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August 27 (Day 1) InCoB2007 - HKUST
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08:00-17:00
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Registration for "Workshops on Bioinformatics"
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09:00-10:30
Session 1
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Tutorial 1:
EGEE Grid Computing for Life Sciences using gLITE
Jose R Valverde | Tutorial 1 PPT (20Mbs - Large)
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Tutorial 2:
Building Bioinformation: the BioWiki Initiative
Jong Bhak | Tutorial 2 talk | competition
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10:30-11:00
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Break
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11:00-12:30
Session 2
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Tutorial 1: cont'd
Jose R Valverde
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Tutorial 2: cont'd
Jong Bhak |
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12:30-13:30
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Lunch |
13:30-15:00
Session 3
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Tutorial 3:
Configuring P2P for
Wide Area Narrow Band
Large Dataset Dissemination
Amornrat Phongdara
Tutorial 3 material
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Tutorial 4:
Integrated Bioinformatics in Genomics and Proteomics Studies:
Coordinated Regulation of Molecular Networks underlying Targeted Therapy in Leukemia
Zhang Ji, Kankan Wang
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15:00-15:30
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Break |
15:30-17:00
Session 4
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Tutorial 3: cont'd
Amornrat Phongdara
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Tutorial 4: cont'd
Zhang Ji, Kankan Wang
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August 28 (Day 2) InCoB2007 - HKUST
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08:00-17:00
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Registration
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09:00-09:30
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Opening Ceremony
Chiang Chen Lecture Theatre (LT-J)
- Welcoming remarks by Prof. Tony Eastham | PPT |
Acting Vice-President for Research and Development, HKUST
- Speech from Guest of Honour
Mrs Regina Ip, Chairperson of Board of Governors, Savantas Policy Institute
- Official Speech - President, ISCB, Professor Burkhart Rost
Delivered by Professor Shoba Ranganathan
- Official Speech - President, APBioNet and InCoB Co-Chairperson
Professor Shoba Ranganathan | PPT |
- Greetings from Hanoi by Prof Dr Nguyen Huu Duc, Rector, Coltech, Vietnam National University | Opening Speech from Hanoi |
- Group Photo Taking
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09:30-10:30
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Session 1
Session Chair: C1 Shoba Ranganathan
Plenary Keynote: P1
How Bioinformatics Helped Reveal the Human Metabolome
Professor David Wishart
University of Alberta | PDF |
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10:30-11:00
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Break |
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Session 2:
Data Storage and Data Mining
Session Chair: C2
Pak-Chung Sham
Dept of Psychiatry, HKU
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Session 3:
Sequence Analysis
Session Chair: C3
Michael Ng
Dept of Mathematics, HKBU
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11:00-11:30
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Invited Speaker: I1
Bioinformatics Workflow Integration info
Yike Guo
Imperial College London;
Shanghai Bioinformatics Institute
and Inforsense
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Invited Speaker: I2
A Novel Knowledge Based Method for the Prediction of Transcription Factor Targets
Yu-Dong Cai
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CAS-MPG Partner Institute for Computational Biology, Shanghai
and Ziliang Qian
Bioinformatics Center, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences
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11:30-13:00
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Oral Presentations: 01-04
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Exploitation of Structural Similarity in Semi-Structured Bioinformatics Data for Efficient Storage Construction
Dongkyoo Shin | PPT |
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Analyzing the Simplicial Decomposition of Spatial Protein Structures
Rafael Ordog | PPT |
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Improved General Regression Network for Protein Domain Boundary Prediction
Paul D. Yoo | PPT |
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Identification of human-to-human transmissibility factors in PB2 proteins of influenza A by large-scale mutual information analysis
Olivo Miotto | PPT |
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Oral Presentations: 05-08
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CrossWA: A new approach of combining pairwise and three-sequence alignments to improve the accuracy for highly divergent sequences alignment
Che-Lun Hung | PPT |
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Using a Robust Homolog Peptide Search Method to Improve Protein Secondary Structure Prediction
Ei-Wen Yang and Wen-Lian Hsu | PPT |
