Computer Science Project

Xintao Wei

******@**.*****.*** * Bittersweet Rd., Weston, CT 06883

Phone: 857-***-****

Objective:

Full time position in Bioinformatics / Computational Biology

Qualifications:

. 9 years of research experience in Bioinformatics.

. Broad and in-depth knowledge in bioinformatics, computer science,

statistics, and biology.

. Research experience in designing novel bioinformatic approaches for

cancer drug screen based on patients' gene expression profiles from

microarray data sets.

. Expert level in regression modeling and feature discovery/selection.

. Experience with algorithm design and support vector machines.

. Expert level in data mining, data visualization and statistical

analysis, especially in feature selection through large datasets for

classification predictions.

. Experience in handling of missing data.

. Strong abstraction and algorithmic skills, plus quick learning

ability.

Computing and Statistical Skills:

. Programming Languages: Java, Perl, C++, C, JavaScript, SQL, HTML,

Python, etc.

. Operating Systems: Windows 2000/NT/XP, Linux, Unix, Mac, Dos, etc.

. Data Analysis Tools: SAS, R, MatLab, JMP, Excel, Access, Weka, etc.

. Applications: MS Office, Adobe Photoshop, Latex, etc.

Education:

Ph. D. - Computer Science majoring in Bioinformatics

Tufts University Aug. 2010

GPA: 3.83 on a 4.0 scale

M. S. - Computer Science majoring in Bioinformatics

Florida International University Aug. 2003

GPA: 3.69 on a 4.0 scale

B. S. - Microbiology Sichuan University Jul. 1997

Research Experience:

Chemosensitivity Prediction June, 2009 -

Present

Primary Researcher at Genzyme Corp.

Internship and continued collaboration with the genomic computing group at

Genzyme. The project is to design a new approach to predict the

chemosensitivity of chosen cancer drugs for individuals using microarray

data sets. The new approach can be used to guide customized chemotherapy

for individual patients based on the characteristics of individuals'

profiles.

Gene Set Mining Sept. 2008 -

Present

Primary Researcher at Tufts University

The aim of the project is to design a new biclustering method to detect

groups of genes that participate in a cellular process based on microarray

data sets. The identified gene sets can be used to interpret gene

annotations that were previously inadequate for studies on human fetal and

neonatal development.

HIV-host Protein Interactions Sept.

2005 - Aug. 2008

Primary Researcher at Tufts University

This project is to study the characteristics among the HIV-host protein

interaction network and predict the new protein interactions between HIV

proteins and host proteins. The predicted interactions may replenish the

knowledge about HIV and can be used to guide the drug design for AIDS.

Unnatural Gene Detection funded by DARPA Sept.

2006 - Aug. 2007

Primary Researcher at Tufts University

The major goal of this DARPA funded project is to design a new algorithm to

genome-widely identify genes whose evolutionary histories are not

consistent with the rest of the other organisms. The developed software can

be used to distinguish unnatural genes rapidly, accurately, and

efficiently, thus facilitating gene therapy for human patients.

Bionanotechnology in Thermally Stable Proteins Sept.

2003 - Aug. 2004

Researcher at Florida International University

This project was to identify and modify amino acids of thermally stable

proteins to achieve better stability in higher temperature environment.

Degenerate primer design via clustering Jan.

2002 - Aug. 2003

Primary Researcher at Florida International University

I developed and implemented an algorithm for the degenerate primer design.

The new tool facilitates gene molecular cloning from various species.

Teaching Experience:

Teaching Assistant Tufts University Jan.

2005 - May 2007

Algorithm, Data Structure, Computational Biology

Lab Instructor Tufts University Sept.

2004 - Dec. 2004

Introduction to Computer Science

Lab Instructor Florida International University

Jan. 2003 - May 2003

Introduction to Microcomputer Lab

Publications:

. X. Wei, S. Turcan, D. Slonim, "Gene Set Mining by Biclustering

Approach Using Noisy Data", in preparation.

. X. Wei, X. Cao, D. Slonim, "Chemosensitivity Value Prediction by

Genomic Profiling", submitted to the Molecular Cancer Therapeutics.

. S. Turcan, X. Wei, D. Slonim, "A Computational Approach to Mining

Functionally Relevant Gene Sets", submitted to the PSB session on

translational bioinformatics.

. Brady, D. Sculley, X. Wei, C. Brodley, D. Slonim, L. Cowen,

"VirAnalyze: A High-Throughput Approach to Learning Genes Associated

with Pathogenicity in Bacterial Genomes", in preparation.

. X. Wei, L. Cowen, C. Brodley, A. Brady, D. Sculley, D. Slonim, "A

Distance- Based Method for Detecting Horizontal Gene Transfer in Whole

Genomes," Proceedings of the 4th International Symposium on

Bioinformatics Research and Applications (ISBRA 2008), Springer

Lecture Notes in Computer Science.

. V. Renugopalakrishnan, X. Wei, G. Narasimhan, C. S. Verma, P. Li, and

A. Anumanthan, "Enhancement of Protein Thermal Stability: Toward the

design of robust proteins for bionanotechnological applications",

chapter 8 Bionanotechnology: Proteins to Nanodevices, p117-139,

Springer, 2006.

. V. Renugopalakrishnan, R. Garduno-Juarez, G. Narasimhan, C. S. Verma,

X. Wei, and P. Li, "Rational Design of Thermally Stable Proteins:

Relevance to Bionanotechnology", Journal of Nanoscience and

Nanotechnology, 5(11), p1759- 1767, 2005.

. T. Milledge, S. Khuri, X. Wei, C. Yang, G. Zheng, G. Narasimhan,

"Sequence Structure Patterns: Discovery and Applications", Proceedings

of the 6th Atlantic Symposium on Computational Biology and Genome

Informatics (CBG), p1282- 1285, July 2005.

. X. Wei, D. Kuhn, G. Narasimhan, "Degenerate primer design via

clustering", Proceedings of the IEEE Computer Society Bioinformatics

Conference, Stanford, CA, p75-83, August 2003.

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