what can i provide? mark 7/6/04. who am i? fju –bs: computer science information engineering nyu...
Post on 18-Dec-2015
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TRANSCRIPT
What can I provide?
Mark
7/6/04
Who am I?
• FJU– BS: Computer Science Information Engineering
• NYU– MS: CS
• UMDNJ– PHD: Bioinformatics
Bioinformatics
• Sequences
• Protein / Molecular / Drug design
• Image Processing
• Prediction / Data mining / Machine learning
• Others
Sequences
• Fragment assembly
• Sequences alignment, compare, search.
• Trees (Phylogenetic Analysis)
• Microarray analysis
Sequences
Microarray Analysis
Protein
• Protein Structure Modeling & Prediction
• Docking
Protein Structure Modeling & Prediction
• AA sequence– TELTKCKVSHAIKDI
DGYQGISLLEWACVLFHTSGYDTQAVVNDNGSTEYGLFQISDRFW CKSSEFPESENICGISCDKLLDDELDDDIACAKKILAIKGIDYWKAYKPMCSEKLEQWRC EKP
Docking
XK-263 inhibitor binding to HIV-1 Protease
Benzamidine binding to beta-Trypsin
Molecular
• Intermolecular Interactions
• Molecular Dynamics
• Drug Discovery (QSAR)
• Conformational Search (1D, 2D, 3D search)
Intermolecular Interactions / Molecular Dynamics
Example of pulling a sodium ion (large sphere) through the gramacidin A channel
2D 3D search, alignment, QSAR
Image Processing
• Medical Image Processing and Visualization
• 3D Medical Image Processing
3D image processing for MRI
Prediction / Data mining / Machine learning
• Statistic
• Factor Analysis, Trends Analysis
• Neural Network, SVM
Others
• gene prediction, patterns recognition, Protein Classification, finding motifs.
gene prediction
ACCTGGGTCGGGTGCAGACTGCGGAGCGGGCCCTACCGTGTGCGCAGAAAGAGGAGGCGCTTGCCTTCAG CTTGTGGGAAATCCCGAAGATGGCCAAAGACAACTCAACTGTTCGTTGCTTCCAGGGCCTGCTGATTTTT
patterns recognition / finding motifs
Bioinformatics Projects
• Sequences=>Related sequences=>Papers
• Protein Modeling + Molecular Dynamics
• Automatic drug design machine
• Data cleaning
Computer Science
• Software programming
• AT&T – machine which will read emails, answer emails,
score emails, distribute emails.
Thanks
What do you want?
chiangyi at umdnj dot edu