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Tandem Duplication, Circular Permutation, Molecular Adaptation: How Solanaceae Resist Pests via Inhibitors
Lesheng Kong | PPT |
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A Bioinformatics Approach to Improving Prediction of Programmed Ribosomal Frameshifting
Chin Lung Lu and Yen Lin Huang | PPT |
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13:00-14:00
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Lunch and
| APBioNet AGM agenda | PPT report |
Report on BioWiki Competition - Jong Bhak
Report on BioWorkflow Competition - Yike Guo or representative |info|
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Session 4:
Bio-Ontologies and Vocabularies
Session Chair: C4
Mary Waye
Dept of Biochemisty, CUHK
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Session 5:
Genome Analysis
Session Chair: C5
Man-Yu Wong
Dept of Mathematics, HKUST
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14:00-14:30
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Invited Speaker: I3
Data Mining for Bioinformatics: Some Challenging Problems
Qiang Yang
HKUST | PPT |
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Invited Speaker: I4
Finding distinct biclusters from background in gene expression matrices
Zhengpeng Wu
Bioinformatics Division, TNLIST and Department of Automation, Tsinghua University, Beijing 100084, China
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14:30-16:10
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Oral Presentations: 09-O11
- Rule-based Knowledge Aggregation for Large-Scale Protein Sequence Analysis of Influenza A Viruses
Olivo Miotto | PPT |
- Being a Binding-Site: Characterizing Residue-Composition of Binding Sites on Proteins
Zoltan Szabadka and Vince Grolmusz | PPT |
- Towards ontology-driven navigation of the lipid bibliosphere
Christopher Baker and Low Hong Sang | PPT |
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Oral Presentations: 012-015
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Multivariate hierarchical Bayesian model for differential gene expression analysis in microarray experiments
Hongya Zhao
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A Bayesian Framework for Eucaryotic Promoter Recognition
Jia Zeng
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On sparse Fisher Discriminant Method for microarray data analysis
Eric Fung
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Unique Probe Selector (UPS): A Comprehensive Web Service for Probe Design and Oligo Nucleotide Arrays
Cheng-Yen Li
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16:10-16:30
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Break |
16:30-17:30
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Session 6
Session Chair: C6 Hannah H Xue
Plenary Keynote: P2
Topic: The complexity of the human genome transcriptional landscape
Professor Roderic Guigó
Head, Bioinformatics and Genomics Program, Center for Genomic Regulation,
Professor, Universitat Pompeu Fabra, Barcelona, Spain. | PPT |
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17:30-18:30
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Posters (odd numbers)
Instructions |
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August 29 (Day 3) InCoB2007 - HKUST (late afternoon and evening at HK Science Park)
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08:00-17:00
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Registration
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09:00-10:00
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Session 7
Session Chair: C7 Shoba Ranganathan
Plenary Keynote: P3
Topic: Evolution teaches predicting protein function
Professor Burkhard Rost
Columbia University | PDF |
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10:00-10:30
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Break |
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Session 8:
Text Mining
Session Chair: C8
Hong Yan
Dept of Computer Engineering, CityU
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Session 9:
Structural Bioinformatics
Session Chairs: C9
Chandra Verma
Bioinformatics Institute, Singapore
and
Guang Zhu
Dept of Biochemistry, HKUST
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10:30-11:00
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Invited Speaker: I5
Latent Structure Models and Statistical Foundation for Traditional Chinese Medicine
Nevin Zhang*
The Hong Kong University of Science & Technology | PPT |
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Invited Speaker: I6
Bioinformatics-guided Target Selection in Human Liver Structural Proteomics Project
Zhi-Jie Liu
Institute of Biophysics, Chinese Academy of Sciences (absent)
Bioinformatics of Disease: immune epitope prediction
Shoba Ranganathan
Macquarie University | PPT
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11:00-12:30
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Oral Presentations: 016-020
- Transmembrane helix prediction using amino acid property features and latent semantic analysis
Madhavi Ganapathiraju | PPT |
- Effective Reranking for Extracting Protein-protein Interactions from Biomedical Literature
Deyu Zhou and Chee Keong Kwoh | PPT|
- Functional Gene Clustering via Gene Annotation Sentences, MeSH and GO Keywords from Biomedical Literature
Jeyakumar Natarajan | PPT|
- Exploiting Likely-Positive and Unlabeled Data to Improve the Identification of Protein-Protein Interaction Articles
Richard Tsai and Wen-lian Hsu | PPT|
