Spyridon Bakas, PhD
Assistant Professor of Pathology and Laboratory Medicine
Assistant Professor, Department of Radiology (joint appt), Perelman School of Medicine at the University of Pennsylvania
Department: Pathology and Laboratory Medicine
Contact information
University of Pennsylvania
Richards Medical Research Laboratories
3700 Hamilton Walk
Floor 7
Philadelphia, PA 19104
Richards Medical Research Laboratories
3700 Hamilton Walk
Floor 7
Philadelphia, PA 19104
Office: 267-752-5209
Email:
sbakas@upenn.edu
sbakas@upenn.edu
Publications
Education:
BSc (Hons) (Computer Science)
Kingston University London, 2006.
MSc (Vision, Imaging & Virtual Environments)
University College London, 2007.
PhD (Medical Image Computing & Analysis)
Kingston University London, 2014.
Permanent linkBSc (Hons) (Computer Science)
Kingston University London, 2006.
MSc (Vision, Imaging & Virtual Environments)
University College London, 2007.
PhD (Medical Image Computing & Analysis)
Kingston University London, 2014.
Description of Research Expertise
Biomedical Image AnalysisMachine Learning
Cancer Imaging
Radiogenomics
Computational Pathology
Glioblastoma
Pattern Analysis
Selected Publications
A.Gastounioti, O.H.Maghsoudi, S.Rathore, E.F.Conant, D.Kontos, S.Bakas: "State of the Art in Neural Networks" (Computational Applications in Brain and Breast Cancer). Elsevier 2023.O.Güley, S.Pati, S.Bakas: “Classification of Infection and Ischemia in Diabetic Foot Ulcers Using VGG Architectures” Springer – LNCS 2022.
V.S.Ahluwalia, W.Mankowski, S.Pati, S.Bakas, A.Brooks, C.Vachon, E.Conant, A.Gastounioti, D.Kontos: “Artificial-intelligence-driven volumetric breast density estimation with digital breast tomosynthesis in a racially diverse screening cohort” Journal of Clinical Oncology 2022.
V.S.Ahluwalia, W.Mankowski, S.Pati, S.Bakas, A.Brooks, C.Vachon, E.Conant, A.Gastounioti, D.Kontos: “Deep-learning-enabled volumetric breast density estimation with digital breast tomosynthesis” Cancer Research 2022.
1. A. Reinke, L. Maier-Hein, E. Christodoulou, B. Glocker, P. Godau, F. Isensee, J. Kleesiek, M. Kozubek, M.Reyes, M. Riegler, M. Wiesenfarth, M. Baumgartner, M. Eisenmann, D. Heckmann-N¨otzel, A.E. Kavur, T. R¨adsch, M.D. Tizabi, L. Acion, M. Antonelli, T. Arbel, S. Bakas, P. Bankhead, A. Benis, M.J. Cardoso, V. Cheplygina, B. Cimini, G. Collins, K.Farahani, B. van Ginneken, F. Hamprecht, D. Hashimoto, M. Hoffman, M. Huisman, P. Jannin, C.E. Kahn, A. Karargyris, A.Karthikesalingam, H. Kenngott, A. Kopp-Schneider, A. Kreshuk, T. Kurc, B.A. Landman, G. Litjens, A. Madani, K. Maier-Hein, A.L. Martel, P. Mattson, E. Meijering, B. Menze, D. Moher, K.G.M. Moons, H. M¨uller, B. Nichyporuk, F. Nickel, J. Petersen, N. Rajpoot, N. Rieke, J. Saez-Rodriguez, C. S´anchez Guiti´errez, S. Shetty, M. van Smeden, C.H. Sudre, R. Summers, A.A. Taha, S.A.Tsaftaris, B. Van Calster, G. Varoquaux, P. J¨ager: "Metrics Reloaded - new recommendation framework for biomedical image analysis validation" MIDL 2022.
F.S.Varn, K.C.Johnson, J.Martinek, J.T.Huse, M.P.Nasrallah, P.Wesseling, L.A.Cooper, T.M.Malta, T.E.Wade, T.S.Sabedot, D.J.Brat, P.V.Gould, A.Wöehrer, K.Aldape, A.Ismail, F.P.Barthel, H.Kim, E.Kocakavuk, N.Ahmed, K.White, S.Sivajothi, I.Datta, J.S.Barnholtz-Sloan, S.Bakas, F.D'Angelo, H.K.Gan, L.Garofano, M.Khasraw, S.Migliozzi, D.R.Ormond, S.H.Paek, E.G.V.Meir, A.M.Walenkamp, C.Watts, M.Weller, T.Weiss, K.Palucka, L.F.Stead, L.M.Poisson, H.Noushmehr, A.Iavarone, R.G.Verhaak, GLASS Consortium: “Longitudinal analysis of diffuse glioma reveals cell state dynamics at recurrence associated with changes in genetics and the microenvironment” Cancer Research 2022.
S. Albarqouni, S.Bakas, S.Bano, M.J.Cardoso, B.Khanal, B.Landman, X.Li, C.Qin, I.Rekik, N.Rieke, H.Roth, D.Sheet: , “Distributed, Collaborative, and Federated Learning, and Affordable AI and Healthcare for Resource Diverse Global Health" LNCS 2022.
S.P.Thakur, S.Pati, R.Panchumarthy, D.Karkada, J.Wu, C.Sako, P.Shah, S.Bakas: “Optimization of Deep Learning based Brain Extraction for Low Resource Environments” Springer - LNCS 2022.
S.Pati, V.Sharma, H.Aslam, S.P.Thakur, H.Akbari, A.Mang, S.Subramanian, G.Biros, C.Davatzikos, S.Bakas: “Estimating Glioblastoma Biophysical Growth Parameters Using Deep Learning Regression” Springer – LNCS 2021.
J.Guo, A.F.Kazerooni, H.Akbari, E.Toorens, C.Sako, E.Mamourian, C.Koumenis, S.Bagley, R.A.Lustig, D.O’Rourke, T.Ganguly, S.Bakas, M.Nasrallah, C.Davatzikos: “Canonical correlation analysis in glioblastoma reveals associations between expression of radiomic signatures and genomics" Neuro-Oncology 2021.