lunes, 1 de octubre de 2007

About Systems Biology & Synthetic Biology


What physics was to the 20th century, biology will be to the 21st, and Quantitative Biology (Systems Biology and Synthetic Biology) will be a vital part of it.

Systems Biology is a merger of Systems and Control Theory with Molecular and Cell Biology.

Systems biology aims to explain how higher level properties of complex biological systems arise from the interactions among their parts. This new field requires a fusion of concepts from many disciplines, including biology, computer science, applied mathematics, physics and engineering.

Systems Biology is about "quantitative, predictive and dynamical biology". The ultimate aim of "quantitative, predictive and dynamical biology" is a reliable computational model of the cell, and a "Integrative Systems Physiology" model of the organism. It has a tremendous economic potential for pharmaceutical, and biotech industry. And in the case of the neuronal cell it also has a tremendous economic potential for computer companies.


Perhaps the most excitement about systems biology lies in the area of predictive, preventive and personalized medicine. Predictive, preventive and personalized medicine has the potential to transform medicine by decreasing morbidity and mortality due to chronic diseases such as cancer, Parkinson’s and diabetes.

Also in "Systems Biology" it is very important discovering the "DESIGN PRINCIPLES" (quantitative laws that govern the behavior of biological systems) which are common in physics and engineering, but so far have eluded biology. If we discover the "Design Principles" we will be able to design biological systems having desired properties (of that SYNTHETIC BIOLOGY consists).

What is Synthetic Biology?

Synthetic biology is the engineering of biology: the synthesis of complex, biologically based (or inspired) systems which display functions that do not exist in nature. This engineering perspective may be applied at all levels of the hierarchy of biological structures –from individual molecules to whole cells, tissues and organisms. In essence, synthetic biology will enable the design of 'biological systems' in a rational and systematic way.

This distinctive new approach promises solutions to some of today's most pressing and difficult problems in environmental protection, human health and energy production. It also provides an alternative perspective from which to consider, analyze and ultimately understand our living world.


Some useful mathematical tools in Systems Biology are Control Theory, Complex Adaptive Systems Theory, Computational Intelligence, Complex Networks Theory, Dynamical Systems theory, Nonlinear Dynamics, Process Algebra, and Stochastic Processes. But it is also very important to develop new experimental techniques to validate the theoretical analysis.


Interesting Videos:


The Music of Life: A new view on Nature and Nurture


Mathematical Modeling of Cell Signalling Pathways



SOME INTERESTING QUOTES:


" We are interested in how biological molecules communicate with each other, and how this communication encodes the processing of information. How do biomolecules recognize one another, and how do their interactions transduce signals? How do molecules build up "modules" that act as "adaptors", "switches" and feedback-loops? How are modules wired together into the networks responsible for regulation and decision processes observed in biology? " Tanja Kortemme (UCSF)

"Controlled gene expression using engineered in-vivo digital-logic circuits and intercellular communications enables programmed cell behavior that is complex, predictable and reliable." Ron Weiss (PhD Thesis Statement, MIT)

"Life is a relationship among molecules and not a property of any molecule." Linus Pauling

"The aim of science is not things in themselves but the relations between things; outside these relations there is no reality knowable." Henri Poincare

"Systems Biology: Understanding of biological network behaviors, and in particular their dynamic aspects, which requires the utilization of mathematical modeling tightly linked to experiment." WTEC

The biological agenda of Systems Biology should subsequently be defined by the following two questions related to intra- and intercellular processes within a cell and in cell populations:
  • How do the components within a cell interact, so as to bring about its structure and realise its functioning?
  • How do cells interact, so as to develop and maintain higher levels of organization and function?

Olaf Wolkenhauer (University of Rostock) and Mihajlo Mesarovic (Case Western Reserve University)

Journals related to Systems & Synthetic Biology

IET Synthetic Biology


IET Systems Biology


Springer - Systems and Synthetic Biology


BMC Systems Biology


Nature - Molecular Systems Biology


PLoS - Computational Biology


Elsevier - Biosystems


World Scientific - Journal of Bioinformatics and Computational Biology


World Scientific - Journal of Biological Systems


Journal of the Royal Society - Focus on Systems Biology


Biophysical Journal


RSC Publishing - Molecular Biosystems


PNAS


Virtual Journal of Biological Physics Research


EURASIP Journal on Bioinformatics and Systems Biology


In Silico Biology

Articles related to Systems & Synthetic Biology

WTEC Study on International Research and Development of Systems Biology

Synthetic Biology Applying Engineering to Biology

Systems Biology: A Brief Overview (Hiroaki Kitano)

Analyzing the Biology on the System Level (Wei Tong)

Feedback dynamics and cell function - Why systems biology is called Systems Biology (Olaf Wolkenhauer and Mihajlo Mesarovic)

Computational Systems Biology (Hiroaki Kitano)

Can a Biologist Fix a Radio? — or, What I Learned while Studying Apoptosis (Y. Lazebnik)

Microbes Made to Order

BOOK - Olaf Wolkenhauer - Systems Biology: Dynamic Pathway Modelling

Bioengineering and Systems Biology

An Introduction to Systems Biology (Wolkenhauer and Kitano)

