Perelman School of Medicine at the University of Pennsylvania

Shen Lab

Lab Members


Faculty

Li Shen, PhD, FAIMBE

Li Shen, PhD, FAIMBE
Professor of Informatics / Interim Director, Division of Informatics
 li.shen@pennmedicine.upenn.edu
 215-573-2956

Dr. Li Shen is Professor and Interim Director of Division of Informatics in the Department of Biostatistics, Epidemiology and Informatics at the Perelman School of Medicine in the University of Pennsylvania. He obtained his Ph.D. degree in Computer Science from Dartmouth College. His research interests include medical image computing, biomedical informatics, machine learning, network science, imaging genomics, multi-omics and systems biology, Alzheimer’s disease, and big data science in biomedicine. 

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Collaborator

Mansu Kim, PhD

Mansu Kim, PhD
Collaborator
 Mansu.Kim@pennmedicine.upenn.edu

Dr. Mansu Kim is an Assistant Professor at the Catholic University of Korea. He was a postdoc fellow in the Shen Lab at Penn. He received his PhD degree in Electronics and Electrical Engineering from the Sungkyunkwan University. His research interests include machine learning, imaging genetics, medical image computing, bioinformatics, and biomedical data science.

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Postdoctoral Fellows

Joseph D. Romano, PhD

Joseph D. Romano, PhD
Postdoctoral Fellow, co-mentored by J Moore and L Shen
 Joseph.Romano@pennmedicine.upenn.edu

Dr. Joe Romano is a postdoctoral researcher in Penn's Institute for Biomedical Informatics and Center of Excellence in Environmental Toxicology. His research focuses on using translational bioinformatics and artificial intelligence to make new discoveries in toxicology and systems pharmacology.

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Sumita Garai, PhD

Sumita Garai, PhD
Postdoctoral Fellow
 Sumita.Garai@pennmedicine.upenn.edu

Dr. Sumita Garai obtained her Ph.D. degree in Mathematics with a specialization in Algebraic Number Theory from the Penn State University. Her research interests include applied mathematics, machine learning, and biomedical data science.

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Shu Yang, PhD

Shu Yang, PhD
Postdoctoral Fellow
 Shu.Yang@pennmedicine.upenn.edu

Dr. Shu Yang obtained his Ph.D. degree in Computer Science at the University of British Columbia. His research interests include computational biology, bioinformatics algorithm, data mining, and machine learning.



Research Specialists

Sophia TumSuden, BA

Sophia TumSuden, BA
Research Specialist
 sophia.tumsuden@pennmedicine.upenn.edu

Sophia TumSuden graduated Washington University in St. Louis in May 2021 after studying computational biology and computer science. Her research interests include translational informatics and precision medicine.

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Zixuan Wen, BS, MA

Zixuan Wen, BS, MA
Research Specialist
 Zixuan.Wen@pennmedicine.upenn.edu

Zixuan Wen received her MA degree in Applied Mathematics and Computational Science from University of Pennsylvania. Her research interests include applied mathematics, machine learning, and biomedical data science.



PhD Students

Jingxuan Bao, BS, MA

Jingxuan Bao, BS, MA
PhD Student
 Jingxuan.Bao@Pennmedicine.upenn.edu

Jingxuan Bao is a PhD student in Genomics and Computational Biology at Penn. He received his MA degree in Applied Mathematics and Computational Science from University of Pennsylvania. His research interests include machine learning, applied mathematics, imaging genomics, biomedical data science.

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Yun Hao, BS, MA

Yun Hao, BS, MA
PhD Student, co-mentored by J Moore and L Shen
 Yun.Hao@pennmedicine.upenn.edu

Yun Hao is a PhD student in the Graduate Group in Genomics and Computational Biology at Penn. He received MA degree in Biomedical Informatics from Columbia University. His research focuses on developing deep learning models to predict drug toxicity and explain cellular mechanisms of toxicity.


Matthew Lee, BS

Matthew Lee, BS
PhD Student (Rotation in Fall 2021)
 Matthew.Lee1@Pennmedicine.upenn.edu

Matthew Lee is a PhD student in Genomics and Computational Biology at Perelman School of Medicine. He received his BS degree in Biomedical Informatics and Finance from Arizona State University. His research interests include machine learning, deep learning, translational informatics, and precision medicine.

