Program on Computational Methods in Biomolecular Structures and Interaction Networks

Computational Methods in Biomolecular Structures and Interaction Networks

(9 Jul - 3 Aug 2007)

Jointly organized with Genome Institute of Singapore

Organizing Committee · Confirmed Visitors · Overview · Activities · Membership Application

Confirmed Visitors

(as at 24 Aug 2007)

NAME & AFFILIATION	PERIOD OF VISIT	TENTATIVE TITLE OF TALK
OVERSEAS VISITORS
Chris Bakal Harvard University, USA cbakal@receptor.med.harvard.edu	17 - 21 Jul 2007	Workshop I: Local signaling networks defined by quantitative morphological signatures
Danail Bonchev Virginia Commonwealth University, USA dgbonchev@vcu.edu	8 - 20 Jul 2007	Tutorial I: Networks basics (PPT) Tutorial I: General network patterns (PPT) Workshop I: Networks of interacting metabolic pathways reflect phylogenetic relationships
Andrej Bugrim Genego, Inc., USA andrej@genego.com	11 - 15 July 2007	Tutorial I: Building and using protein interaction networks: industry perspective (PPT) Tutorial I: Elucidation of differential response networks from toxicogenomics data (PPT) Tutorial I: Protein scoring based on significance in biological networks (PPT) Tutorial I: MetaTox: leveraging the power of systems biology for improving drug safety (PPT)
Ralf Bundschuh Ohio State University, USA bundschuh@mps.ohio-state.edu	22 - 28 Jul 2007	Tutorial II: Statistical physics of RNA Tutorial II: Quantitative modeling of force-extension experiments Tutorial II: RNA folding kinetics Tutorial II: MicroRNA target prediction (PDF)
Kwok Sum Cheng The Chinese University of Hong Kong sammuelcheng@cuhk.edu.hk	30 Jul – 3 Aug 2007
Peter Clote Boston College, USA clote@bc.edu	23 Jul - 3 Aug 2007	Tutorial II: RNA - biology and secondary structure Tutorial II: RNA - algorithms Reference: PDF 1, PDF 2, PDF 3, PDF 4, PDF 5 Slides: PDF 1, PDF 2, PDF 3, PDF 4, PDF 5, PDF 6 Workshop II: Probing the secondary structure landscape of RNA Workshop II: Some recent genomics and structural biology web servers
Yong Duan University of California, USA duan@ucdavis.edu	21 - 25 Jul 2007	Tutorial II: Physics-based all-atom modeling of protein dynamics
Haiping Fang Shanghai Institute of Applied Physics, Chinese Academy of Sciences, China fanghaiping@sinap.ac.cn	29 Jul - 3 Aug 2007	Workshop II: Controllable gating of the water permeation across nanoscale channels
Maxim Frank-Kamenetskii Boston University, USA mfk@bu.edu	29 Jul - 4 Aug 2007	Workshop II: Sequence-specific interaction of PNA with duplex DNA
Ramareddy Guntaka University of Tennessee, USA rguntaka@utmem.edu	30 Jul - 4 Aug 2007	Workshop II: Control of fibrosis by the Triple Helix-Forming Oligodeoxyribonucleotides targeting the promoter of Type I Collagen gene
Steve Horvath University of California, USA SHorvath@mednet.ucla.edu	18 - 20 Jul 2007	An overview of weighted gene co-expression network analysis
Alexander Kanapin European Bioinformatics Institute, UK alex@ebi.ac.uk	29 Jul - 4 Aug 2007	Workshop II: Projection of gene-protein networks to functional space of mammalian proteome via alternative splicing
Jessica Lembong Princeton University, USA jlembong@princeton.edu	15 - 20 Jul 2007	Workshop I: Computational and experimental Analysis of signaling pathway crosstalk in developing tissues
Albert Lo The University of Science & Technology, Hong Kong imaylo@ust.hk	16 - 20 Jul 2007
Mahesan Niranjan The University of Sheffield, UK M.Niranjan@Sheffield.ac.uk	29 Jul - 4 Aug 2007	Workshop II: Towards bridging the gap between transcriptome and proteome measurements
Piergiorgio Percipalle Center of Molecular Biology, Sweden piergiorgio.percipalle@ki.se	16 Jul - 3 Aug 2007	Workshop II: The function of actin in gene transcription (PDF) Tutorial II: Gene expression: molecular mechanisms of gene transcription (PDF, PPT) Tutorial II: Gene expression: the mechanisms of mRNA translation and protein synthesis (PDF)
Kumar Selvarajoo Keio University, Japan kumar@ttck.keio.ac.jp	13 - 21 Jul 2007	Workshop I: Interpreting the signaling dynamics of innate immune cells using E-Cell
Chi Kin Tai The Chinese University of Hong Kong s056658@mailserv.cuhk.edu.hk	30 Jul – 3 Aug 2007
Masa Tsuchiya Keio University, Japan tsuchiya@ttck.keio.ac.jp	16 - 21 Jul 2007	Workshop I: Dynamic transcriptional control of gene expressions using sequential logic model (Cellogica)
Wei Zhang M. D. Anderson Cancer Center, USA wzhang@mdanderson.org	15 - 21 Jul 2007	Workshop I: Modeling of genetic regulatory networks: a data-driven process
Xianghong Jasmine Zhou University of Southern California Los Angeles, USA xjzhou@usc.edu	15 - 20 Jul 2007	Functions, networks, and phenotypes by integrative genomics analysis (PPT)
LOCAL VISITORS
Yu Zong Chen National University of Singapore chen_yu_zong@nus.edu.sg	9 Jul - 3 Aug 2007	Tutorial I: Computer simulation of biological pathways and network crosstalk based on mass action laws (PPT)
Neil Clarke Genome Institute of Singapore clarken@gis.a-star.edu.sg	9 Jul - 3 Aug 2007	Workshop I: Large-scale inference of condition-specific regulation using gene expression data and the predicted transcription factor occupancy of promoters
Vladimir Kuznetsov Genome Institute of Singapore kuznetsov@gis.a-star.edu.sg	9 Jul - 3 Aug 2007	Tutorial I: Probabilistic models of sampling and emergence of biological networks Tutorial I: Computational identification of the gene sets and pathways controlled by transcription factors on genome-scale (PPT) Workshop I: Sense-antisense human gene expression pairs: data mining and analysis on global genome scale
Hon Wai Leong National University of Singapore leonghw@comp.nus.edu.sg	9 Jul - 3 Aug 2007	Workshop II: Algorithms for peptide sequencing from tandem mass spectrometry
Edison Liu Genome Institute of Singapore liue@gis.a-star.edu.sg	9 Jul - 3 Aug 2007	Tutorial 2: Novel approaches to large-scale identification of protein-DNA interactions and their biological functions in normal and cancer cells
Xiang Yang Liu National University of Singapore phyliuxy@nus.edu.sg	9 Jul - 3 Aug 2007	Micro/nano crystal network: from understanding to design of bio-functional materials
Boon Chuan Low National University of Singapore low_boon_chuan@nus.edu.sg	9 Jul - 3 Aug 2007
Yuguang Mu Nanyang Technological University, Singapore YGMu@ntu.edu.sg	30 Jul – 3 Aug 2007	Workshop II: Hybrid hamiltonian replica exchange based on poisson-boltzmann model
Jagath C. Rajapakse Nanyang Technological University, Singapore asjagath@ntu.edu.sg	9 Jul - 3 Aug 2007	Workshop II: Signal and motif detection in genomic sequences
Chandra Verma Bioinformatics Institute, Singapore chandra@bii.a-star.edu.sg	9 Jul - 3 Aug 2007	Workshop II: Molecular simulations and insights into molecular biology
Limsoon Wong National University of Singapore wongls@comp.nus.edu.sg	12 - 20 Jul 2007	Tutorial I: Increasing confidence of protein-protein interactomes (PDF 1, PDF 2)
Louxin Zhang National University of Singapore zhang_louxin@nus.edu.sg	9 Jul - 3 Aug 2007

