Gengxin Chen

 

Cold Spring Harbor Laboratory

P.O. Box 100, 1 Bungtown Road

Cold Spring Harbor, NY 11724

(516) 367-6956 (office)

cheng@cshl.edu

 

Education

Ph.D./Neural Science (December, 1998)

Indiana University, Bloomington

M.S./Computer Science (August, 1998)

Indiana University, Bloomington

M.S./Biomedical Engineering (July, 1991)

Zhejiang University, Hangzhou, China

B.S./Biomedical Engineering (July, 1988)

Zhejiang University, Hangzhou, China

                                   

Work Experience

04/00 - present

Postdoc/Scientific Programmer, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724

10/98 – 04/00

Research Associate, Physiology Dept., Dartmouth-Hitchcock Medical Center, Lebanon, NH 03756

Summer 1997

Unix System Administrator, Speech & Hearing Science Dept., Indiana University, Bloomington, Indiana

09/95 – 12/97

Programmer for Neural Science, Dept. of Psychology, Indiana University, Bloomington, Indiana

09/94 – 05/95

Teaching Assistant, Dept. of Psychology, Indiana University, Bloomington, Indiana

08/91 – 06/93

Instructor, Education Center for Commodity Inspection, Zhejiang University, Hangzhou, Zhejiang, China

 

Honors

Starr Fellowship, spring, 1998, Indiana University

Research Fellowship, 1993-1994, Indiana University

Guanghua Scholarship, 1990, Zhejiang University

Excellent Graduate of Zhejiang University, 1988

Zhu Kezhen Scholarship, 1987, the highest prize at Zhejiang University

First-class Scholarship (top 1%), 1986, 1985, 1984, Zhejiang University

First-prize, Zhejiang University Freshman Mathematics Competition, 1984

 

Teaching and Invited Talk

·       Computer Lab - Analysis of Yeast Cell-Cycle Microarray Data and Promoter Binding Site Prediction (September 24, 2001), The Genome Course, Watson School of Biological Science, Cold Spring Harbor.

·       Computer Lab - Microarray Data Analysis with S-plus (August 8-10, 2001), Microarray Data Analysis Workshop, Yang-Ming University, Taipei.

·       Microarray Data Analysis - Clustering and PCA (April 23, 2001), CSHL Microarray Core.

 

Journal Publications

Xuan, Z., Zhao, F., Wang, J., Chen, G., Zhang, M.Q. (Submitted) Improving promoter prediction by incorporating sequence conservation.

Sumazin, P., Chen, G., Hata, N., Smith, A., Zhang, T. and Zhang, M.Q. (2004) DWE: Discriminating Word Enumerator. Bioinformatics, (In Press)

Chen, G., Hata, N. and Zhang, M.Q. (2004) Transcription Factor Binding Element Detection Using Functional Clustering of Mutant Expression Data, Nucleic Acids Research, 32: 2362-2371

Chen, G., Banerjee, N., Jaradat, S.A., Tanaka, T.S., Ko, M.S.H. and Zhang, M.Q. (2002) Evaluation and Comparison of Clustering Algorithms in Analyzing ES Cell Gene Expression Data, Statistica Sinica, 12: 241-262

Curran, A. K., Chen, G., Darnall, R. A., Filiano, J. J., Li, A. and Nattie, E. E. (2000) Lesion or Muscimol Dialysis in the Rostral Ventral Medulla Reduces Ventilatory Output and the CO2 Response in Decerebrate Piglets, Respiration Physiology, 123: 23-37

Chen, G. and Steinmetz, J. E. (2000) Intra-Cerebellar Infusion of NMDA Receptor Antagonist AP5 Disrupts Classical Eyeblink Conditioning in Rabbits, Brain Research, 887: 144-156

Sun, M., Hildebrandt, L., Curran, A. K., Darnell, R., Chen, G. and Filiano, J. J. (2000) Potassium Permanganate Can Mark the Site of Microdialysis in Brain Sections, Journal of Histotechnology, 23: 151-154

Chen, G. and Steinmetz, J. E. (2000) Microinfusion of Protein Kinase Inhibitor H7 into the Cerebellum Impairs the Acquisition but not the Retention of Classical Eyeblink Conditioning in Rabbits, Brain Research, 856: 193-201

Chen, G. and Steinmetz, J. E. (1998) A General Purpose Computer System for Behavioral Conditioning and Neural Recording Experiments, Behavior Research Methods, Instruments, & Computers, 30(3): 384-391

 

Meeting Abstracts/Presentations

Chen, G. and Zhang, M.Q. (2003) BEAUTI: A Simple Algorithm to Detect TF Binding Elements Using Mutant Expression Array Data, Systems Biology: Genomic Approaches to Transcriptional Regulation, Cold Spring Harbor, New York, March 6 – 9, 2003

Chen, G. and Zhang, M.Q. (2002) A Comparison Of Spearman Rank Correlation and Linear Correlation as Similarity Metrics to Identify Co-Regulated Genes in Microarray Expression Data Analysis, the 15th Annual Meeting on Genome Sequencing & Biology, Cold Spring Harbor, New York, May 7 – 11, 2002

Chen, G. and Zhang, M.Q. (2002) Characterization and Prediction of the Nanos Response Element with Sequence Analysis in Drosophila, the Sixth Annual International Conference on Research in Computational Molecular Biology, Washington DC, April 18 – 21, 2002

Chen, G., Banerjee, N., Jaradat, S.A., Tanaka, T.S., Ko, M.S.H. and Zhang, M.Q. (2001) Critical Post-Clustering Procedures in the Analysis of ES Cell Gene Expression Data, the 14th Annual Meeting on Genome Sequencing & Biology, Cold Spring Harbor, New York, May 9 – 13, 2001

Chen, G., Banerjee, N., Jaradat, S.A., Tanaka, T.S., Ko, M.S.H. and Zhang, M.Q. (2001) Refinement of Microarray Data Analysis Methods Using the Expression Data of 15,000 Genes During Mouse ES Cell Differentiation, Cold Spring Harbor Winter Biotechnology Conference on Stem & Progenitor Cells: Biology & Applications, Cold Spring Harbor, New York, March 22 – 25, 2001

Jaradat, S.A., Tanaka, T.S., O’Neill, L., Chen, G., Banerjee, N., Zhang, M.Q., Boheler, K.R. and Ko, M.S.H. (2001) Microarray Analysis of the Genetic Reprogramming of Mouse ES Cells During Differentiation, Keystone Symposium on Pluripotent Stem Cells: Biology and Application, Durango, Colorado

Chen, G. and Steinmetz, J.E. (1997) Intra-cerebellar infusion of NMDA receptor antagonist AP5 disrupts classical eyeblink conditioning in rabbits. Society for Neuroscience Abstracts, 23: 783

Chen, G. and Steinmetz, J.E. (1996) Infusion of protein kinase inhibitor H‑7 into the cerebellum impairs the acquisition of classical eyeblink conditioning. Society for Neuroscience Abstracts, 22: 1644

Chen, G., Qi, B., and Tang, Y. (1992) His-Bundle Potential Detection by Multichannel Adaptive Filtering, 14th Annual Conference of IEEE/Engineering in Medicine and Biology Society, Paris, France

Chen, G., Qi, B., Tang, Y. and Huang, D. (1991) Fast Extraction of His-Bundle Potential, Proceedings of 1991 Annual National Conference on Biomedical Electronics, Measurement, Information & Control, Shanghai, China