An assessment of systems biology - IBM

From molecular to modular cell biology

Modularity and Dynamics of Cellular Networks

Molecular Systems Biology and Dynamics - An Introduction for non biologists

Network Dynamics and Cell Physiology

Some new directions in control theory inspired by systems biology

Synthesis and Analysis of a Biological System - Tokyo Univ

Systems Biology - from physiology to gene regulation

The Dynamic Systems Approach to Control and Regulation of IntraCellular Networks

The long journey to a Systems Biology of neuronal function

Systems biology: The reincarnation of systems theory applied in biology

The Role of Control and Systems Theory in Systems Biology

Biological Robustness

Circuit diagrams for biological networks

Engineering novel life

From systems biology to synthetic biology

Integrating scientific cultures

Modularizing gene regulation

Synthetic biology - new engineering rules for an emerging discipline

The gene and the genon concept - a functional and information-theoretic analysis

The intelligent design of evolution

Towards synthesis of a minimal cell

Cell signaling pathways as control modules - Complexity for simplicity

Computational Systems Biology (CSB) - Its future in Europe

Motifs, Control, and Stability

Multiscale biosystems integration

Reverse Engineering of Biological Complexity

Understanding biology by reverse engineering the control

Life as Complex Systems - Viewpoint from Intra-Inter Dynamics

Feedback control theory and the challenges of postgenomic molecular biology

Where you can study Systems Biology

Otto-von-Guericke-Universität Magdeburg - Biosystems Engineering (Undergraduate Program)

University of Stuttgart - Engineering Cybernetics - Systems Biology research option (Bachelor and Master Program)

Jacobs University Bremen - Bioinformatics and Computational Biology (Undergraduate Program)

University of Tokyo - Undergraduate Program for Bioinformatics and Systems Biology

UC Davis - Interdisciplinary Minor in Quantitative Biology and Bioinformatics (Undergraduate Program)

UCLA - Computational And Systems Biology - Undergraduate Interdepartmental Program

Princeton University - "Integrated Science" (Undergraduate Program)

Princeton University - Undergraduate Certificate in Quantitative and Computational Biology

Iowa State University - Bioinformatics and Computational Biology (Undergraduate Program)

Brown University - Computer Sciences Department - Undergraduate Concentration in Computational Biology

Cornell University - Computational Biology Undegraduate Program

Florida State University - Undergraduate Program in Computational Biology

McGill University - Bachelor of Science, Minor in Computational Molecular Biology

Case Western Reserve University - Undergraduate Program in Systems Biology

Case Western Reserve University - Complex Systems Biology Center (Graduate Traning Program)

Binghamton University - Bioengineering Department (Undergraduate and Graduate Program)

Drexel University - Center for Integrated Bioinformatics (Bachelor, Master And Doctoral Program)

The University of North Carolina at Chapel Hill - Bioinformatics and Computational Biology Training Program

Johns Hopkins University - Biomedical Engineering Program (Bachelor, Master and PhD Program)

Ghent University - Department of Plant Systems Biology

McGill University - Human Systems Biology Graduate Track

McGill University - Physiology PhD Program (Quantitative & Computational Concentration)

University of Toronto - Department of Cell and Systems Biology

Freiburg Initiative for Systems Biology

The Microsoft Research - University of Trento Centre for Computational and Systems Biology (Master and PhD program)

Keio University - Center for Biosciences and Informatics (Master and PhD Program)

Kyoto University - Department of Molecular and Systems Biology

Tokyo Medical and Dental University - School of Biomedical Science (Master and PhD Program)

Kanazawa University (Division of Electrical and Computer Engineering) - Bioinfomatics and Robotics - Systems Biology research option (Master Program)

Kanazawa University (Division of Electrical Engineering and Computer Science) - Intelligent Systems and Information Mathematics - Systems Biology research option(Doctoral Program)

Tokyo Tech - Department of Computational Intelligence and Systems Science - Genomic Cybernetics and Synthetic Biology research options (Master and Doctoral Program)

The University of Tokyo - Graduate School of Frontier Sciences - Department of Computational Biology

The University of Tokyo - Graduate School of Frontier Sciences - Department of Complexity Science and Engineering - Complex Systems Group - Complexity and Active Intelligence research option

The University of Tokyo - Graduate School of Frontier Sciences - Department of Frontier Informatics - Evolution and Complex Systems research option

NAIST - Graduate School of Information Science - Systems Biology research option

Osaka University - Graduate School of Frontier Biosciences

Osaka University - Graduate School of Information Science and Technology - Department of Bioinformatic Engineering

Kyushu University - Graduate School of Systems Life Sciences

Waseda University - Graduate School of Science and Engineering - Multidisciplinary Studies - Major in Integrative Bioscience and Biomedical Engineering

Tohoku University - Graduate School of Information Sciences - Intelligent Control Systems research option

Kyushu Institute of Technology - Graduate School of Computer Science and Systems Engineering - Department of Bioscience and Bioinformatics

Weizmann Institute of Science - Bioinformatics-Biology Track

KAIST - Department of Bio and Brain Engineering

POSTECH - Graduate School of Interdisciplinary Bioscience and Bioengineering

Universität Rostock - Computational Engineering - Systems Biology research option (Master of Science Program)

Technical University of Denmark - Biocentrum - MSc in Systems Biology

Telemark University College - Systems and Control Engineering Master Program - Systems Biology research option

Vrije University - Systems Biology (Master Program)

Universiteit van Amsterdam - Bioinformatics and Systems Biology Master Programme

Birkbeck, University of London - MSc Bioinformatics with Systems Biology

Chalmers University of Technology And Göteborg University - Complex Adaptive Systems (Master Program)

Chalmers University of Technology And Göteborg University - Bioinformatics and Systems Biology (Master Program)

KTH (The Royal Institute of Technology) - Master Program in Computational and Systems Biology

KTH (The Royal Institute of Technology) - Ph.D. program in Automatic Control - Systems Biology research option