- A Cascaded Approach to Normalising Gene Mentions in Biomedical Literature
Hui Yang (pre-recorded) | PPT|
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Oral Presentations: 021-025
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Modeling Escherichia coli signal peptidase complex with bound substrate: determinants in the mature peptide influencing signal peptide cleavage
Justin Choo, JC Tong and Shoba Ranganathan | PPT |
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Homology Modeling of GPR30 Receptor and Identification of Allosteric Inhibitors to GPR30 Receptor, with reference to its role in ER-ve Breast Cancer
Ayush Saxena (Absent)
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Modelling the structures of G protein-coupled receptor aided by three-dimensional validation
Siavoush Dastmalchi | PPT |
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Functional Site Prediction Selects Correct Protein Models
Vijayalakshmi Chelliah | PPT |
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Preferential Binding of Allosteric Modulators to Active and Inactive Conformational States of Metabotropic Glutamate Receptors
Naveena Yanamala | PPT |
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12:30-13:00
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Lunch and
BioWiki Presentation | PPT|
InCoB ExCo Meeting (by invitation only)
Selection and Voting of the InCoB 2008 Venue
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13:00-13:30
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ISCB Student Council presentation
on ISCB-SC and Regional Student Group RSG-Korea
by Sungsoo Kang and Joshua Yang | PPT |
(All are Welcome)
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Session 10:
Pathways, Networks & Systems Biology
Session Chair: C10
Shea-Ping YIP
Dept of Health Technology & Informatics, PolyU
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Session 11:
Transcriptome Analysis
Session Chair: C11
Nelson Tang
Dept of Chemical Pathology, CUHK
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13:30-14:00
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Invited Speaker: I7
Motif-directed network component analysis for regulatory network inference
Jianhua Xuan
Department of Electrical and Computer Engineering, Virginia | PPT |
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Invited Speaker: I8
Organization of the Caenorhabditis elegans small non-coding transcriptome by Rnomics, tiling array and bioinformatics
Runsheng Chen
Institute of Biophysics, Chinese Academy of Sciences | PPT|
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14:00-15:40
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Oral Presentations: 026-O29
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SynechoNET: integrated protein-protein interaction database of a model cyanobacterium Synechocystis sp. PCC 6803
Sungsoo Kang | PPT |
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Pattern Detection and Co-methylation Analysis of Epigenetic Features in Human Embryonic Stem Cells
Ben Niu | PPT |
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ARPPI: A knowledge-based model for protein-protein interactions
Jinn-Moon Yang | PPT|
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MicroRNA regulation in Arabidopsis thaliana
Qing Zhang and Diane Guo | PPT|
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Oral Presentations: 030-033
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Improving the Prediction of RNA Secondary Structure by Detecting and Assessing Conserved Stems
Xiaoyong Fang | PPT
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In silico analysis of expressed sequence tags (EST) from Trichostrongylus vitrinus (Nematoda): comparison of the automated ESTExplorer workflow platform with database searches
Shivashankar H. Nagaraj | PPT |
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Micro Designer- a standalone tool for designing micro-RNA
Chandrasekharan Hariharan
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GS2PATH: An Integrated Analysis Tool for Finding Functional Relationships Using Gene Ontology and Pathways
Jin Ok Yang | PPT |
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15:40-16:00
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Posters (even numbers)
Instructions
Note: all posters to be removed by 1610h |
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16:10-16:45
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Travel by 3 coaches from HKUST to HK Science Park for
- Special Plenary Keynote by Professor Minoru Kanehisa at HKSTP New Auditorium
- Special Tour of HK Science Park sponsored by HKSTP
- InCoB 2007 Gala Dinner at HK Science Park Happiness Cuisine Restaurant sponsored by HKSTP.
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17:00-18:00
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Session 12
Session Chair: C12 Shoba Ranganathan
Plenary Keynote: P4
Topic: Genome to Life and Environment
Professor Minoru Kanehisa | PDF |
Director, Bioinformatics Center,
Institute for Chemical Research, Kyoto University, Japan
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18:00-19:00
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HK Science Park Video Show and Special Tour
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19:00-21:30
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Conference Gala Dinner (HK Science Park)
Return Trip at 21:30 - Buses will take you back, one to HKUST, to Kowloon Tong KCR Station and to TsimShaTsui MTR Station.