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Manu Shivakumar, BS

Manu Shivakumar, BS
PhD Student (Rotation in Spring 2022)
 Manu.Shivakumar@pennmedicine.upenn.edu

Manu Shivakumar is a PhD student from the Graduate Group in Genomics and Computational Biology (GCB) at Perelman School of Medicine. He is interested in biomedical informatics, disease-disease networks, risk prediction, multi-omics and cancer genomics

Google Scholar


Alexa Woodward, BS, MS

Alexa Woodward, BS, MS
PhD Student, co-mentored by J Moore, R Urbanowicz and L Shen
 Alexa.Woodwardg@pennmedicine.upenn.edu

Alexa Woodward is a PhD student in the Graduate Group in Epidemiology and Biostatistics at Penn. She received her MS degree in Bioethics/Medical Ethics from Columbia University. Her research interests span genetic epidemiology and bioinformatics and center around capturing and characterizing genetic and other types of heterogeneity in complex diseases.

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Frederick Xu, BS

Frederick Xu, BS
PhD Student
 fredxu@seas.upenn.edu

Frederick Xu is a PhD student in Bioengineering at Penn. He received his BS degree from the Johns Hopkins University with major in Biomedical Engineering and minor in Computer Science and Math. His research interests include medical image computing, machine learning, biomedical engineering, and biomedical data science.

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Qipeng Zhan, BS, MS

Qipeng Zhan, BS, MS
PhD Student
 qipengz@sas.upenn.edu

Qipeng Zhan is a PhD student in Applied Mathematics and Computational Science at Penn. He received his MS degree in Applied Mathematics from ETH Zürich. His research interests include applied mathematics, deep learning and related statistical and computational problems.



Master's Students

Aaron Chacko, BS

Aaron Chacko, BS
Master's Student
 Aaron.Chacko@uphs.upenn.edu

Aaron is a Biomedical Informatics student who is passionate about the intersection of medicine and technology. His research interests include machine learning, precision medicine, and data mining.

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Yanbo Feng, BS

Yanbo Feng, BS
Master's Student
 yanbof@seas.upenn.edu

Yanbo Feng is an MS student in Bioengineering at Penn. He joined the Shen lab in November, 2021. He is interested in machine learning, deep learning, and brain-computer-interface.


Brian Lee

Brian Lee
Undergraduate Student with Accelerated Master's Status
 leebn@sas.upenn.edu

Brian is a master’s student in the Bioengineering program and undergraduate in the Biology department at Penn (C’22, GEng ’23). He was a CASURG scholar in 2020. He is broadly interested in using computational techniques to make sense of biological/biomedical data; currently, he studies multi-omics and genetic data to better understand biological contributors to Alzheimer’s disease.

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YuhJong Liu

YuhJong Liu
Master's Student
 yuhjong@seas.upenn.edu

YuhJong is an MS student in Scientific Computing at the School of Engineering and Applied Sciences. He is interested in applying data science techniques to analyze large biomedical datasets.


Yamei Lu, BA

Yamei Lu, BA
Master's Student
 luyamei@upenn.edu

Yamei is an MS student in the Data Analytics Master of Science in Social Policy program in the School of Social Policy & Practice. She is interested in applying machine learning and big data techniques to real-world biomedicine problems.

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Ruiming Ray Wu

Ruiming Ray Wu
Undergraduate Student with Accelerated Master's Status
 wuru@seas.upenn.edu

Ray is a master’s student in the Data Science program and undergraduate in the Bioengineering and Computer and Information Science programs at Penn. His research interests include machine learning, network analysis, and brain interface.

Linkedin


Boning Tong, BS

Boning Tong, BS
Master's Student
 boningt@seas.upenn.edu

Boning Tong is an MS student in Bioengineering at Penn. She joined the Shen lab in January, 2021. She is interested in applying machine learning method to detect Alzheimer’s disease using multimodal brain imaging and data.


Jia Xu, BS

Jia Xu, BS
Master's Student
 jiaxu7@upenn.edu

Jia Xu is a master's student in the Data Analytics Master of Science in Social Policy program in the School of Social Policy & Practice. She is passionate about applying machine learning and big data science in biomedicine. Her research interests include machine learning, data mining, and biomedical data science.



Undergraduate Students

Jackson Dooley

Jackson Dooley
Undergraduate Student

Jack Dooley is a current Bioengineering student at Penn. He is interested in biomedical data science and using big data to help understand current healthcare problems.

Linkedin


Jin-seo Kim

Jin-seo Kim
Undergraduate Student

Jin-seo is a CIS and Cognitive Science student at Penn, and an undergraduate Kwanjeong International Scholar. His research interests include neuroscience and computer science.


Augustin Liu

Augustin Liu
Undergraduate Student

Augustin is a CIS and Physics student at Penn.


Jeffery Qu

Jeffery Qu
Undergraduate Student

Jeffrey is currently studying Computer and Information Science at Penn. He joined the Shen Lab as part of the PURM program in May 2020. He is interested in applying machine learning for outcome prediction within healthcare.

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