Computer Science and Bioinformatics

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Computer Science and Bioinformatics
Second US-China Computer Science Leadership Summit

• Wang Yadong

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Computer science a multidisciplinary science

• Seeking to develop intelligent machine

Blaise Pascal1642
Charles Babbage1833
ENIAC1944
Fig.from www.sciencemuseum.org.uk
IBM Blue Gene A massively parallel supercomputer
Fromhttp//www.research.ibm.com
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Computer science a multidisciplinary science

• Seeking to make machine more intelligent

• Boolean logic
• Finite state machines
• Formal grammars
• Turing machines
• Recursion
• Garbage collection
• Complexity theory
• Machine learning

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The emerging multidisciplinary research in C.S
Internet and WWW(World Wide Web)
Grid computing Pervasive computing intelligent
searching Service computing
from http//discovermagazine.com/
Human Genome Map
Genome informatics Bioinformatics
From http//www.fotosearch.com/
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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

• Human Genome Project

• Then the omics revolution
• Genomes
• Proteomes
• Transcriptomes
• Epigenetics(-omics)
• Whateveromes (...?)

• GenBank database
• EMBL database
• BLAST
• Algorithm for high-throughout data analysis

Bioinformatics
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Whats next?

• From omics to system biology
• From bench to bedside
• From data to knowledge

• Computational System biology
• Translational bioinformatics
• Bio Knowledge engineering

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Computational system biology on demand
Challenge how to construct descriptive and
predictive models and interacting systems from
the omics data.
Key Areas represenattion, visualization,
modeling, networks of biological entities, and
construct interacting systems .
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Translational bioinformatics
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.
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Fig. from IBM system journal
Translational Medicine and bioinformatics
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Translational bioinformatics
Challenge 1 Managing huge volume of Data
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Translational bioinformatics
Challenge 2 Reducing the knowledge gap
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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

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A human phenome-interactome network of protein
complexes implicated in genetics disorders
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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

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Tongue diagnoses system
Pulse diagnoses system
Computer aided traditional Chinese medicine
diagnoses
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Bioinformatics in HIT
MiR2Disease Database and predication system
MotifModeler Identify transcription factor and
miRNA binding site
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Bioinformatics in HIT

• Gene Mining A Novel and Powerful Ensemble
  Decision Approach to Hunting for Disease Genes
  Using Microarray Expression Profiling.

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Bioinformatics Technology supported by National
High Technology Program Supported

• Seven Research Directions (2001-2005)
• 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

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New Budget Launch Into Bioinformatics Field from
the 863 program (2006-2010)

• 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

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THANK YOU
Second US-China Computer Science Leadership Summit