John C. Doyle - User contributions [en]

Research

2007-09-15T03:20:25Z

Doyle2: /* Main Research Topics */

"Professor Doyle's current research interests are in theoretical foundations for complex networks, primarily in network engineering and biology." He is also "interested in multiscale physics and financial markets, and the interplay between robustness, feedback, control, dynamical systems, computation, communications, and statistical physics." (quote from CDS website)

==Main Research Topics==
*[[systems biology]]
**[[Robust yet fragile & biological networks]]

*[[complex networks]]
**[[Robust yet fragile & biological networks]]
**[[Internet topology]]
**[[network architecture and protocols]]
**[[HOT]]

*[[exercise physiology]]

See also [[Papers]] by topic.

==More research links==
*[http://www.cds.caltech.edu/research/ CDS research]
*[http://leecenter.caltech.edu/theory.html Lee Center, Caltech]

'''HOT'''

Organized complexity in biology and internet technology

*[http://www.hot.caltech.edu/ HOT: Highly Optimized/Organized Tradeoffs/Tolerance ]
*[http://www.physics.ucsb.edu/~complex/ Jean Carlson’s HOT website]
*[http://leecenter.caltech.edu/doyle-res.html HOT at Lee Center, Caltech]

'''FAST'''

New internet protocol design.

*[http://netlab.caltech.edu/ Fast AQM Scalable TCP]
*[http://www.fastsoft.com/ FAST TCP application]
*[http://netlab.caltech.edu/FAST/ FAST TCP background]

'''CIMMS'''

Modelling and analysis of complex phenomena across multiple time and length scales.

*[http://www.cimms.caltech.edu/whatiscimms.html CIMMS: Center for Integrative Multiscale Modeling and Simulation]

'''SBML'''

'''SOSTOOLS'''

(Older project)
*[http://www.cds.caltech.edu/sostools/ SOSTOOLS: Software for analysis of complex systems]

[[Category:Research]]

To Do Q

2007-09-15T03:16:13Z

Doyle2: /* Hana's log hours */

==Homepage==

==Papers==
[[Papers]] page:
*Converted ext paper to internal links for 2005-2009 papers
*copied joint Netlab papers to CDS server next and adjust the ext links to int links
*everyone can add their papers to the website.

==Other pages==
[[J. Doyle’s Bio]] page: Do we copy J Doyle's CV from old websites -see

[[Group]] page: Asked Gloria & Lijun to add to list of past & present people. Lun has added quite a few via CDS/Netlab/Google pages.

[[Research]] page: need to expand.

[[Complex networks]] need to update and edit.

[[Systems biology]] needs expanding and updating.

Need to define and select "categories".

Need to get group contributing to wiki.

==Other==

===Links / Access ===

Need to increase internal wiki links and add "categories"

Need to find out how to link "Presentations"

File permisssions last set by Lachlan and Lun July 2007.

Ask Lun:
* to set up separate username/password for :John Doyle, Lun & Hana,
**Do you want Individual users or group users?
**See [[Help:Contents]] for tips on creating accounts.

===images===
Shrink Images into thumbnail using Photoshop on Netlab's remote desktop later:

Ask to download photo of Prof's John & Marie... See Bio page

==Old webpages==
http://www.cds.caltech.edu/~doyle/home.htm

http://www.cds.caltech.edu/~doyle/

==Hana's log hours==
{| border=1
!Date
!Time
!Hrs
!Date
!Time
!Hrs
|-
|7/8/07 Lun helped! ||2-6.30pm ||4.5||8/2/07||2.30-4.30||2.0
|-
|7/9/07 ||10am-1pm ||3||8/4/07||4.30-5||0.5
|-
|7/15/07 Lun helped||12-3.30pm||3.5||8/10/07||4-6.30||2.5
|-
|7/16/07||12-12.30am||0.5||8/14/07 ||9.30-11.30||2
|-
|7/18/07||4-4.30pm, 6-7pm||1.5||8/17/07||6.30-7.30||1
|-
|7/27/07||10-10.30||0.5 || || ||
|-
|7/31/07||12-12.30||0.5 || || ||
|- || || || || ||
|-
|9/5/07 ||4.30-5 ||0.5
|-
|9/8/07 ||7.30-8 ||0.5
|-
|9/14/07||7.45-8.15||0.5
|}

Waiting on Betta at Netlab to arrange payment account.

Lun: installed wiki, enabled LocalSettings to upload, edited current/past Group (adding links & names, edit main page/structure); hidden edit tabs to users not logged in

Hana: copied links to papers from Netlab & Lun's page, Systems-Biol page, J DOyle's old page onto wiki, set up to do list / main page/stucture/help page/sidebar/research/papers pages & bio copied. Added IEEE explore publications to pages.

Complex networks

2007-09-15T03:06:09Z

Doyle2:

DEFINITION : Complex network

Wiki defn: In the context of Network theory, the term "complex network" refers to a network (graph) that has certain non-trivial topological features that do not occur in simple networks.