University of Turku - Biological Interactions - Graduate School

Glasgow University - Department of Computer Sciences - Master Program - Systems Biology and Bioinformatics research option

University of Birmingham - MSc Natural Computation - Systems Biology research option

University College Cork - MSc in Applied Science (Computational Systems Biology)

Universidad Complutense de Madrid - Máster en Bioinformática y Biología Computacional

Universidad CEU San Pablo - Master on Computational Biotechnology

University of Ulster - Bioinformatics (Master program)

University of Ulster - The System Biology Regional Network - PhD projects on Systems Biology

Universidad de Navarra - Máster y Doctorado en Ingeniería Biomédica

UNAM - Center for Genomic Sciences - Programa de Doctorado en Ciencias Biomédicas - Computational Genomics Program

Stony Brook University - BioSystems Group - research opportunities leading to the Ph.D. degree

Stony Brook University - Physiology and Biophysics Graduate program

ETHZ and the University of Zurich - Master program in Computational Biology and Bioinformatics

ETHZ and the University of Zurich - University Research Priority Program Systems Biology / Functional Genomics - PhD projects on Systems Biology

ETHZ and the University of Zurich - Life Sciences Zurich Graduate School (PhD Programs)

ETHZ - Department of Biosystems Science and Engineering

Manchester Centre for Integrative Systems Biology - Doctoral Training Centre

Manchester Interdisciplinary Biocentre

Warwick Systems Biology - Doctoral Training Centre

University College London - CoMPLEX (PhD Programme)

Oxford University - Systems Biology Doctoral Training Centre

The University of Sheffield - Computational Systems Biology Group - PhD Opportunities

International Research Training Group (Berlin-Boston-Kyoto) - Genomics and Systems Biology of Molecular Networks

International Max Planck Research School for Computational Biology and Scientific Computing

Harvard University - Department of Systems Biology (PhD Program)

MIT - Computational and Systems Biology PhD Program

Princeton University - Graduate Program in Quantitative and Computational Biology

UC Irvine - Mathematical, Computational and Systems Biology (Master and Doctoral Program)

UC Merced - Quantitative and Systems Biology (Master and Doctoral Program)

UCSD - Systems Biology (Graduate Education and PostDoctoral Training)

UCSF - Integrative Program in Complex Biological Systems (Graduate Program)

CalTech - Bioengineering Graduate Program - Synthetic and Systems Biology Sub-Option

CalTech - Control and Dynamical Systems Graduate Program - Systems Biology research option

UCSD, Salk Institute and Scripps Research Institute - Plant Systems Biology PhD Program

University of Nebraska–Lincoln - Plant Systems Biology Graduate Program

Virginia Tech - Interdisciplinary PhD Program in Genetics, Bioinformatics, and Computational Biology

Vanderbilt University Medical Center - Department of Molecular Physiology and Biophysics

University of Chicago - Ph.D. program in Biophysical Sciences - Systems Biology and Synthetic Biology research options

Emory University - The Computational and Life Sciences Strategic Initiative

Texas A&M Health Science Center - The College of Medicine - Department of Systems Biology and Translational Medicine (MD/PhD Program)

UT Southwestern Medical Center - Molecular Biophysics Graduate Program - Emphasis in Quantitative Biology

Stanford University - Chemical and Systems Biology Department

Stanford University BIO-X program

Tri-Institutional Training Program in Computational Biology and Medicine (Cornell University, Weill Cornell Medical College And Sloan-Kettering Institute)

UCSB - Integrative Graduate Education and Research Traineeship Program - Systems Biology research option

University of Pennsylvania - Interdisciplinary PhD Program in Genomics and Computational Biology

CMU-Pitt Ph.D. Program in Computational Biology

Arizona State University - Computational Biosciences (Master and PhD Program)

Interdisciplinary And Cross-Institutional PhD Program in Structural and Computational Biology and Molecular Biophysics

Boston University - Graduate Training Program in Quantitative Biology and Physiology

Brandeis University - Interdepartmental Graduate Program in Quantitative Biology

Claremont Graduate University and KGI - PhD in Computational and Systems Biology

Columbia University - Integrated Program in Cellular, Molecular and Biophysical Studies

Cornell University - Physiology, Biophysics and Systems Biology Graduate Program

Cornell University - College of Engineering - Biomedical Engineering Department - Systems Biology research option

Duke University - PhD Program in Computational Biology and Bioinformatics

Rutgers University - PhD Program in Computational Biology and Molecular Biophysics

Indiana University - Systems Biology Graduate Program

Michigan State University - Quantitative Biology and Modeling PhD Program

New York University - PhD Program in Computational Biology

University of Rochester Medical Center - Department of Biostatistics and Computational Biology (Graduate Program)

Northwestern University - Master of Science in Computational Biology and Bioinformatics

UC Berkeley - Graduate Group in Computational and Genomic Biology

UC San Francisco and UC Berkeley - Bioengineering Graduate Program - Computational Biology, Bioinformatics and Genomics research option

Rice University - Bioengineering Graduate Program - Computational and Theoretical Bioengineering Track

UC Riverside - Bioengineering Graduate Program - BioCellular Engineering research option

UCLA - Biomedical Engineering Interdepartmental Program - Biocybernetics research option (Master and Doctoral Program)

University of Virginia - Biomedical Engineering Graduate Program - Computational Systems Bioengineering research option

University of Washington - Bioengineering Graduate Program - Computational and Integrative Bioengineering research option

Purdue University - Biomedical Engineering Graduate Program - Computational and Systems Biology research option

