Harbin Institute of Technology Computer Science and Bioinformatics Wang Yadong Second US-China Computer Science Leadership Summit

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Seeking to develop intelligent machine Computer science: a multidisciplinary science Blaise Pascal:1642 Charles Babbage:1833 ENIAC:1944 IBM: Blue Gene A massively parallel supercomputer Fig.from From:

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 3 Seeking to make machine more intelligent Computer science: a multidisciplinary science ―Boolean logic ―Finite state machines ―Formal grammars ―Turing machines ―Recursion ―Garbage collection ―Complexity theory ―Machine learning

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit 4 Grid computing Pervasive computing intelligent searching Service computing … Human Genome Map Genome informatics Bioinformatics The emerging multidisciplinary research in C.S Internet and WWW(World Wide Web) from From

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit 5 Bioinformatics on demand Challenge Genome Annotation Sequence Assembly Physical Mapping Protein folding / Docking Protein-protein interaction Finding Binding Site Motifs Transcriptional Regulation Post-transcriptional Regulation Histone modification DNA methylation Drug discovery Then the “omics” revolution Genomes Proteomes Transcriptomes Epigenetics(-omics) “Whatever”omes (...?) Human Genome Project GenBank database EMBL database BLAST Algorithm for high-throughout data analysis Bioinformatics

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit 6 What’s next? From “omics” to system biology From bench to bedside From data to knowledge Computational System biology Translational bioinformatics Bio Knowledge engineering

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 7 Computational system biology: on demand Challenge: how to construct descriptive and predictive models and interacting systems from the “omics” data. Gene regulatory network Protein-Protein interaction network Metabolic Network Signaling network Cell Simulation Key Areas: represenattion, visualization, modeling, networks of biological entities, and construct interacting systems.

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 8 The Human Genome – A Starting Point Not an Endpoint. But now the real challenge – translating this base of knowledge into meaningful diagnostics and innovative new therapies and treatments, and to achieve the promise of personalized medicine….Information technology will play a decisive, transformative role. Translational bioinformatics

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Fig. from IBM system journal Translational Medicine and bioinformatics

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 10 Source: UC Berkeley, School of Information Management and Systems. 0 C.E ,000 BCE cave paintings bone tools 3500 writing paper printing 1870 electricity, telephone transistor 1947 computing The Web Digital Cardiology Electronic Medical Record E-Health Initiatives/Linkages Digital Radiology 1999 Late 1960s Internet P e t a b y t e s More Data Over the Last 3 Years Than Previous 40,000 years Combined Digital Pathology Genomics Challenge 1: Managing huge volume of Data Translational bioinformatics

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 11 Challenge 2: Reducing the knowledge gap Translational bioinformatics

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 12 Translational bioinformatics The goal of translational bioinformatics is to enable the transformation of increasingly voluminous genomic and biological data into diagnostics and therapeutics for the clinician Key research areas: Data : Integration of increasingly voluminous biological and clinical data Knowledge: Newly found knowledge from these integrative efforts that can be represented, stored, retrieved, and disseminated Algorithm: To integrate genetic, genomic, proteomic, animal model, and clinical measurements are needed for the next step

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 13 A human phenome-interactome network of protein complexes implicated in genetics disorders

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 14 The Bioinformatics In Harbin Institute of Technology  2001 established the Bioinformatics Division,  2001 Set up the bachelor program. This program provides three areas of study computer science molecular biology bioinformatics  2001 established the center for bio-computing, research focus on Biometrics and Computer aided traditional Chinese medicine diagnoses. Biomedical informatics Simulation of biology structure

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Page 15 Tongue diagnoses system Pulse diagnoses system Computer aided traditional Chinese medicine diagnoses

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Bioinformatics in HIT MiR2Disease: Database and predication system MotifModeler: Identify transcription factor and miRNA binding site Gene expression levels Transcription factors Transcriptional initiation 5’ upstream regulatory region microRNA-induced mRNA degradation 3’ un-translated region

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit Gene Mining: A Novel and Powerful Ensemble Decision Approach to Hunting for Disease Genes Using Microarray Expression Profiling. Bioinformatics in HIT Virtual heart Petri nets based e-cell

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit 18 Bioinformatics Technology supported by National High Technology Program Supported Seven Research Directions: ( ) Technology for Bio-Data Acquisition and Mining Technology for Bio-Data Application Structure Genomics and Proteomics Molecular and Drug Design Bio-Chip High-Throughput Drug Screening Novel Drugs Total budget: ~40 million USD

Harbin Institute of Technology Computer Science and Bioinformatics Second US-China Computer Science Leadership Summit 19 New Budget Launch IntoBioinformatics Field from the 863 program ( ) New Budget Launch Into Bioinformatics Field from the 863 program ( ) Topic Program : Bioinformatics and Bio-computing Key Program: Drug design and Molecular design National Program:  Functional genomics and protoemics  Major disease related molecular genotype and personal health care Total budget: ~70 million USD

Harbin Institute of Technology THANK YOU Second US-China Computer Science Leadership Summit