Most social, biological, and technological networks (as well as certain network-driven phenomena) can be considered complex by virtue of non-trivial topological structure (see e.g., social network, computer network, neural network, epidemiology). "

Sub-topics:
*[[network architecture and protocols]]
*[[Internet topology]]
*[[HOT]]
*[[Robust yet fragile & biological networks]]

==NEED TO TRANSFER papers below to other pages for sub-topics above==
==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

Complex networks

2007-09-15T03:05:41Z

Doyle2:

DEFINITION : Complex network

Wiki defn: In the context of Network theory, the term "complex network" refers to a network (graph) that has certain non-trivial topological features that do not occur in simple networks.

Most social, biological, and technological networks (as well as certain network-driven phenomena) can be considered complex by virtue of non-trivial topological structure (see e.g., social network, computer network, neural network, epidemiology). "

(Comment : Click on the red words below to create a new page.)

Sub-topics:
*[[network architecture and protocols]]
*[[Internet topology]]
*[[HOT]]
*[[Robust yet fragile & biological networks]]

==NEED TO TRANSFER papers below to other pages for sub-topic==
==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

Network architecture and protocols

2007-09-15T03:04:33Z

Doyle2:

Lijun to write defn / intro to page.

Prof Doyle to edit later

==Papers==

===Overview papers===
===Review papers===
===?===
==See also==

Group

2007-09-15T02:57:10Z

Doyle2: /* Past Visitors */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''

|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Stephen Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
Masahiro Yanagisawa

[http://www-control.eng.cam.ac.uk/~jmg77/ Jorge Goncalves]

[http://devcell.bio.uci.edu/faculty/yi.htm Tau-Mu Yi]

|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}

==MURF and SURF==
{| border="1"
|2007 ||2000-2006
|-
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]||
|-
| ||
|}

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-15T02:56:41Z

Doyle2: /* MURF and SURF */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''

|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Stephen Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
Masahiro Yanagisawa

[http://www-control.eng.cam.ac.uk/~jmg77/ Jorge Goncalves]

[http://devcell.bio.uci.edu/faculty/yi.htm Tau-Mu Yi]

|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==MURF and SURF==
{| border="1"
|2007 ||2000-2006
|-
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]||
|-
| ||
|}

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Papers

2007-09-15T02:54:44Z

Doyle2:

Needs intro...
Publications have been sorted:
- by year, type of publication
- by topic

==Topic==
(Comment: Click on the RED words below, to begin a new page of the same name.)
*[[complex networks]]
**[[network architecture and protocols]]
**[[Internet topology]]
**[[HOT]]
**[[Robust yet fragile & biological networks]]
*[[systems biology]]
**[[Robust yet fragile & biological networks]]
*[[exercise physiology]]

==Year==
[[2005-2009]]

[[2000-2004]]

[[1995-1999]]

[[1990-1994]]

[[1985-1989]]

Format: ''Title'', Author, Journal, Month, Year.
Copy files from hyperlinks onto Wiki

[[Category:Papers]]

Papers

2007-09-15T02:53:58Z

Doyle2: /* Topic */ add sub topics

Needs intro...

==Topic==
(Comment: Click on the RED words below, to begin a new page of the same name.)
*[[complex networks]]
**[[network architecture and protocols]]
**[[Internet topology]]
**[[HOT]]
**[[Robust yet fragile & biological networks]]
*[[systems biology]]
**[[Robust yet fragile & biological networks]]
*[[exercise physiology]]

==Year==
[[2005-2009]]

[[2000-2004]]

[[1995-1999]]

[[1990-1994]]

[[1985-1989]]

Format: ''Title'', Author, Journal, Month, Year.
Copy files from hyperlinks onto Wiki

[[Category:Papers]]

Research

2007-09-15T02:52:45Z

Doyle2: add sub-topics

"Professor Doyle's current research interests are in theoretical foundations for complex networks, primarily in network engineering and biology." He is also "interested in multiscale physics and financial markets, and the interplay between robustness, feedback, control, dynamical systems, computation, communications, and statistical physics." (quote from CDS website)

==Main Research Topics==
(Comment: Click on the RED words below, to begin a new page of the same name.)
*[[complex networks]]
**[[network architecture and protocols]]
**[[Internet topology]]
**[[HOT]]
**[[Robust yet fragile & biological networks]]

*[[systems biology]]
**[[Robust yet fragile & biological networks]]

*[[exercise physiology]]

See also [[Papers]] by topic.

==More research links==
*[http://www.cds.caltech.edu/research/ CDS research]
*[http://leecenter.caltech.edu/theory.html Lee Center, Caltech]

'''HOT'''

Organized complexity in biology and internet technology

*[http://www.hot.caltech.edu/ HOT: Highly Optimized/Organized Tradeoffs/Tolerance ]
*[http://www.physics.ucsb.edu/~complex/ Jean Carlson’s HOT website]
*[http://leecenter.caltech.edu/doyle-res.html HOT at Lee Center, Caltech]

'''FAST'''

New internet protocol design.

*[http://netlab.caltech.edu/ Fast AQM Scalable TCP]
*[http://www.fastsoft.com/ FAST TCP application]
*[http://netlab.caltech.edu/FAST/ FAST TCP background]

'''CIMMS'''

Modelling and analysis of complex phenomena across multiple time and length scales.