Systems Biology Research Groups

SOME OF THE RESEARCH CENTERS MORE IMPORTANT IN USA:


The Molecular Sciences Institute

Systems Biology at Pacific Northwest National Laboratory

CalTech - Beckman Institute - Biological Network Modeling Center

Institute for Systems Biology

FAS Center for Systems Biology - Systems Biology Research and Resources at Harvard

Harvard University - Center for Cancer Systems Biology

Harvard University - Center for Modular Biology

Harvard University - Computational Biology Initiative

The Johns Hopkins University - The Institute for Computational Medicine

The Johns Hopkins University - The Center for Cardiovascular Bioinformatics and Modeling

Johns Hopkins University - Institute for Multiscale Modeling of Biological Interactions

University of Notre Dame - Interdisciplinary Center for the Study of Biocomplexity

Weill Medical College of Cornell University - Institute for Computational Biomedicine

Institute for Advanced Study - The Simons Center for Systems Biology

UC Irvine - Center for Complex Biological Systems

Princeton University - Lewis-Sigler Institute for Integrative Genomics

California Institute for Quantitative Biosciences

Rutgers University - BIOMAPS Institute for Quantitative Biology

Indiana University - The Biocomplexity Institute

The University of Chicago and Argonne National Laboratories - Institute for Genomics and Systems Biology

Georgia tech - Integrative Biosystems Institute



OUTSTANDING SYSTEMS BIOLOGISTS:

The Molecular Sciences Institute - ROGER BRENT

The Systems Biology Institute - HIROAKI KITANO

HIROAKI KITANO Symbiotic Systems Project

Max Planck Institute for Dynamics of Complex Technical Systems - ERNST DIETER GILLES

Institute for Advanced Biosciences - MASARU TOMITA

Rostock University - Systems Biology And Bioinformatics - OLAF WOLKENHAUER

Texas A&M University - Genomic Signal Processing Laboratory - EDWARD R. DOUGHERTY

CalTech - JOHN DOYLE

The University of Tokyo - Complex Systems Biology - KUNIHIKO KANEKO

Virginia Tech - JOHN TYSON's Computational Cell Biology Lab

University of Washington - HERBERT SAURO's Lab for Computational Systems Biology

ADAM ARKIN Laboratory for Dynamical Genomics (Systems Biology and Synthetic Biology research)

Harvard University - MARC KIRSCHNER Lab

Harvard University - GALIT LAHAV Lab

Pennsylvania State University - RÉKA ALBERT (Systems Biology and Network Biology research)

Tata Institute of Fundamental Research - National Center for Biological Science (at Bangalore) - UPINDER BHALLA Group

KAIST - Laboratory for Systems Biology and Bio-Inspired Engineering - KWANG-HYUN CHO

Mount Sinai School of Medicine - RAVI IYENGAR Laboratory

Vanderbilt University - EMMANUELE DIBENEDETTO Home Page

Vanderbilt University Medical Center - HEIDI HAMM Lab

Johns Hopkins University - PABLO IGLESIAS

The Johns Hopkins University - Signal Transduction and Cell-Cell Communication Lab - ANDRE LEVCHENKO (Systems Biology and Network Biology research)

University of Waterloo - BRIAN INGALLS

Thomas Jefferson University - BORIS KHOLODENKO

Thomas Jefferson University - BORIS KHOLODENKO's Lab for Systems Biology

German Cancer Research Center - URSULA KLINGMÜLLER Group - Systems Biology of Signal Transduction

Glasgow University - Beatson Institute for Cancer Research - WALTER KOLCH

MIT - Cell Decision Process Center - PETER SORGER

MIT - The VAN OUDENAARDEN Systems Biology Lab

MIT - DOUG LAUFFENBURGER Research Group

University of Connecticut Health Center - LESLIE LOEW

Case Western Reserve University - Mihajlo Mesarovic

The Pioneer in the field of Systems Biology - Mihajlo Mesarovic

Case Western Reserve University - Department of Genetics - JOE NADEAU Lab

Indiana University - SANTIAGO SCHNELL

Princeton University - STANISLAV SHVARTSMAN Lab

Virginia Tech - Virginia Bioinformatics Institute - Biochemical Networks Modeling Group - PEDRO MENDES

Rutgers University - EDUARDO SONTAG

UCSD - Bioinformatics and Systems Biology - SHANKAR SUBRAMANIAM

UCSD - TREY IDEKER Lab (Systems Biology and Network Biology research)

IUPUI Biomolecular Engineering Lab - HIROKI YOKOTA / HUI BIN SUN

UCSB - FRANCIS DOYLE Group

Spanish National Biotechnology Centre - Logic of Genomic Systems Lab - JUAN POYATOS (Systems Biology and Synthetic Biology research)

Weizmann Institute of Science - URI ALON Lab

Computational Neurobiology Group - Systems Biology of Neuronal Signalling - NICOLAS LE NOVÈRE

University of Notre Dame - ALBERT-LÁSZLÓ BARABÁSI (Network Biology research)

University of Minessota - FUMIAKI KATAGIRI

Universitat Pompeu Fabra - RICARD SOLÉ (Systems, Synthetic & Network Biology)

Boston University - JAMES COLLINS (Systems Biology & Synthetic Biology)

UC Davis - MICHAEL SAVAGEAU (Systems Biology & Synthetic Biology)



RESEARCH CENTERS IN UNITED KINGDOM AND IRELAND:

Hamilton Institute - Systems Biology

Trinity College Dublin - Centre for Systems Biology

The Centre for Systems Biology at Edinburgh

Warwick Systems Biology Centre

Cambridge Computational Biology Institute

Imperial College London - Centre for Integrative Systems Biology

Imperial College London - Institute of Systems and Synthetic Biology

University of Leicester - Systems Biology Lab

Manchester Centre for Integrative Systems Biology

The University of Nottingham - Centre for Integrated Systems Biology and Medicine

University of Ulster - Computational Systems Biology and Bioinformatics at Jordanstown

University of Leeds - Research Institute of Membrane and Systems Biology

University of Sheffield - Computational Systems Biology

University of Edinburgh - Computational Systems Biology group

CoMPLEX - Centre for Maths and physics in the life sciences and experimental biology

CISBAN - Centre for Integrative Systems Biology of Ageing and Nutrition

University of Hertfordshire - Biocomputation Research Group

John Innes Centre - Department of Computational and Systems Biology

John Innes Centre - Dicks Computational Biology Group

John Innes Centre - Biomolecular Cybernetics group

University of Leeds - Biosystems Research

Cambridge Systems Biology Centre

University of East Anglia - Computational Biology Laboratory

NECSI (New England Complex Systems Institute)

Newcastle University - Statistical Bioinformatics Group

University of Nottingham - Centre for Plant Integrative Biology

University of Nottingham - Multidisciplinary Centre for Integrative Biology

ESIGNET (Evolving Cell Signaling Networks in Silico)

University of Glasgow - Bioinformatics Research Centre

University of Bradford - Computational and Systems Biology Research

Ludwig Institute for Cancer Research - University College London Branch - Bioinformatics and Systems Biology research

Microsoft Research Cambridge - Luca Cardelli

University of Reading - Systems Biology research

University of Essex - Centre for Systems Biology

Institute of Food Research - Theoretical Systems Biology program

University of St Andrews - Institute of Behavioural and Neural Science - Cell and Systems Biology research

Biological Networks - Marcus Kaiser

University of Aberdeen - Systems Biology

The Institute of Cancer Research - Network & Systems Biology Team



RESEARCH CENTERS IN SWITZERLAND AND FRANCE:

EPFL - Integrative Biosciences Institute

EPFL - Laboratory of Computational Systems biotechnology

ETHZ - Institute of Molecular Systems Biology

ETHZ - Computational Systems Biology Group

ETHZ - Reverse Engineering Project

ETHZ - Automatic Control Laboratory - Systems Biology group

Swiss Institute of Bioinformatics

University of Zurich - Andreas Wagner Laboratory

Institut National des Sciences Appliquées de Lyon - Biologie des Systemes et Modelisation Cellulaire

CNRS - Theoretical Biology of Systems

Institut Curie - Computational Systems Biology of Cancer

Institut Pasteur - Systems Biology

Ecole des Mines de Paris - Center for Computational Biology

CNRS - Universités Lille I+II - Interdisciplinary Research Institute

Physical Chemistry 'Curie' - UMR 168 CNRS/Institute Curie, Paris, France



RESEARCH CENTERS IN JAPAN:

Kyushu University - Laboratory for BioInformatics

Japan Science and Technology Agency - The Dynamic Mechanism of and Fundamental Technology for Biological System

Nagoya University - Pattern Formation Group HP

Kyoto University - Bioinformatics Center

Kyoto University - Heart Physiology Lab

Kyoto University - Integrated Systems Biology Laboratory

Tokyo Medical and Dental University - Laboratory of Biosystem Modeling

National Institute of Advanced Industrial Science and Technology - Computational Biology Research Center

University of Tokyo - Kuroda Lab

University of Tokyo - Laboratory for Systems Biology and Medicine

The University of Tokyo, Institute of Medical Science, Human Genome Center, Laboratory of DNA Information Analysis

NAIST - Laboratory for Systems Biology

RIKEN Genomic Sciences Center - Computational and Experimental Systems Biology Group

RIKEN Center for Developmental Biology - Laboratory for Systems Biology

RIKEN - Laboratory for Systems Biology

Tohoku University - Hashimoto-Kagami Laboratory

OIST - Neural Computation Unit

Waseda University - Laboratory for Molecular Cell Network (Systems Biology and Synthetic Biology)

Waseda University - Takamatsu Lab

Keio University - Oka Laboratory

Keio University - Sakakibara Lab

Kyushu Institute of Technology - Kurata Lab (Systems & Synthetic Biology)



RESEARCH CENTERS IN ASIA:

National Central University - Graduate Institute of Systems Biology and Bioinformatics

Chinese Academy of Sciences and German Max Planck Society - Institute for Computational Biology

National Tsing Hua University - The Computational Systems Biology and Bio-Medicine Laboratory

Seoul National University - Bio-MAX Institute

Information and Communications University - Computational Systems Biology Lab

KAIST - Bioinformatics Research Center

KAIST - Molecular Genomics and Medicinal Systems Biology - Prof. Tae Kook Kim

KAIST - Laboratory of Computational Cell Biology

Genome Institute of Singapore

National University of Singapore - Computational Systems Biology Group

National University of Singapore - Computational Biology Laboratory

TEMASEK LifeSciences Laboratory - Plant Systems Biology Group

Bioinformatics Institute - Biomolecular Modelling and Design Group

The Weizmann Institute of Science - Pilpel Lab

The Weizmann Institute of Science - Naama Barkai Group

The Weizmann Institute of Science - Doron Lancet Group

The Weizmann Institute of Science - The Kahn Family Research Center for Systems Biology of the Human Cell

Tel Aviv University - Algorithms in Computational Genomics - Prof. Ron Shamir

The Hebrew University - Computational Molecular Biology Lab

The National University of Malaysia - Institute of Systems Biology

National Centre for Biological Sciences, Bangalore, India



RESEARCH CENTERS IN GERMANY:

Humboldt University - Institute for Theoretical Biology

Stuttgart University - Systems Biology Group

Bielefeld University - Computational Systems Biology of the Brain

EMBL - Heidelberg

German Cancer Research Center - Intelligent Bioinformatics Systems

Jena Centre for Bioinformatics

University of Jena - Biosystems Analysis Group

Leibniz Institute for Age Research and Fritz Lipmann Institute - Theoretical Systems Biology

EML Research

Max Planck Institute for Molecular Genetics - Computational Molecular Biology

Max Planck Institute for Molecular Genetics - Computational Systems Biology Group

Max Planck Institute of Molecular Physiology - Centre of Systems Biology

Systems Biology Forum of the Max-Planck-Society

Freiburg Center for Data Analysis and Modeling

Center for Modelling and Simulation in the Biosciences

Institute for Theoretical Biology - Theoretical Systems Biology - Dr. Markus Kollmann

Universität Bielefeld - Center for Biotechnology - Institute for Genome Research and Systems Biology

Max-Planck Institute for the Physics of Complex Systems - Biological Network Dynamics

Charité Universitätsmedizin Berlin - Computational Systems Biochemistry

Helmholtz Centre for Infection Research - Systems Biology Group

MDC-Berlin - Systems Biology of Gene Regulatory Elements



RESEARCH CENTERS IN EUROPE:

Welcome at BioCentrum Amsterdam

Eindhoven University of Technology - Bioregulation and Systems Biology research program

Netherlands Institute for Systems biology

Technical University of Delft - Systems Biology Center

Centre for Medical Systems Biology

Vrije Universiteit Amsterdam - Systems Biology of Cancer

Institute for Atomic and Molecular Physics - P.R. ten Wolde Group

Institute for Atomic and Molecular Physics - Tans Lab

University of Copenhagen - Niels Bohr Institute - Center for Models of Life

Technical University of Denmark - BioCentrum

Technical University of Denmark - Biocomplex

Technical University of Denmark - Center for Biological Sequence Analysis - Integrative Systems Biology Group

Plant Biotech Denmark - Systems Biology research

Academy of Finland - SYSBIO Research Programme

Åbo Akademi University - Computational Biomodelling Laboratory

Helsinki University of Technology - Computational Systems Biology Research Group

Tampere University of Technology - Computational Systems Biology research group

Tampere University of Technology - Biological Systems Modelling Group

VTT Technical Research Centre of Finland - QBIX - Quantitative Biology and Bioinformatics

BIOCITY TURKU - Systems Biology Research Program

Turku Centre for Biotechnology - Proteomics and Systems Biology

University of Helsinki - Hautaniemi Lab

Goteborg University - Centre for Quantitative Biology

Lund University - The Computational Biology And Biological Physics Group

Fraunhofer-Chalmers Centre - Systems Biology and Bioimaging

Uppsala University - Systems Biology at the Molecular Biology Program - Måns Ehrenberg

KTH (The Royal Institute of Technology) - School of Electrical Engineering - Systems Biology at Automatic Control

Linköping University & Karolinska Institutet - Computational Medicine

University of Bergen - The Computational Biology Unit

Norwegian University of Life Sciences - Centre for Integrative Genetics

University of Trento - Center for Computational and Systems Biology

University of Perugia - SiraLab

TIGEM - Systems Biology Lab

Bioinformatics Lab - Quantitative Systems Biology Group

Institute of Systems Biology and Ecology of the Academy of Sciences of the Czech Republic

Latvia University of Agriculture - Biosystems Group

Budapest University of Technology and Economics - Molecular Network Dynamics Research Group

Systems Biology Unit, Biocant, Cantanhede, Portugal

Tallinn University of Technology, Institute of Cybernetics - Laboratory of Systems Biology

University of Iceland - Center for Systems Biology



RESEARCH CENTERS IN LATINOAMERICA AND SPAIN:

Universidad Nacional de Ingeniería (Perú) - Multiscale Modeling and Simulation Group

Universidad de Chile - Laboratorio de Bioinformática y Matemática del Genoma

Universidad de Chile - Centre for Biochemical Engineering and Biotechnology

Pontificia Universidad Católica de Chile - Claudio Gelmi's Research Group

Pontificia Universidad Católica de Chile - Plant Systems Biology Lab

Millennium Science Initiative (in Chile) - Institute for Cell Dynamics and Biotechnology

Universidad de la República Uruguay - Laboratorio de Biología de Sistemas

CREG - Laboratory of Systems Biology

Universidad de Buenos Aires - Alejandro Colman-Lerner Group

Instituto Venezolano de Investigaciones Científicas - Centro de Física

UNAM - Center for Genomic Sciences - Computational Genomics Program

Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional - Systems And Synthetic Biology

Universidad de Jaén - Biología de Sistemas y Neurodinámica

Universidad Autónoma de Madrid - National Centre for Biotechnology - Computational Systems Biology Group

EMBL and Centre for Genomic Regulation - Systems Biology

Universitat Pompeu Fabra - Complex Systems Lab

Universitat Pompeu Fabra - Computational Biochemistry and Biophysics Lab

University of Barcelona and CeRQT-Barcelona - Integrative Biochemistry laboratory



RESEARCH CENTERS IN AUSTRALIA AND NEW ZEALAND:

Australian National University - The John Curtin School of Medical Research - Molecular Systems Biology Group

