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RESEARCH TEAM

Student Researchers

Weiduo (Amanda) Zhu, BS Electrical Engineering and Computer Science '25, MIT

Spring 2022-Present. Research in Machine Learning and Medicine with Pratik Shah at MIT.

Steven Raphael, BS Electrical Engineering and Computer Science '24, MIT

Summer 2021-Present. Research in Machine Learning and Medicine with Pratik Shah at MIT.

More information about Steven.

Bradley Bunch, BS Electrical Engineering and Computer Science '25, MIT

January 2022-Present. Research in Machine Learning and Medicine with Pratik Shah at MIT.

More information about Bradley.

Postdoctoral Associates

Sambuddha Ghosal, Ph.D. Mechanical Engineering with a minor in Electrical Engineering '19, Iowa State University

Fall 2019-Present. Postdoctoral Associate with Pratik Shah at MIT.

Hyung-Jin Yoon, Ph.D. Mechanical Engineering and MS Applied Mathematics '19, University of Illinois at Urbana-Champaign

Fall 2019-Summer 2020. Postdoctoral Associate with Pratik Shah at MIT.

Research Collaborators

Muthuraman Alagappan, MD.  Attending Physician University of California San Francisco, Department. M_MED-CORE-HOSP ; Email. muthuraman.alagappan@ucsf.edu

Alarice Lowe, MD.  Associate Professor - University Medical Line, Pathology, Stanford Hospitals and Clinics

Rohit Karnik, Ph.D. Professor-  Department of Mechanical Engineering, Massachusetts Institute of Technology.

United States FDA. The Office of Science and Engineering Laboratories, Center for Devices and Radiological Health.

Co-advised Students

Mary Tellers Strawser and Emily Hanhauser.  Department of Mechanical Engineering, Massachusetts Institute of Technology.

Past Trainee Students, Postdoctoral Associates and Research Staff

Past Trainees

Students

1. Audrey Xie, BS Electrical Engineering and Computer Science '24,  MIT

Fall 2020-Summer 2021.  Research in Machine Learning and Medicine with Pratik Shah at MIT.

More information about Audrey

Publications with Dr. Pratik Shah:

1. 2021. Uncertainty quantified deep learning for predicting dice coefficient of digital histopathology image segmentation.                                                                                                                                                                                    Sambuddha Ghosal, Xie A and Shah P

arXiv preprint arXiv:2109.00115.

2. Shree Mohan, BS Electrical Engineering and Computer Science '24, MIT

Fall 2020-Summer 2021.  Research in Machine Learning and Medicine with Pratik Shah at MIT.

More information about Shree

3. Saketh Gabbita, BS Electrical Engineering and Computer Science '24, MIT

Fall 2020-Spring 2021. Research in Machine Learning and Medicine with Pratik Shah at MIT.

4. Connor Anderson, BS Electrical Engineering and Computer Science '21,  MIT

Fall 2019-Spring 202O. Undergraduate Research in Machine Learning and Medicine with Pratik Shah at MIT.

Publications with Dr. Pratik Shah:

1. 2021. Automated end-to-end deep learning framework for classification and tumor localization from native nonstained pathology images
   Akram Bayat, Anderson C and Shah P
   Proc. SPIE 11596, Medical Imaging 2021: Image Processing, 115960A (15 February 2021); doi: 10.1117/12.2582303

5. Michael Gilbert, BS Electrical Engineering and Computer Science '22, MIT

Fall 2019-Spring 2020. Undergraduate Research in Machine Learning and Medicine with Pratik Shah at MIT.

6. Elizabeth Zhou, BS Electrical Engineering and Computer Science '21, MIT

Fall 2019-Spring 2020. Undergraduate Research in Machine Learning and Medicine with Pratik Shah at MIT.

7. Sharon Wu, BS Computer Science and Molecular Biology '17, MIT

2017. Undergraduate Research Opportunities Program trainee with Dr. Pratik Shah.
UAP: Undergraduate Advanced Project: Microbial pathogenicity island prediction using convolutional neural network.
Now - Research technician Massachusetts General Hospital, Boston, MA.

Publications with Dr. Pratik Shah:

1. 2017. Near-infrared transillumination guides administration of dental 2D radiography and CBCT imaging
   Keith Angelino, Edlund D, Bhatia G, Wu S, Shah P
   17th annual IEEE International Conference on BioInformatics and BioEngineering, DOI: 10.1109/BIBE.2017.00-33

8. Alicia Chong Rodriguez, MS Integrated Design and Management '18, MIT

2016-2017. MISTI-MIT Peru fund trainee with Dr. Pratik Shah.
Now - Founder and CEO of Bloomer HealthTech. TED fellow, class of 2021.