*[http://www.cimms.caltech.edu/whatiscimms.html CIMMS: Center for Integrative Multiscale Modeling and Simulation]

'''SBML'''

'''SOSTOOLS'''

(Older project)
*[http://www.cds.caltech.edu/sostools/ SOSTOOLS: Software for analysis of complex systems]

[[Category:Research]]

Complex networks

2007-09-15T02:50:57Z

Doyle2: add sub-topics

DEFINITION : Complex network

Wiki defn: In the context of Network theory, the term "complex network" refers to a network (graph) that has certain non-trivial topological features that do not occur in simple networks.

Most social, biological, and technological networks (as well as certain network-driven phenomena) can be considered complex by virtue of non-trivial topological structure (see e.g., social network, computer network, neural network, epidemiology). "

(Comment : Click on the red words below to create a new page.)

Sub-topics:
*[[network architecture and protocols]]
*[[Internet topology]]
*[[HOT]]
*[[Robust yet fragile & biological networks]]

==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

Complex networks

2007-09-15T02:49:54Z

Doyle2: add sub-topics

DEFINITION : Complex network

Wiki defn: In the context of Network theory, the term "complex network" refers to a network (graph) that has certain non-trivial topological features that do not occur in simple networks.

Most social, biological, and technological networks (as well as certain network-driven phenomena) can be considered complex by virtue of non-trivial topological structure (see e.g., social network, computer network, neural network, epidemiology). "

Sub-topics:
[[network architecture and protocols]]
[[Internet topology]]
[[HOT]]
[[Robust yet fragile & biological networks]]

==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

To Do Q

2007-09-09T03:07:23Z

Doyle2: /* Hana's log hours */

==Homepage==

==Papers==
[[Papers]] page:
*Converted ext paper to internal links for 2005-2009 papers
*copied joint Netlab papers to CDS server next and adjust the ext links to int links
*everyone can add their papers to the website.

==Other pages==
[[J. Doyle’s Bio]] page: Do we copy J Doyle's CV from old websites -see

[[Group]] page: Asked Gloria & Lijun to add to list of past & present people. Lun has added quite a few via CDS/Netlab/Google pages.

[[Research]] page: need to expand.

[[Complex networks]] need to update and edit.

[[Systems biology]] needs expanding and updating.

Need to define and select "categories".

Need to get group contributing to wiki.

==Other==

===Links / Access ===

Need to increase internal wiki links and add "categories"

Need to find out how to link "Presentations"

File permisssions last set by Lachlan and Lun July 2007.

Ask Lun:
* to set up separate username/password for :John Doyle, Lun & Hana,
**Do you want Individual users or group users?
**See [[Help:Contents]] for tips on creating accounts.

===images===
Shrink Images into thumbnail using Photoshop on Netlab's remote desktop later:

Ask to download photo of Prof's John & Marie... See Bio page

==Old webpages==
http://www.cds.caltech.edu/~doyle/home.htm

http://www.cds.caltech.edu/~doyle/

==Hana's log hours==
{| border=1
!Date
!Time
!Hrs
|-
|7/8/07 Lun helped! ||2-6.30pm ||4.5
|-
|7/9/07 ||10am-1pm ||3
|-
|7/15/07 Lun helped||12-3.30pm||3.5
|-
|7/16/07||12-12.30am||0.5
|-
|7/18/07||4-4.30pm, 6-7pm||1.5
|-
|7/27/07||10-10.30||0.5
|-
|7/31/07||12-12.30||0.5
|-
|8/2/07||2.30-4.30||2.0
|-
|8/4/07||4.30-5||0.5
|-
|8/10/07||4-6.30||2.5
|-
|8/14/07 ||9.30-11.30||2
|-
|8/17/07||6.30-7.30||1
|-
|9/5/07 ||4.30-5 ||0.5
|-
|9/8/07 ||7.30-8 ||0.5
|}

Waiting on Betta at Netlab to arrange payment account.

Lun: installed wiki, enabled LocalSettings to upload, edited current/past Group (adding links & names, edit main page/structure); hidden edit tabs to users not logged in

Hana: copied links to papers from Netlab & Lun's page, Systems-Biol page, J DOyle's old page onto wiki, set up to do list / main page/stucture/help page/sidebar/research/papers pages & bio copied. Added IEEE explore publications to pages.

To Do Q

2007-09-09T03:07:01Z

Doyle2: /* Hana's log hours */

==Homepage==

==Papers==
[[Papers]] page:
*Converted ext paper to internal links for 2005-2009 papers
*copied joint Netlab papers to CDS server next and adjust the ext links to int links
*everyone can add their papers to the website.

==Other pages==
[[J. Doyle’s Bio]] page: Do we copy J Doyle's CV from old websites -see

[[Group]] page: Asked Gloria & Lijun to add to list of past & present people. Lun has added quite a few via CDS/Netlab/Google pages.

[[Research]] page: need to expand.

[[Complex networks]] need to update and edit.

[[Systems biology]] needs expanding and updating.

Need to define and select "categories".

Need to get group contributing to wiki.

==Other==

===Links / Access ===

Need to increase internal wiki links and add "categories"

Need to find out how to link "Presentations"

File permisssions last set by Lachlan and Lun July 2007.

