About

I am currently a postdoctoral associate at Memorial Sloan-Kettering Cancer Center. I graduated from Weill Cornell Medicine with a PhD in Physiology, Biophysics and Systems Biology in 2019 under the supervision of Dr. Ekta Khurana. My research focuses on applying statistcal analysis and machine learning to large-scale multi-omics data in human cancers.

Email: mil2041 [at] med.cornell.edu

[Linkedin] [Google Scholar] [Github]

Non-coding cancer driver web app

• Design a relational database system that stores the non-coding cancer evidences curated from literature.
  
• Develop a front-end web application that provides summary statistics and novel data representation of non-coding cancer evidences across 28 cancer types.

Cancer driver detection

• Develop a new statistical inference method to discover coding and non-coding cancer drivers from 1962 whole -genome sequencing tumor samples. The package uses parallel programming to reduce the run time by 80%.
  
• Integrate multi-omics datasets from WGS, WXS, 1000 genome, ENCODE, Roadmap Epigenomics, ChIP-seq, Hi-C and ChIA-PET.

Paper: Cell Systems. May 22, 2019

Integrated pathway analysis

• Implement “NetBox” algorithm and prepare technical documentations to facilitate pathway analysis.
• Contribute the integrated pathway analysis in three TCGA publications including sarcoma, mesothelioma, and testicular germ cell tumors under the supervision of Professor Chris Sander.

1. Matthew H Bailey, Collin Tokheim, Eduard Porta-Pardo, Sohini Sengupta, Denis Bertrand, Amila Weerasinghe, Antonio Colaprico, Michael C Wendl, Jaegil Kim, Brendan Reardon, Patrick Kwok-Shing Ng, Kang Jin Jeong, Song Cao, Zixing Wang, Jianjiong Gao, Qingsong Gao, Fang Wang, Eric Minwei Liu, Loris Mularoni, Carlota Rubio-Perez, Niranjan Nagarajan, Isidro Cortés-Ciriano, Daniel Cui Zhou, Wen-Wei Liang, Julian M Hess, Venkata D Yellapantula, David Tamborero, Abel Gonzalez-Perez, Chayaporn Suphavilai, Jia Yu Ko, Ekta Khurana, Peter J Park, Eliezer M Van Allen, Han Liang, Michael S Lawrence, Adam Godzik, Nuria Lopez-Bigas, Josh Stuart, David Wheeler, Gad Getz, Ken Chen, Alexander J Lazar, Gordon B Mills, Rachel Karchin, Li Ding, MC3 Working Group, Cancer Genome Atlas Research Network “Comprehensive Characterization of Cancer Driver Genes and Mutations”, Cell 173, 371–385.e18 (2018).

2. Abeshouse, A. et al. “Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas”, Cell 171, 950–965.e28 (2017).

3. Devendra Singh, Joseph Chan, Pietro Zoppoli, Francesco Niola, Ryan Sullivan, Angelica Castano, Eric Minwei Liu, Jonathan Reichel, Paola Porrati, Serena Pellegatta, Kunlong Qin, Zhibo Gao, Michele Ceccarelli, Riccardo Riccardi, Daniel J. Brat, Abhijit Guha, Ken Aldape, John G. Golfinos, David Zagzag, Tom Mikkelsen, Gaetano Finocchiaro, Anna Lasorella, Raul Rabadan, Antonio Iavarone “Transforming and recurrent fusions of FGFR and TACC genes in glioblastoma”; Science 337 (6099), 1231-1235 (2012)

4. Jhih-Bin Chen*, Eric Minwei Liu*, Ting-Rong Chern, Chieh-Wen Yang, Chia-I Lin, Nai-Kuei Huang, Yun-Lian Lin, Yijuang Chern, Jung-Hsin Lin, and Jim-Min Fang “Design and Synthesis of Novel Dual-Action Compounds Targeting Adenosine A2A Receptor and Adenosine Transporter for Neuroprotection”; ChemMedChem 6, 1390-1400 (2011)

5. Nai-Kuei Huang, Jung-Hsin Lin, Jiun-Tsai Lin, Chia-I Lin, Eric Minwei Liu, Chun-Jung Lin, Wan-Ping Chen, Yuh-Chiang Shen, Hui-Mei Chen, Jhih-Bin Chen, Hsing-Lin Lai, Chieh-Wen Yang, Ming-Chang Chiang, Yu-Shuo Wu, Jiang-Fan Chen, Jim-Min Fang, Yun-Lian Lin, and Yijuang Chern “A new drug design targeting the adenosinergic system for Hungtington’s disease”; PLoS ONE 6(6), e20934 (2011)

• CNCDatabase: A full-stack database systems to organzie and query non-coding cancer driver evidences from literature.

• CNCDriver: Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers.

• netboxr: an R package for integrative pathway analysis.

• Email: mil2041 [at] med.cornell.edu

• 413 E 69th Street Belfer Research Building New York, NY 10021