9414. View abstract
  20. Petitjean C, Zuluaga MA, Bai W, Dacher JN, Grosgeorge D, Caudron J, Ruan S, Ayed IB, Cardoso MJ, Chen HC, Jimenez-Carretero D, Ledesma-Carbayo MJ, Davatzikos C, Doshi J, Erus G, Maier OM, Nambakhsh CM, Ou Y, Ourselin S, Peng CW, Peters NS, Peters TM, Rajchl M, Rueckert D, Santos A, Shi W, Wang CW, Wang H, Yuan J. Right ventricle segmentation from cardiac MRI: a collation study. Med Image Anal. 2015 Jan; 19(1):187-202. View abstract
  21. Ou Y, Weinstein SP, Conant EF, Englander S, Da X, Gaonkar B, Hsieh MK, Rosen M, DeMichele A, Davatzikos C, Kontos D. Deformable registration for quantifying longitudinal tumor changes during neoadjuvant chemotherapy. Magn Reson Med. 2015 Jun; 73(6):2343-56. View abstract
  22. Ou Y, Akbari H, Bilello M, Da X, Davatzikos C. Comparative evaluation of registration algorithms in different brain databases with varying difficulty: results and insights. IEEE Trans Med Imaging. 2014 Oct; 33(10):2039-65. View abstract
  23. Serpa MH, Ou Y, Schaufelberger MS, Doshi J, Ferreira LK, Machado-Vieira R, Menezes PR, Scazufca M, Davatzikos C, Busatto GF, Zanetti MV. Neuroanatomical classification in a population-based sample of psychotic major depression and bipolar I disorder with 1 year of diagnostic stability. Biomed Res Int. 2014; 2014:706157. View abstract
  24. Litjens G, Toth R, van de Ven W, Hoeks C, Kerkstra S, van Ginneken B, Vincent G, Guillard G, Birbeck N, Zhang J, Strand R, Malmberg F, Ou Y, Davatzikos C, Kirschner M, Jung F, Yuan J, Qiu W, Gao Q, Edwards PE, Maan B, van der Heijden F, Ghose S, Mitra J, Dowling J, Barratt D, Huisman H, Madabhushi A. Evaluation of prostate segmentation algorithms for MRI: the PROMISE12 challenge. Med Image Anal. 2014 Feb; 18(2):359-73. View abstract
  25. Doshi J, Erus G, Ou Y, Gaonkar B, Davatzikos C. Multi-atlas skull-stripping. Acad Radiol. 2013 Dec; 20(12):1566-76. View abstract
  26. Da X, Toledo JB, Zee J, Wolk DA, Xie SX, Ou Y, Shacklett A, Parmpi P, Shaw L, Trojanowski JQ, Davatzikos C. Integration and relative value of biomarkers for prediction of MCI to AD progression: spatial patterns of brain atrophy, cognitive scores, APOE genotype and CSF biomarkers. Neuroimage Clin. 2014; 4:164-73. View abstract
  27. Zanetti MV, Schaufelberger MS, Doshi J, Ou Y, Ferreira LK, Menezes PR, Scazufca M, Davatzikos C, Busatto GF. Neuroanatomical pattern classification in a population-based sample of first-episode schizophrenia. Prog Neuropsychopharmacol Biol Psychiatry. 2013 Jun 03; 43:116-25. View abstract
  28. Ou Y. Development and Validations of a Deformable Registration Algorithm of Medical Images: Applications to Brain, Breast and Prostate Studies. 2012. View abstract
  29. Ou Y, Ye DH, Pohl KM, Davatzikos C. Validation of DRAMMS among 12 Popular Methods in Cross-Subject Cardiac MRI Registration. Biomed Image Regist Proc. 2012 Jul; 7359:209-219. View abstract
  30. Bernardis E, Konukoglu E, Ou Y, Metaxas DN, Desjardins B, Pohl KM. Temporal shape analysis via the spectral signature. Med Image Comput Comput Assist Interv. 2012; 15(Pt 2):49-56. View abstract
  31. Ou Y, Sotiras A, Paragios N, Davatzikos C. DRAMMS: Deformable registration via attribute matching and mutual-saliency weighting. Med Image Anal. 2011 Aug; 15(4):622-39. View abstract
  32. Ou Y, Besbes A, Bilello M, Mansour M, Davatzikos C, Paragios N. Detecting mutually-salient landmark pairs with MRF regularization. IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI). 2010; 400-403. View abstract
  33. Sotiras A, Ou Y, Glocker B, Davatzikos C, Paragios N. Simultaneous geometric--iconic registration. Med Image Comput Comput Assist Interv. 2010; 13(Pt 2):676-83. View abstract
  34. Ou Y, Shen D, Zeng J, Sun L, Moul J, Davatzikos C. Sampling the spatial patterns of cancer: optimized biopsy procedures for estimating prostate cancer volume and Gleason Score. Med Image Anal. 2009 Aug; 13(4):609-20. View abstract
  35. Ou Y, Shen D, Feldman M, Tomaszewski J, Davatzikos C. Non-rigid registration between histological and MR images of the prostate: a joint segmentation and registration framework. Mathematical Method in Biomedical Image Analysis (MMBIA). 2009; 125-132. View abstract
  36. Ou Y, Davatzikos C. DRAMMS: deformable registration via attribute matching and mutual-saliency weighting. Inf Process Med Imaging. 2009; 21:50-62. View abstract
  37. Verma R, Zacharaki EI, Ou Y, Cai H, Chawla S, Lee SK, Melhem ER, Wolf R, Davatzikos C. Multiparametric tissue characterization of brain neoplasms and their recurrence using pattern classification of MR images. Acad Radiol. 2008 Aug; 15(8):966-77. View abstract
  38. Zhan Y, Ou Y, Feldman M, Tomaszeweski J, Davatzikos C, Shen D. Registering histologic and MR images of prostate for image-based cancer detection. Acad Radiol. 2007 Nov; 14(11):1367-81. View abstract
  39. Xing Y, Ou Y, Englander S, Schnall M, Shen D. Simultaneous estimation and segmentation of T1 map for breast parenchyma measurement. IEEE International Symposium on Biomedical Imaging: From Nano to Macro, (ISBI). 2007; 332-335. View abstract
  40. Cai H, Verma R, Ou Y, Lee SK, Melhem ER, Davatzikos C. Probabilistic segmentation of brain tumors based on multi-modality magnetic resonance images. IEEE International Symposium on Biomedical Imaging: From Nano to Macro, (ISBI). 2007; 600-603. View abstract
  41. Periaswamy S, Ou Y, Jerebko A. System and Method for Automatic Extraction of Spinal Cord from 3D Volumetric Images. 2007. View abstract