Australian National University - Centre for Bioinformation Science

The University of Queensland - Systems Biology of Cancer

The University of Queensland - Complex and Intelligent Systems Research Group

University of New South Wales - Quantitative and Computational Biology

University of Southern Queensland - Centre for Systems Biology

The University of Queensland - Institute for Molecular Biosciences - Genomics And Computational Biology

The Bioengineering Institute - Systems Biology and Cell Modelling Group

Griffith University - Eskitis Institute for Cell and Molecular Therapies - Systems Biology research program

Garvan Institute - Systems Biology research

Centre for Vascular Research - Complex Systems in Biology Laboratory



RESEARCH CENTERS IN CANADA:

Ottawa Institute of Systems Biology

University of Ottawa - Dynamical Systems Biology Laboratory

Computational Biology and Bioinformatics at Simon Fraser University

McGill University - Computational Molecular Biology Lab

The Samuel Lunenfeld Research Institute - Centre for Systems Biology

Manitoba Centre for Proteomics and Systems Biology

Parkinson Lab

Parkinson Lab - Computational Biology

Center for Nonlinear Dynamics in Physiology and Medicine

University of Toronto - Computational Network Biology - Bader Lab

University of Ottawa - Dynamical Systems Biology Laboratory



RESEARCH CENTERS IN USA:


Santa Fe Institute

U.S. Department of Energy Office of Science - Systems Biology for Energy and Environment

CellSignaling@LANL

LANL - Computational Biology & Bioinformatics Team

IBM - Functional Genomics And Systems Biology Group

Center for Systems Biology

National Center for Dynamic Interactome Research

The Jackson Laboratory - The Center for Genome Dynamics

ESCHER Research Institute - Systems Biology

Memorial Sloan Kettering Cancer Center - Computational Biology Center

Oak Ridge National Laboratory - Environmental Sciences Division - Microbial Systems Biology research

Oak Ridge National Laboratory - The Computational Biology Institute

Ohio Supercomputer Center - Large-Scale Systems Biology Research

Burnham Institute (La Jolla) - Godzik Laboratory

Pittsburgh Supercomputing Center - Center for Quantitative Biological Simulation

STMC - Center for the Spatiotemporal Modeling of Cell Signaling Networks

The Johns Hopkins University - The Bader Lab of Bioinformatics and Computational Biology (Systems Biology & Synthetic Biology)

The Johns Hopkins University - Physiological Mechanics and Transport Laboratory

The Johns Hopkins University - Karchin Lab

University of Cincinnati Medical Center - Laboratory for Statistical Genomics and Systems Biology

Cincinnati Children's Hospital Medical Center - Lu Laboratory for Bioinformatics and Systems Biology

Virginia Commonwealth University - Center for the Study of Biological Complexity

Ohio University - Quantitative Biology Institute

Stanford University - Markus Covert Systems Biology Lab

Columbia University - Electrical Engineering Department - Systems Biology research

Columbia University - Dana Pe'er Lab of Computational Systems Biology

Columbia University - Center for Computational Biology And Bioinformatics

Columbia University - MAGNet - Multiscale Analysis of Genomic and Cellular Networks

Rensselaer Polytechnic Institute - Center for Biotechnology and Interdisciplinary Studies - Integrative Systems Biology research

Boston University - Applied BioDynamics Laboratory (Systems Biology and Synthetic Biology research)

MIT - The Tidor Lab

MIT - Computational Genomics Lab

Case Western Reserve University - Complex Systems Biology Center

Case Western Reserve University - Center for Modeling Integrated Metabolic Systems

Case Western Reserve University - Center for Computational Genomics and Systems Biology

Univ. of North Carolina - Elston lab

MIT, Harvard Univ - Complex Biosystems Modeling Laboratory

UC Berkeley - Keasling Lab (Systems and Synthetic Biology)

CalTech - Davidson Laboratory

California Institute of Technology, Princeton University, University of California Santa Barbara - Center for Dynamics and Feedback in Nature

CalTech - Richard Murray (Systems Biology and Synthetic Biology)

UC Irvine - Institute for Genomics and Bioinformatics

UC Irvine - Yi Systems Biology Lab

UC Irvine - Pierre Baldi

UCSD - Institute for Nonlinear Science

UCSD - Systems Biodynamics Lab (Systems Biology & Synthetic Biology)

UCSD - Systems Biology Research Group

UCSD - Bioinformatics and Computational Biology

UCSD - Laboratory of Quantitative Biology

UCSD Biosciences - Computational Biology

UCSF - Tang Lab

UCSF - Biosystems Group

UCLA - Center for Computational Biology

UCLA - Biocybernetics Laboratory

UCLA - Metabolic Engineering and Systems Biology Laboratory

UCLA - Kamei Lab

UC Merced - Center for Computational Biology

University of Washington - Center for Cell Dynamics

University of Washington - Computational Biology Research Group

Drexel University - Systems Biology Of the Dynamic Cell

Stony Brook University - BioSystems Group

Rice University - Oleg Igoshin Group

The University of Chicago - Philippe Cluzel Lab

Montana State University - Center for Computational Biology

CIIT Centers for Health Research - Center for Computational Systems Biology

Carnegie Mellon University - Computational Systems Biology Group

Carnegie Mellon University - School of Computer Science - Systems Biology Group

University of Virginia - Computational Systems Biology Lab

University of Virginia - Cardiac Systems Biology Lab

University of Georgia - Institute of Bioinformatics

University of Georgia - Computational Systems Biology Lab

Georgia Tech - Laboratory for Biological Systems Analysis

Georgia Tech - Center for the Study of Systems Biology

Georgia Tech - Kemp Lab

University of Massachusetts Amherst - Systems Biology group

University of Connecticut Health Center
- Richard D. Berlin Center for Cell Analysis and Modeling