Ask Lun:
* to set up separate username/password for :John Doyle, Lun & Hana,
**Do you want Individual users or group users?
**See [[Help:Contents]] for tips on creating accounts.

===images===
Shrink Images into thumbnail using Photoshop on Netlab's remote desktop later:

Ask to download photo of Prof's John & Marie... See Bio page

==Old webpages==
http://www.cds.caltech.edu/~doyle/home.htm

http://www.cds.caltech.edu/~doyle/

==Hana's log hours==
{| border=1
!Date
!Time
!Hrs
|-
|7/8/07 Lun helped! ||2-6.30pm ||4.5
|-
|7/9/07 ||10am-1pm ||3
|-
|7/15/07 Lun helped||12-3.30pm||3.5
|-
|7/16/07||12-12.30am||0.5
|-
|7/18/07||4-4.30pm, 6-7pm||1.5
|-
|7/27/07||10-10.30||0.5
|-
|7/31/07||12-12.30||0.5
|-
|8/2/07||2.30-4.30||2.0
|-
|8/4/07||4.30-5||0.5
|-
|8/10/07||4-6.30||2.5
|-
|8/14/07 ||9.30-11.30||2
|-
|8/17/07||6.30-7.30||1
|-
|9/5/07 ||4.30-5 ||0.5
|-
|9/6/07 ||7.30-8 ||0.5
|}

Waiting on Betta at Netlab to arrange payment account.

Lun: installed wiki, enabled LocalSettings to upload, edited current/past Group (adding links & names, edit main page/structure); hidden edit tabs to users not logged in

Hana: copied links to papers from Netlab & Lun's page, Systems-Biol page, J DOyle's old page onto wiki, set up to do list / main page/stucture/help page/sidebar/research/papers pages & bio copied. Added IEEE explore publications to pages.

Main Page

2007-09-09T03:05:12Z

Doyle2: /* Current news! */

<table border=1 width=100% style="color:black; " cellpadding="20" cellspacing="0">
<tr>
<td align=center width=20%> [[Image:doyle.jpg]]</td>
<td width=60% align=center>
John C. Doyle 

John G Braun Professor 
of Control and Dynamical Systems 
Electrical Engineering 
and BioEngineering 
Division of Engineering and Applied Science 
California Institute of Technology 

</td>
<td align=center width=20%>

[http://www.cds.caltech.edu/~murray/wiki/John Latest Adventure]

[[J. Doyle’s Bio]]

[[News]]

[[Calendar]]

[[#Contact|Contact]]

[https://www.cds.caltech.edu/squirrelmail/src/login.php CDS Webmail]
</td>
</tr></table>
{| align=center
|[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]
|}
<hr>

==Papers==
*favourite papers
*[[Papers|More Papers]]

== Research ==
John Doyle's [[research]] interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Applications interests are motivated by the interplay between: control, dynamical systems, and design and analysis of large, complex systems.

== Contact ==
{| width=100%
|- valign=top
| width=50% |

'''Mailing Address'''

John Doyle 
Control and Dynamical Systems, MC 107-81 
California Institute of Technology 
1200 E. California Blvd 
Pasadena, CA 91125 USA
| width=50% |

'''Contact information'''

E-mail: 
Office: 109 Steele, 
Phone:(626) 395-4808/Fax:626.395-6170 
Asst: Gloria Bain, x4140 
Labs: 12 STL, 110 GUG (x2319)
|-
|

===Other links===

*[http://www.caltech.edu California Institute of Technology]
**[http://www.eas.caltech.edu Engineering and Applied Science Division]
***[http://www.be.caltech.edu/ Bioengineering Department]
***[http://www.cds.caltech.edu Control and Dynamical Systems Department]
***[http://www.ee2.caltech.edu/ Electrical Engineering Department]
|}

Group

2007-09-09T02:39:57Z

Doyle2: /* Alumni */ edit & Postdocs names from Maryam Fazel

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''

|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Stephen Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
Masahiro Yanagisawa

[http://www-control.eng.cam.ac.uk/~jmg77/ Jorge Goncalves]

[http://devcell.bio.uci.edu/faculty/yi.htm Tau-Mu Yi]

|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==MURF and SURF==
2007 [http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]
==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-09T02:39:13Z

Doyle2: /* Past Group */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''

|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
Masahiro Yanagisawa

[http://www-control.eng.cam.ac.uk/~jmg77/ Jorge Goncalves]

[http://devcell.bio.uci.edu/faculty/yi.htm Tau-Mu Yi]

|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==MURF and SURF==
2007 [http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]
==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-05T23:42:58Z

Doyle2: /* Other collaborators */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==MURF and SURF==
2007 [http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]
==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-05T23:39:51Z

Doyle2: /* Current Group */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-05T23:37:36Z

Doyle2: /* Past Visitors */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|Panagiota Stratou
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-01T20:44:09Z

Doyle2: /* Current Group */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

Ben Recht

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Group

2007-09-01T20:43:19Z

Doyle2: /* Current Group */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel, Research scientist]

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

Na Li

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

To Do Q

2007-08-30T07:55:23Z

Doyle2: /* images */

==Homepage==

==Papers==
[[Papers]] page:
*Converted ext paper to internal links for 2005-2009 papers
*copied joint Netlab papers to CDS server next and adjust the ext links to int links
*everyone can add their papers to the website.

