Jin Chen
Assistant Professor
MSU-DOE Plant Research Laboratory
Department of Computer Science & Engineering

Michigan State University

Tel: (517) 355-5015 (office)
Tel: (517) 353-0697 (lab)
Fax: (517) 353-9168
Email: jinchen@msu.edu
Office: Plant Biology Building 232

Address:
MSU-DOE Plant Research Laboratory
Michigan State University
106 Plant Biology Building
East Lansing, MI 48824-1312 USA


[Research]     [Teaching]     [Publications]    [People]    [Professional Activites]

 

Dr. Jin Chen is an Assistant Professor in the Department of Energy Plant Research Laboratory (PRL) and the Department of Computer Science and Engieering, Michigan State University. He received his Ph.D. in Computer Science from the National University of Singapore (NUS) under the supervision of Dr. Wynne Hsu, Dr. Mong Li Lee and Dr. See-Kiong Ng in 2007. Before joining MSU, he was a postdoctoral research associate in the bioinformatics laboratory of Dr. Seung Y. Rhee at the Carnegie Institution for Science, Stanford University from December 2006 to August 2009.

His research focuses on the development of data mining and computer vision algorithms to solve basic biological problems. He has developed series of algorithms for phenomics data analysis, including inter-functional clustering, heterogeneity pattern recognition, phenotype ontology development, phenotype data quality control, gene ranking, and data visualization. He is also interested in biological network reconstruction using high-dimensional omics data. The algorithms have been used on regulatory module identification, organelle communication mining, and data-driven ontology construction. He has published more than 40 papers in computer science, bioinformatics and plant biology. Currently Dr. Chen's research is supported by NSF, DOE and MSU.

 

 

[Current Funding]

NSF ABI Innovation: A New Framework to Analyze Plant Energy-related Phenomics Data PI (09/01/15 - 08/31/18)

DOE BES: Photosynthetic Energy Capture, Conversion and Storage: From Fundamental Mechanisms to Modular Engineering co-PI (04/01/14 - 04/01/17)



[Software]

Pheno-informatics

High-throughput Plant growth Analysis (HPGA)

High-throughput Plant growth Analysis 2.0 (HPGA 2.0)

Leaf Alignment

Leaf Tracking

Gene Ontology

Cross-category GO Term Similarity Measurement (CroGO)

Integrative Gene Functional Similarity Measurement (InteGO)

Network based GO term Similarity (NETSIM)

Gene Expression Data Analysis

Optimal Timepoint Selection (OTS)

Transcriptional Regulatory Interaction Model (TRIM)

Transcriptional Regulatory Interaction Model v2 (mTRIM)

Pattern Recomposition for the Isolation of Independent Signals (PRIISM)

Protein Interaction Data Analysis

Interaction Reliability by Alternative Path (IRAP*)

 

 


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