IUPUI - Center for Computational Biology And Bioinformatics

The University of Maryland - Center for Bioinformatics and Computational Biology

The University of Iowa - Center for Bioinformatics and Computational Biology

University of Arizona - Quantitative Biology Consortium

Duke Institute for Genome Sciences and Policy - Center for Systems Biology

University of Pennsylvania - Blood Systems Biology

University of Michigan - Center for Computational Medicine and Biology

The University of Texas at Austin - Center for Computational Biology and Bioinformatics

The University of Texas at Austin - Center for Systems & Synthetic Biology

University of Texas Houston Health Science Center - Center for Computational Biomedicine

Texas A&M University - Genomic Signal Processing Laboratory

Northwestern Institute on Complex Systems

Indiana University - Systems Biology Lab

Indiana University - Complex Systems Group

Washington University in St.Louis - Center for Computational Biology

Systems Biology at Washington University

University of Delaware - The Ogunnaike Group

Center for the Development of a Virtual Tumor

Brown University - Center for Computational Molecular Biology

The Rockefeller University - Center for Studies in Physics and Biology - Leibler Lab

Northwestern University - Computational and Mathematical Biotechnology Laboratory

Merrimack Pharmaceuticals

Van Andel Institute - Laboratory of Systems Biology

Physiomics - Systems Biology for Cancer Drug Development



OTHER INTERESTING LINKS :


Network biology wiki

NSR Physiome Project

IUPS Physiome Project

The Europhysiome Initiative

Leading Project for Biosimulation

E-Cell Project

The Alliance for Cellular Signaling

National Resource for Cell Analysis and Modeling

The National Simulation Resource for Transport, Metabolism and Reaction

JWS Online Cellular Systems Modeling

BioSim Network of Excellence

Biopathways Consortium

The Yeast Systems Biology Network

The Receptor Tyrosine Kinase (RTK) Networks Consortium

HepatoSys Competence Network -
Systems Biology of Hepatocytes


European Systems Biology Initiative combating complex diseases

Weizmann Institute of Science - THE BioSPI PROJECT

SystemsX - Swiss Initiative in Systems Biology

Biological Cybernetics Site

bioIT Alliance

The Canadian Society for Systems Biology

The International Society for Systems Biology

Nature - Systems Biology : A user's guide

The Seven Stones - Blog on Systems & Synthetic Biology

http://www.systems-biology.org/

Synthetic Biology Research Groups

MIT - Endy Lab

Harvard University - Silver Lab

Harvard University - Laboratory for Molecular Automata

CalTech - Center for Biological Circuit Design

CalTech - The Elowitz Lab

CalTech - Frances Arnold Research Group

CalTech - The Pierce Lab

CalTech - Asthagiri Group

University of Michigan - Del Vecchio Lab

University of Michigan - Ninfa Laboratory

University of Minnesota - Riedel Lab

University of Minnesota - Kaznessis Group

Duke University - Laboratory of Biological Networks

Synthetic Biology Engineering Research Center

Lawrence Berkeley National Laboratory - Synthetic Biology Department

UCSF/UCB Center for Engineering Cellular Control Systems

UC Berkeley - Lim Lab

Stanford University - The Kool Group

Stanford University - The Smolke Lab

UCSF - Kortemme Lab

UCSF - Voigt Lab

UCSF - Lim Lab

Virginia Bioinformatics Institute - Peccoud Research Group

Boston University - Gardner Laboratory

Princeton University - Weiss Lab

University of New Mexico - Molecular Computing Group

The University of Texas at Austin - Andrew Ellington

Mount Sinai Hospital - The Pawson Lab

Dresden University of Technology - Schwille Lab

Tokyo Tech - Kiga Lab

EMBL-Heidelberg - Luis Serrano Group

ETHZ - Synthetic Biology Workgroup

ETHZ - Bioprocess Laboratory - Sven Panke

University of Cambridge - Jim Ajioka

University of Cambridge - Jason Chin

The University of Edinburgh - Alistair Elfick

Imperial College London - Paul Freemont

University of Groningen - Centre for Synthetic Biology

Ecole Polytechnique - Alfonso Jaramillo

Università degli Studi di Roma Tre - Luisi Synthetic Biology Lab



SYSTEMS & SYNTHETIC BIOLOGY LABS:

Oak Ridge National Laboratory & University of Tennessee - Molecular-Scale Engineering and Nanoscale Technologies Research Group

UC Berkeley - Arkin Lab

UC Berkeley - Keasling Lab

UC Davis - Michael A. Savageau

Boston University - Applied Biodynamics Laboratory

CalTech - Richard M. Murray

UCSD - Systems Biodynamics Lab

The University of Texas - Center for Systems & Synthetic Biology

Waseda University - Laboratory for Molecular Cell Network

Keio University - Sakakibara Lab

Kyushu Institute of Technology - Kurata Lab

Spanish National Biotechnology Centre - Logic of Genomic Systems Lab

Universitat Pompeu Fabra - Complex Systems Lab - Ricard Solé

Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional - Systems And Synthetic Biology

Imperial College London - Institute of Systems and Synthetic Biology

RIKEN - Computational Systems Biology Research Group



OTHER INTERESTING LINKS :

BioBuilder - Activities and Animations for Synthetic Biology

MIT - Registry of Standard Biological Parts

University of Cambridge - Synthetic Biology

International Genetically Engineered Machine competition

Synthetic Biology org