Fromer Group Members
Graduate Students
- Tianming Zhou (CBD/SCS/CMU, PhD student, 2018-2024; received PhD degree in 10/2024) → Machine Learning Engineer at Affirm
[CBD Outstanding Research Accomplishment Award (2023; Honorable Mention in 2021, 2022)]
PhD Dissertation: Integrative Machine Learning Models for Spatial Biology
- Kyle Xiong (CBD/SCS/CMU, PhD student, 2017-2023; received PhD degree in 02/2023) → Computational Biologist at WashU.
[CPCB NIH T32 Trainee (2017-2019)]
PhD Dissertation: Application of machine learning algorithms to reveal 3D genome compartmentalization patterns
- Ruochi Zhang (CBD/SCS/CMU, PhD student, 2017-2022; received PhD degree in 08/2022) → Eric and Wendy Schmidt Center Fellow at the Broad Institute (mentors: Bonnie Berger and Jason Buenrostro).
[2020 CBD PhD Program Outstanding Research Accomplishment]
PhD Dissertation: Charting the landscape of 3D genome organization with graph representation learning
- Yuchuan Wang (Biophysics/UIUC → CBD/SCS/CMU, PhD student, 2015-2022; received PhD degree in 11/2021) → Scientist at Illumina AI Lab.
PhD Dissertation: Computational methods for integrative analysis of nuclear genome compartmentalization
- Yang Yang (CS/UIUC → CBD/SCS/CMU, PhD student, 2015-2020; received PhD degree in 12/2020) → Postdoc with Dana Pe'er.
[2018 CBD PhD Program Outstanding Research Accomplishment; 2019 EECS Rising Stars]
PhD Dissertation: Computational methods for multi-species comparison of 3D genome organization and function
[Received CMU SCS Dissertation Award Honorable Mention (2020)]
- Shashank Singh (MLD/SCS/CMU, PhD student w/ Barnabas Poczos, 2016-2018) → Google → Postdoc, Max Planck Institute for Intelligent Systems, Tubingen
[Richard K. Mellon Foundation Presidential Fellowship (2017)]
- Rui Peng (MLD/SCS/CMU, MS student, 2016-2017) → Facebook
- Yang Zhang (BioE/UIUC, PhD student, 2012-2017; received PhD degree in 08/2017) → Research Scientist, Carnegie Mellon
[Received Yee Memorial Fund Fellowship]
PhD Dissertation: Computational approaches for analyzing regulatory regions in the human genome
- Jack P. Hou (BioE/UIUC, MD-PhD student, 2011-2016; received PhD degree in 12/2016) → continue MD
[Received Illinois Distinguished Fellowship; Selected as CSE Fellow]
PhD Dissertation: Computational methods for personalized cancer genomics
- Yang Li (BioE/UIUC, PhD student, 2010-2015; received PhD degree in 08/2015) → Invitae → Now Founder and CEO of AEGICARE, Inc.
[Received Chinese Government Award for Outstanding Self-financed Students Abroad (2015)]
PhD Dissertation: Algorithms for analyzing complex structural variations in cancer genomes
- Xiao-Long Wu (ECE/UIUC, co-advised with Wen-mei Hwu; received PhD degree in 06/2013) → Apple
PhD Dissertation: Tiled iterative genome assembler and approximate multi-genome aligner
- Paul Bissonnette (CS/UIUC, BS-MS 5-Year Program; received MS degree in 06/2014) → Facebook
- Yiyi Liu (BioE/UIUC, PhD student, 2011-2013; received MS degree in 05/2013) → PhD student in Hongyu Zhao's lab at Yale → Now at Citadel
Postdoctoral Fellows / Research Scientists
- Jaebum Kim (Postdoc, 2010-2012) → Associate Professor, Konkuk University, Seoul, Korea
- Ken Yokoyama (Postdoc, 2012-2013 → IGB Fellow at UIUC
- Ashok Rajaraman (Postdoc, 2015-2018) → Industry
- Dechao Tian (Postdoc, 2015-2019) → Associate Professor, Sun Yat-sen University, China
- Weihua Pan (Lane Fellow Postdoc, 2019-2020) → Principal Investigator, Shenzhen Agricultural Genome Research Institute, CAS
- Xiaopeng Zhu (Research Scientist, 2016-2022) → Startup
- Ben Chidester (Project Scientist, 2017-2022) → Scientist, Enable Medicine
Recent Student Researchers / Visitors
- Chang Liu (Tsinghua Yao Class) Summer 2022 → PhD student at CMU SCS
- Mihir Bafna (Georgia Tech CS) Summer 2022 → PhD student at MIT EECS
- Guanghan Wang (Tsinghua CS) Summer 2023 → PhD student at Cornell Tech
- Han Zhang (Shanghai Jiaotong CS) Fall 2023 → PhD student at UCLA CS
- Yufan Cao (Tsinghua EE) Fall 2023 → PhD student at UC Berkeley EECS