==Other pages==
[[J. Doyle’s Bio]] page: Do we copy J Doyle's CV from old websites -see

[[Group]] page: Asked Gloria & Lijun to add to list of past & present people. Lun has added quite a few via CDS/Netlab/Google pages.

[[Research]] page: need to expand.

[[Complex networks]] need to update and edit.

[[Systems biology]] needs expanding and updating.

Need to define and select "categories".

Need to get group contributing to wiki.

==Other==

===Links / Access ===

Need to increase internal wiki links and add "categories"

Need to find out how to link "Presentations"

File permisssions last set by Lachlan and Lun July 2007.

Ask Lun:
* to set up separate username/password for :John Doyle, Lun & Hana,
**Do you want Individual users or group users?
**See [[Help:Contents]] for tips on creating accounts.

===images===
Shrink Images into thumbnail using Photoshop on Netlab's remote desktop later:

Ask to download photo of Prof's John & Marie... See Bio page

==Old webpages==
http://www.cds.caltech.edu/~doyle/home.htm

http://www.cds.caltech.edu/~doyle/

==Hana's log hours==
{| border=1
!Date
!Time
!Hrs
|-
|7/8/07 Lun helped! ||2-6.30pm ||4.5
|-
|7/9/07 ||10am-1pm ||3
|-
|7/15/07 Lun helped||12-3.30pm||3.5
|-
|7/16/07||12-12.30am||0.5
|-
|7/18/07||4-4.30pm, 6-7pm||1.5
|-
|7/27/07||10-10.30||0.5
|-
|7/31/07||12-12.30||0.5
|-
|8/2/07||2.30-4.30||2.0
|-
|8/4/07||4.30-5||0.5
|-
|8/10/07||4-6.30||2.5
|-
|8/14/07 ||9.30-11.30||2
|-
|8/17/07||6.30-7.30||1
|}

Waiting on Betta at Netlab to arrange payment account.

Lun: installed wiki, enabled LocalSettings to upload, edited current/past Group (adding links & names, edit main page/structure); hidden edit tabs to users not logged in

Hana: copied links to papers from Netlab & Lun's page, Systems-Biol page, J DOyle's old page onto wiki, set up to do list / main page/stucture/help page/sidebar/research/papers pages & bio copied. Added IEEE explore publications to pages.

J. Doyle’s Bio

2007-08-30T07:54:32Z

Doyle2: /* Athletics */ add photo link

John Doyle is the John G Braun Professor of [http://www.cds.caltech.edu Control & Dynamical Systems], [http://www.ee2.caltech.edu/ Electrical Engineering], and [http://www.be.caltech.edu/ BioEngineering] at [http://www.caltech.edu Caltech].

==Academic summary==

*University
**BS, MS EE [http://web.mit.edu/ MIT], 1977.
**Ph.D. Math, [http://www.berkeley.edu/ UC Berkeley], 1984.
**Assoc Prof at Caltech, 1984.
**Prof at Caltech, 1991 - present.
*'''Awards''':
**Multidisciplinary University Research Initiative [http://www.cds.caltech.edu/~doyle/MURI.html (MURI)] Award: "Mathematical Infrastructure for Robust Virtual Engineering"
**IEEE Centennial, Hickernell, Eckman, Friedman, NSF PYI, ONR YI.

*'''Prize papers'''
**IEEE Transactions (2),
**ACC, IEEE Baker Prize, ``top 10 most influential papers in mathematics 1981-1993.''

*[http://www.cds.caltech.edu/~doyle/CV.html Academic Bio 1990's]

==Research interests==
His research interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Research applications interests are motivated by the interplay between control, dynamical systems, and design and analysis of large, complex systems.

==Athletics==
John Doyle is an athlete in his spare time.
*World champion, IHPVA speed championships time trial.
*US Record, indoor rowing (former world record).
*2 Gold medals, World Masters Games.
*Member, Duathlon Team USA.
*Age group wins:
**Duathlon in Exile (world championship qualifier),
**Fall Showdown Duathlon,
**Big Bear Duathlon,
**Powerman Chicago Sprint,
**Steamboat Triathlon,
**USCF District 6 cycling time trial...

*[http://www.cds.caltech.edu/~doyle/CVath.html Athletics 1990's]

==Pic==

[http://www.cds.caltech.edu/~murray/wiki/Image:John-and-marie.jpg Ask to download photo of Prof's John & Marie...]

Main Page

2007-08-30T07:52:45Z

Doyle2: temporary news

<table border=1 width=100% style="color:black; " cellpadding="20" cellspacing="0">
<tr>
<td align=center width=20%> [[Image:doyle.jpg]]</td>
<td width=60% align=center>
John C. Doyle 

John G Braun Professor 
of Control and Dynamical Systems 
Electrical Engineering 
and BioEngineering 
Division of Engineering and Applied Science 
California Institute of Technology 

</td>
<td align=center width=20%>

[http://www.cds.caltech.edu/~murray/wiki/John Latest Adventure]

[[J. Doyle’s Bio]]

[[News]]

[[Calendar]]

[[#Contact|Contact]]

[https://www.cds.caltech.edu/squirrelmail/src/login.php CDS Webmail]
</td>
</tr></table>
{| align=center
|[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]
|}
<hr>

==Current news!==
* Richard Murray [http://www.cds.caltech.edu/~murray/wiki/John posts website updates] on John Doyle fall, rescue & recovery in Panama, Aug 28, 2007.