Recognitions

• Taking on gender gaps in health care and technology

Graduate student Alicia Chong Rodriguez uses her engineering skills to empower women.

• Meet the 2021 class of TED Fellows

Health care technology entrepreneur  Alicia Chong Rodriguez makes smart medical devices that gather often overlooked data on heart disease in women, a frequently misdiagnosed and under-researched killer.uses her engineering skills to empower women.

9. Yachi (Judy) Chang, BS Computer Engineering '16, MIT

2015. Undergraduate Research Opportunities Program trainee with Dr. Pratik Shah.
UAP: Undergraduate Advanced Project: Virtual reality in healthcare.
Now - Software engineer Square.

Postdoctoral Associates

1. Akram Bayat, Ph.D. Computer Science '18, University of Massachusetts Boston

Fall 2019-Summer 2020. Postdoctoral Associate with Pratik Shah at MIT.

Recognitions

• MIT NEWS article on research contributions to computational staining research published in JAMA Network

• Selection of SPIE medical imaging conference publication  for Deep-Dive session

Publications with Dr. Pratik Shah:

1. 2021. Automated end-to-end deep learning framework for classification and tumor localization from native nonstained pathology images
   Akram Bayat, Anderson C and Shah P
   Proc. SPIE 11596, Medical Imaging 2021: Image Processing, 115960A (15 February 2021); doi: 10.1117/12.2582303
2. 2020. Use of deep learning to develop and analyze computational hematoxylin and eosin staining of prostate core biopsy images for tumor diagnosis
   Aman Rana, Lowe A, Lithgow M, Horback K, Janovitz T, Da Silva A, Tsai H, Shanmugam V, Bayat A and Shah P
   JAMA Netw Open. 2020;3(5):e205111. doi:10.1001/jamanetworkopen.2020.5111

Research Staff

1. Aman Rana, BS and MS Robotics Engineering, Worcester Polytechnic Institute

2017-2019. Senior Research Support Associate with Pratik Shah at MIT.
Now - Applied Research Scientist at Amazon, Cambridge, MA.

Recognitions

• MIT NEWS article on research contributions to computational staining research published in JAMA Network

Publications with Dr. Pratik Shah::

1. 2019. Use of deep learning to develop and analyze computational hematoxylin and eosin staining of prostate core biopsy images for tumor diagnosis
   Aman Rana, Lowe A, Lithgow M, Horback K, Janovitz T, Da Silva A, Tsai H, Shanmugam V, Bayat A, Shah P
   JAMA Network
2. 2019. Automated process incorporating machine learning segmentation and correlation of oral diseases with systemic health
   Gregory Yauney, Rana A, Javia P, Wong L, Muftu A, Shah P
   41st IEEE International Engineering in Medicine and Biology Conference
3. 2019. Digital reconstruction of teeth using near-infrared light
   Keith Angelino, Yauney G, Rana A, Muftu A, Edlund D, Shah P
   41st IEEE International Engineering in Medicine and Biology Conference
4. 2018. Computational histological staining and destaining of prostate core biopsy RGB images with generative adversarial neural networks
   Aman Rana, Yauney G, Lowe A, Shah P
   17th IEEE International Conference of Machine Learning and Applications, DOI: 10.1109/ICMLA.2018.00133
5. 2018. Machine learning algorithms for classification of microcirculation images from septic and non-septic patients
   Perikumar Javia, Rana A, Shapiro NI, Shah P
   17th IEEE International Conference of Machine Learning and Applications, DOI: 10.1109/ICMLA.2018.00097
6. 2017. Automated segmentation of gingival diseases from oral images
   Aman Rana, Yauney G, Wong L, Muftu A, Shah P
   IEEE-NIH 2017 Special Topics Conference on Healthcare Innovations and Point-of-Care Technologies, DOI: 10.1109/HIC.2017.8227605

2. Gregory Yauney, BS Computer Science, Brown University

2016-2018. Technical Associate with Dr. Pratik Shah at MIT.
Now - Ph.D. Student Computer Science Department, Cornell University, Ithaca, NY.