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August 30 (Day 4) InCoB2007 - HKUST
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08:00-10:00
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Registration
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Session 13:
Bioinformatics of Disease
Session Chair: C13
Weichuan Yu
Dept of Electronic & Computer Engineering, HKUST
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Session 14:
Evolution and Phylogenetics
Session Chair: C14
Qiang Yang
Dept of Computer Science & Engineering, HKUST
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09:00-09:30
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Invited Speaker: I9
Computational Identification of Natural Antisense Transcripts in Arabidopsis thaliana
Xiu-Jie Wang
Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
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Invited Speaker: I10
Delineation of Root of Life and Origin of Eukaryotes from Transfer RNA Sequences
Jeffrey Tze-Fei Wong
Hong Kong University of Science & Technology
| PPT|
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09:30-10:45
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Oral Presentations: 034-038
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Iterative local Gaussian clustering for expressed genes identification linked to malignancy of human colorectal carcinoma
Ito Wasito
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Hotspot Hunter: a computational system for large-scale screening and selection of candidate immunological hotspots in pathogen proteomes
Asif M. Khan
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T-cell epitopes prediction of hemagglutinin, neuraminidase and matrix protein of influenza A virus using support vector machine and hidden Markov models
Vo Cam Quy
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Training and applying hidden Markov models and support vector machines for prediction of T cell epitopes
Van Hai Van
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Stability of the core domain of p53: insights from computer simulations.
A.Madhumalar, D J Smith and Chandra Verma
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Oral Presentations: 039-043
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Speedup Bioinformatics Applications on Multicore-based Processor using Vectorizing & Multithreading Strategies
Kridsadakorn Chaichoompu
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SNP@Promoter: A database of human SNPs (Single Nucleotide Polymorphisms) within putative promoter region
Byoung-Chul Kim
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Phyloinformatics of Neuraminidase at Micro and Macro Levels using Grid-enabled HPC Technologies
Bertil Schmidt
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A Generic Evolutionary Method Optimizes Soft Energy Functions for Protein Structure Prediction
Jinn-Moon Yang
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G-protein Coupled Receptor Subfamilies Prediction Based on Nearest Neighbor Approach
Mudassir Khan
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10:45-11:15
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Break |
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11:15-12:15
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Session 15
Session Chair: Tan Tin Wee
Plenary Keynote: P5
Topic: Estimating chromosomal copy number
Professor Terry Speed
Head, Bioinformatics Division,
The Walter and Eliza Hall Institute of Medical Research, Australia
and
Department of Statistics and Program in Biostatistics,
University of California at Berkeley | PPT |
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12:15-12:45
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InCoB 2007 Closing Ceremony
Announcement of Winners of BioWiki Competition, Dr Jong Bhak, KOBIC
Launch of BioWorkflow Competition, Dr Jack Lin and Dr Yike Guo, Inforsense
|info|
Invitation to InCoB2008
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12:45-14:00
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Invitation to Post-Conference Special Buffet Lunch-
cum-APBioNet Open Dialogue Session
Session Co-Chairs:
Professor Shoba Ranganathan, President APBioNet
Professor Hannah Xue, Board Director, ISCB
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IMPT: Change in
Programme
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New! Nansha Workshop relocated to HKUST
As Post-Conference Workshop, HKUST, Lecture Theatre J.
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August 30 (Day 4) Post-InCoB07 Workshop - HKUST
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14:00-16:00
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Post Conference Workshop (Relocated from Nansha)
Session Chair: Tan Tin Wee
Topic: Workflow Integration in the Life Sciences
| more info |
Dr Jack Jiancheng Lin, Zong-ming Guo and Jun Gao.
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16:00-17:00
Workshop Closing Keynote Session
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Session Chair: Professor Hannah Xue
Post-Conference Workshop Plenary Keynote
Topic: Causes of regulatory variation in the human genome
Dr Emmanouil (Manolis) Dermitzakis
The Wellcome Trust Sanger Institute, Cambridge, UK | PPT |
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18:00-21:30
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Special Outing to SeaFood Dinner
(Please contact registration desk to sign up)
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August 31 (Day 5) Post-InCoB2007 Symposium - Nansha
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morning
session |
Workshop 1:
(Nansha Bioinformatics Lab)
Transferred to HKUST
on day before (Thurs, Aug 30)
Workflow integration in the Life Sciences
| more info |
Yike Guo
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Workshop 2:
Postponed ASEAN-China BioCyberinfrastructure Workshop
Tan Tin Wee
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afternoon
session
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Nansha Symposium, Nansha IT Park
Post-Conference Symposium Keynote
Topic: Causes of regulatory variation in the human genome
Dr Emmanouil (Manolis) Dermitzakis
The Wellcome Trust Sanger Institute, Cambridge, UK
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Workshop 3: (Postponed to 6-7 Sep 2007)
Traditional Chinese Medicine: Informatics
Hannah Xue Hong
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