==Papers==
*favourite papers
*[[Papers|More Papers]]

== Research ==
John Doyle's [[research]] interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Applications interests are motivated by the interplay between: control, dynamical systems, and design and analysis of large, complex systems.

== Contact ==
{| width=100%
|- valign=top
| width=50% |

'''Mailing Address'''

John Doyle 
Control and Dynamical Systems, MC 107-81 
California Institute of Technology 
1200 E. California Blvd 
Pasadena, CA 91125 USA
| width=50% |

'''Contact information'''

E-mail: 
Office: 109 Steele, 
Phone:(626) 395-4808/Fax:626.395-6170 
Asst: Gloria Bain, x4140 
Labs: 12 STL, 110 GUG (x2319)
|-
|

===Other links===

*[http://www.caltech.edu California Institute of Technology]
**[http://www.eas.caltech.edu Engineering and Applied Science Division]
***[http://www.be.caltech.edu/ Bioengineering Department]
***[http://www.cds.caltech.edu Control and Dynamical Systems Department]
***[http://www.ee2.caltech.edu/ Electrical Engineering Department]
|}

News

2007-08-30T07:52:17Z

Doyle2: /* Current news! */

==Current news!==
* Richard Murray [http://www.cds.caltech.edu/~murray/wiki/John posts website updates] on John Doyle fall, rescue & recovery in Panama, Aug 28, 2007.

* [http://discovermagazine.com/2007/ Discover magazine], features John Doyle discussing both his academic and competitive sports interests.

==Past News==

===2007===
John Doyle's website is renovated.

Some graduates in 2007 [[Image:GB Grads 07.jpg|200px]]

===2005===
DGA Private Screening
September 7, 2005 @ 8PM
[[Image:Movie2005.jpg|right|100px]]
At an auction for the California Women’s Law Center(CWLC) John Doyle bid and won a private screening for a movie "Everything is Illuminated" staring Elijah Wood was shown at the Directors Guild of America on September 7th at 8pm. The movie All friends of CDS were invited to attend. A preview of the movie can be found here.

===2004===
John Doyle's 50th celebrations at [http://www.cds.caltech.edu/doyle-fest/overview.html Connections Workshop], Caltech. [[Image:JCDgraph.jpg]]

2005-2009

2007-08-29T22:58:18Z

Doyle2: /* Technical report */

John Doyle's papers from 2005-2009

==2007==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f5/PRE06.pdf ''Diversity of graphs with highly variable connectivity'']

David Alderson and Lun Li

Phyiscal Review E 75, 046102, 2007. (Copy to Netlab too)

*''Fundamental Limitations of Disturbance Attenuation in the Presence of Side Information''

Martins, N. C.; Dahleh, M. A.; Doyle, J. C.;

IEEE Transactions on Automatic Control, 52(1):56 - 66, Jan 2007

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/9/96/Netcod-info07.pdf ''Optimization Based Rate Control for Multi-cast with Network Coding'']

Lijun Chen, Tracey Ho, Steven H. Low, Mung Chiang and John C. Doyle.

in Proceedings of IEEE Infocom, Anchorage, Alaska, May 2007.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/31/Layering-IEEEProc-060402.pdf ''Layering as optimization decomposition''],

Mung Chiang and Steven H. Low and A. Robert Calderbank and John C. Doyle

in Proceedings of the IEEE, Jan 2007.

==2006==
===Journals===
[http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pcbi.0020059.eor ''Module-Based Analysis of Robustness Tradeoffs in the Heat Shock Response System '']

Hiroyuki Kurata, Hana El-Samad, Rei Iwasaki, Hisao Ohtake, John C Doyle, Irina Grigorova, Carol A. Gross, Mustafa Khammash,

[http://compbiol.plosjournals.org/ PLoS Computational Biology], early on-line release. (april 13, 2006)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fc/IM06.pdf ''Towards a Theory of Scale-Free Graphs: Definition, Properties, and Implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger,

Internet Mathematics, 2(4), p 431-523, Mar. 2006.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ae/Wireless-Chen-infocom06.pdf ''Cross-layer congestion control, routing and scheduling design in ad hoc wireless network''],

L. Chen and S. H. Low and M. Chiang and J. C. Doyle,

in Proceedings of IEEE Infocom, pp1-13; Barcelona, Spain, Apr 2006.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fe/Hotnets06.pdf ''Discovering Dependencies for Network Management''],

Victor Bahl, Paul Barham, Richard Black, Ranveer Chandra, Moises Goldszmidt, Rebecca Isaacs, Srikanth Kandula, Lun Li, John MacCormick, David A. Maltz, Richard Mortier, Mike Wawrzoniak, and Ming Zhang,

In Proc. of the ACM SIGCOMM Hot Topics in Networks (HotNets) Pisa, Italy, Sept 2006.