Recognitions

• MIT NEWS article on research contributions to deep learning and medical research 

Publications with Dr. Pratik Shah:

1. 2019. Automated process incorporating machine learning segmentation and correlation of oral diseases with systemic health
   Gregory Yauney, Rana A, Javia P, Wong L, Muftu A, Shah P
   41st IEEE International Engineering in Medicine and Biology Conference
2. 2019. Digital reconstruction of teeth using near-infrared light
   Keith Angelino, Yauney G, Rana A, Muftu A, Edlund D, Shah P
   41st IEEE International Engineering in Medicine and Biology Conference
3. 2018. Reinforcement learning with action-derived rewards for chemotherapy and clinical trial dosing regimen selection
   Gregory Yauney, Shah P
   Proceedings of the 3rd Machine Learning for Healthcare Conference, PMLR 85:161-226
4. 2018. Technology-enabled examinations of cardiac rhythm, optic nerve, oral health, tympanic membrane, gait and coordination evaluated jointly with routine health screenings: an observational study at the 2015 Kumbh Mela in India
   Pratik Shah^, Yauney G^, Gupta O, Patalano V, Mohit M, Merchant R, Subramanian SV
   The British Medical Journal Open, PMID: 29678964. ^ Equal contribution
5. 2018. Computational histological staining and destaining of prostate core biopsy RGB images with generative adversarial neural networks
   Aman Rana, Yauney G, Lowe A, Shah P
   17th IEEE International Conference of Machine Learning and Applications, DOI: 10.1109/ICMLA.2018.00133
6. 2017. Convolutional neural network for combined classification of fluorescent biomarkers and expert annotations using white light images
   Gregory Yauney, Angelino K, Edlund D, Shah P
   17th annual IEEE International Conference on BioInformatics and BioEngineering,DOI: 10.1109/BIBE.2017.00-37
7. 2017. Automated segmentation of gingival diseases from oral images
   Aman Rana, Yauney G, Wong L, Muftu A, Shah P
   IEEE-NIH 2017 Special Topics Conference on Healthcare Innovations and Point-of-Care Technologies, DOI: 10.1109/HIC.2017.8227605
8. 2017. Clinical validation and assessment of a modular fluorescent imaging system and algorithm for rapid detection and quantification of dental plaque
   Pratik Shah, Angelino K, Edlund D, Mohit M, Yauney G
   BMC Oral, 2017, PMID: 29284461

3. Keith Angelino, BS and MS Biomedical Engineering, Case Western Reserve University

2016-2018. Technical Associate with Dr. Pratik Shah at MIT. 
Now - At startup.

Publications with Dr. Pratik Shah:

1. 2019. Digital reconstruction of teeth using near-infrared light
   Keith Angelino, Yauney G, Rana A, Muftu A, Edlund D, Shah P
   41st IEEE International Engineering in Medicine and Biology Conference
2. 2017. Near-infrared transillumination guides administration of dental 2D radiography and CBCT imaging
   Keith Angelino, Edlund D, Bhatia G, Wu S, Shah P
   17th annual IEEE International Conference on BioInformatics and BioEngineering, DOI: 10.1109/BIBE.2017.00-33
3. 2017. Near-infrared imaging for detecting caries and structural deformities in teeth
   Keith Angelino, Edlund D and Shah P
   Journal of Translational Engineering in Health and Medicine, PMID: 28507826
4. 2017. Clinical validation and assessment of a modular fluorescent imaging system and algorithm for detection and quantification of dental plaque
   Pratik Shah^, Angelino K^, Edlund D, Mohit M, Yauney G
   BMC Oral, 2017, PMID: 29284461 ^ Equal contribution
5. 2017. Convolutional neural network for combined classification of fluorescent biomarkers and expert annotations using white light images
   Gregory Yauney, Angelino K, Edlund D, Shah P
   17th annual IEEE International Conference on BioInformatics and BioEngineering, DOI: 10.1109/BIBE.2017.00-37

4. Perikumar Javia, BS and MS Computer Engineering, Arizona State University

2018-2019. Research specialist with Dr. Pratik Shah at MIT. 
Now - Machine Learning Software Engineer at Iterative Scopes, Cambridge, MA.

Publications with Dr. Pratik Shah:

1. 2018. Machine learning algorithms for classification of microcirculation images from septic and non-septic patients
   Perikumar Javia, Rana A, Shapiro NI, Shah P
   17th IEEE International Conference of Machine Learning and Applications, DOI: 10.1109/ICMLA.2018.00097

5. Gaurav Bhatia, MS Electrical Engineering, University of Houston

2016-2017. Senior research support associate with Dr. Pratik Shah at MIT.
Now - Electrical Engineer at Harbor Design and Manufacturing, Baltimore, MD.

Publications with Dr. Pratik Shah:

1. 2017. Near-infrared transillumination guides administration of dental 2D radiography and CBCT imaging
   Keith Angelino, Edlund D, Bhatia G, Wu S, Shah P
   17th annual IEEE International Conference on BioInformatics and BioEngineering, DOI: 10.1109/BIBE.2017.00-33