REGISTERED LOCAL PARTICIPANTS
Bee Lee Ang National University of Singapore g0601085@nus.edu.sg
Mun Hoe Chan National University of Singapore vic_vicks@hotmail.com
Wen Chen National University of Singapore g0600941@nus.edu.sg
Dev Chatterjee National University of Singapore dev@nus.edu.sg
Kwok Pui Choi National University of Singapore stackp@nus.edu.sg
Niantao Deng National University of Singapore g0600537@nus.edu.sg
Hong Duc Duong National University of Singapore smadd@nus.edu.sg
Liang Kee Goh Duke-NUS Graduate Medical School, Singapore liangkee.goh@gms.edu.sg
Rudiyanto Gunawan National University of Singapore chegr@nus.edu.sg
David Hsu National University of Singapore dyhsu@comp.nus.edu.sg
Willy Hugo National University of Singapore hugowill@comp.nus.edu.sg
Badarinath Karri Institute of Chemical and Engineering Sciences, A*Star, Singapore karri_badarinath@ices.a-star.edu.sg
MD. Atikur Rahman Khan National University of Singapore g0600536@nus.edu.sg
Geoffrey Koh National University of Singapore geoffkoh@yahoo.com.sg
Puay Han Koh National University of Singapore puayhan_87@hotmail.com
Pankaj Kumar National University of Singapore pankaj@nus.edu.sg
Ian Lee Institute of Molecular and Cell Biology, Singapore leehh@imcb.a-star.edu.sg
Leonard Lipovich Genome Institute of Singapore Lipovich@gis.a-star.edu.sg
Xiaohua Ma National University of Singapore g0600417@nus.edu.sg
Pavan Kumar Naraharisetti Institute of Chemical and Engineering Sciences, A*Star, Singapore n_pavankumar@ices.a-star.edu.sg
Kang Ning National University of Singapore ningkang@comp.nus.edu.sg
Thanneer Malai Perumal National University of Singapore g0601086@nus.edu.sg
Suresh Kumar Poovathingal National University of Singapore g0600766@nus.edu.sg
Lakshminarayanan Samavedham National University of Singapore chels@nus.edu.sg
Lisa Tucker-Kellogg National University of Singapore tucker@comp.nus.edu.sg
Rong Wang National University of Singapore smawr@nus.edu.sg
Yulin Weng National University of Singapore wengyulin@nus.edu.sg
Jingye Yang National University of Singapore, Singapore yangjingye@gmail.com
Qianna Yao Nanyang Technological University, Singapore yaoqianna@gmail.com
Hang Yu Nanyang Technological University, Singapore yh0532@gmail.com
Faraaz Yusufi Biporocessing Technology Institute, Singapore faraaz_yusufi@bti.a-star.edu.sg
Hailei Zhang National University of Singapore hailei@nus.edu.sg
Feng Zhu National University of Singapore g0600439@nus.edu.sg

Organizing Committee · Confirmed Visitors · Overview · Activities · Membership Application