*''Complexity in Automation of SOS Proofs: An Illustrative Example''

Gayme, D.; Fazel, M.; Doyle, J.C.;

IEEE Conference on Decision and Control, Page(s):5851 - 5856, 13-15 Dec 2006.

===Book===
''Dual scheduling algorithm in a generalized switch: asymptotic optimality and throughput optimality'',

L. Chen and S. H. Low and J. C. Doyle,

in ''High-Performance Packet Switching Architectures'', Itamar Elhanany and Mounir Hamdi (Eds), Springer, Jun 2006.

===Technical report===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/a4/Ramac.pdf ''Random Access Game and Medium Access Control Design'']

L. Chen, S. H. Low and J. C. Doyle,

(Caltech) Technical Report, March 2006.

==2005==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/74/Ton_topology.pdf ''Understanding Internet Topology: Principles, Models, and Validation,'']

D. Alderson, L. Li, W. Willinger, J. C. Doyle,

IEEE/ACM Transaction on Networking, 13(6), Dec. 2005. 1.2MB

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/7e/PNAS05.pdf ''The 'Robust, Yet Fragile' Nature of the Internet'']

J.C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W.Willinger,

Proc. of the. National Academy of Sciences, Oct.4 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/6/64/Fast-network05.pdf ''FAST TCP: From Theory to Experiments''],

C. Jin and D. X. Wei and S. H. Low and G. Buhrmaster and J. Bunn and D. H. Choe and R. L. A. Cottrell and J. C. Doyle and W. Feng and O. Martin and H. Newman and F. Paganini and S. Ravot and S. Singh,

IEEE Network, 19(1):4-11, Jan/Feb 2005.(638k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Tcpip-ton2004-2005.pdf ''Cross-layer optimization in TCP/IP networks'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

IEEE/ACM Transactions on Networking, 13(3):582-568, Jun 2005 (409k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/e/e5/Paganini-fast-jour-2005.pdf ''Congestion control for high performance, stability and fairness in general networks'']

F. Paganini, Z. Wang, J. C. Doyle and S. H. Low.

IEEE/ACM Transactions on Networking, 13(1):43-56, Feb 2005 (444k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Optimization-based Approach to Modeling Internet Topology'']

D. Alderson, W. Willinger, L. Li, and J. Doyle,

Telecommunications Planning: Innovations in Pricing, Network Design and Management. S. Raghavan and G. Anandlingham, eds. Springer. 2005.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1b/Tcpmac-infocom05.pdf ''Joint congestion control and media access control design for wireless ad hoc networks'']

Lijun Chen, Steven H. Low and John C. Doyle.

in Proceedings of IEEE Infocom, Miami, FL, Mar 2005 (193k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/20/Doyle-topology-PNAS-0508-2005.pdf ''Robust Yet Fragile Nature of the Internet'']

J. C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W. Willinger

in Proceedings of the National Academy of Sciences,102(40): 14123–14475(635k), 4 Oct 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f6/Li-SFGraph-IM-0508-2005.pdf ''Towards a theory of scale-free graphs: definitions, properties, and implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger

Internet Mathematics, 2005 (909k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/dd/Sigmetrics05.pdf ''Optimization model of internet protocols'']

Steven H. Low, John Doyle, Lun Li, Ao Tang and Jiantao Wang

in Proceedings of SIGMETRICS,pp277 - 277, Banff, Alberta, Canada, June 6-10, 2005.

[[Category:Papers]]

Systems biology

2007-08-29T22:57:34Z

Doyle2: defn to be edited

Biology is the broad study of life, with many fields ...

Systems biology in this research group concerns... :

- their molecular components and biochemistry

- function, structure and interactions of each component or system

- dynamics...

==Introductory and Review papers==

==External links==

*[http://sbml.org/contacts/ Systems Biology Mark up Language]

*[http://www.systems-biology.org/ Systems Biology Portal]

==Additional references==

[[Category:Research]]
[[Category:Systems biology]]

Complex networks

2007-08-29T22:48:51Z

Doyle2: defn to be edited

Wiki defn: In the context of Network theory, the term "complex network" refers to a network (graph) that has certain non-trivial topological features that do not occur in simple networks.

Most social, biological, and technological networks (as well as certain network-driven phenomena) can be considered complex by virtue of non-trivial topological structure (see e.g., social network, computer network, neural network, epidemiology). "

==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

News

2007-08-29T22:34:08Z

Doyle2: /* 2007 */

==Current news!==
[http://discovermagazine.com/2007/ Discover magazine], features John Doyle discussing both his academic and competitive sports interests.

==Past News==

===2007===
John Doyle's website is renovated.

Some graduates in 2007 [[Image:GB Grads 07.jpg|200px]]

===2005===
DGA Private Screening
September 7, 2005 @ 8PM
[[Image:Movie2005.jpg|right|100px]]
At an auction for the California Women’s Law Center(CWLC) John Doyle bid and won a private screening for a movie "Everything is Illuminated" staring Elijah Wood was shown at the Directors Guild of America on September 7th at 8pm. The movie All friends of CDS were invited to attend. A preview of the movie can be found here.

===2004===
John Doyle's 50th celebrations at [http://www.cds.caltech.edu/doyle-fest/overview.html Connections Workshop], Caltech. [[Image:JCDgraph.jpg]]

File:GB Grads 07.jpg

2007-08-29T22:33:01Z

Doyle2: Taken by Gloria Bain at Caltech Convocation June 2007.

Taken by Gloria Bain at Caltech Convocation June 2007.

Group

2007-08-29T22:32:00Z

Doyle2: /* Other collaborators */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel]

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg|200px]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

File:3profs07.jpg

2007-08-29T22:28:57Z

Doyle2: Taken by Gloria McBain at Caltech Convocation 2007.

Taken by Gloria McBain at Caltech Convocation 2007.

Group

2007-08-29T22:27:59Z

Doyle2: /* Other collaborators */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel]

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
2007 Convocation: Prof.'s John Doyle, Richard Murray & Steven Low.
[[Image:3profs07.jpg]]

Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

Main Page

2007-08-28T18:51:39Z

Doyle2:

<table border=1 width=100% style="color:black; " cellpadding="20" cellspacing="0">
<tr>
<td align=center width=20%> [[Image:doyle.jpg]]</td>
<td width=60% align=center>
John C. Doyle 

John G Braun Professor 
of Control and Dynamical Systems 
Electrical Engineering 
and BioEngineering 
Division of Engineering and Applied Science 
California Institute of Technology 

</td>
<td align=center width=20%>

[http://www.cds.caltech.edu/~murray/wiki/John Latest Adventure]

[[J. Doyle’s Bio]]

[[News]]

[[Calendar]]

[[#Contact|Contact]]

[https://www.cds.caltech.edu/squirrelmail/src/login.php CDS Webmail]
</td>
</tr></table>
{| align=center
|[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]
|}
<hr>
==Papers==
*favourite papers
*[[Papers|More Papers]]

== Research ==
John Doyle's [[research]] interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Applications interests are motivated by the interplay between: control, dynamical systems, and design and analysis of large, complex systems.

== Contact ==
{| width=100%
|- valign=top
| width=50% |

'''Mailing Address'''

John Doyle 
Control and Dynamical Systems, MC 107-81 
California Institute of Technology 
1200 E. California Blvd 
Pasadena, CA 91125 USA
| width=50% |

'''Contact information'''

E-mail: 
Office: 109 Steele, 
Phone:(626) 395-4808/Fax:626.395-6170 
Asst: Gloria Bain, x4140 
Labs: 12 STL, 110 GUG (x2319)
|-
|

===Other links===

*[http://www.caltech.edu California Institute of Technology]
**[http://www.eas.caltech.edu Engineering and Applied Science Division]
***[http://www.be.caltech.edu/ Bioengineering Department]
***[http://www.cds.caltech.edu Control and Dynamical Systems Department]
***[http://www.ee2.caltech.edu/ Electrical Engineering Department]
|}

Main Page

2007-08-28T18:50:52Z

Doyle2:

<table border=1 width=100% style="color:black; " cellpadding="20" cellspacing="0">
<tr>
<td align=center width=20%> [[Image:doyle.jpg]]</td>
<td width=60% align=center>
John C. Doyle 

John G Braun Professor 
of Control and Dynamical Systems 
Electrical Engineering 
and BioEngineering 
Division of Engineering and Applied Science 
California Institute of Technology 

</td>
<td align=center width=20%>

[[http://www.cds.caltech.edu/~murray/wiki/John | Latest Adventure]]

[[J. Doyle’s Bio]]

[[News]]

[[Calendar]]

[[#Contact|Contact]]

[https://www.cds.caltech.edu/squirrelmail/src/login.php CDS Webmail]
</td>
</tr></table>
{| align=center
|[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]
|}
<hr>
==Papers==
*favourite papers
*[[Papers|More Papers]]

== Research ==
John Doyle's [[research]] interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Applications interests are motivated by the interplay between: control, dynamical systems, and design and analysis of large, complex systems.

== Contact ==
{| width=100%
|- valign=top
| width=50% |

'''Mailing Address'''

John Doyle 
Control and Dynamical Systems, MC 107-81 
California Institute of Technology 
1200 E. California Blvd 
Pasadena, CA 91125 USA
| width=50% |

'''Contact information'''

E-mail: 
Office: 109 Steele, 
Phone:(626) 395-4808/Fax:626.395-6170 
Asst: Gloria Bain, x4140 
Labs: 12 STL, 110 GUG (x2319)
|-
|

===Other links===

*[http://www.caltech.edu California Institute of Technology]
**[http://www.eas.caltech.edu Engineering and Applied Science Division]
***[http://www.be.caltech.edu/ Bioengineering Department]
***[http://www.cds.caltech.edu Control and Dynamical Systems Department]
***[http://www.ee2.caltech.edu/ Electrical Engineering Department]
|}

Main Page

2007-08-28T18:50:29Z

Doyle2:

<table border=1 width=100% style="color:black; " cellpadding="20" cellspacing="0">
<tr>
<td align=center width=20%> [[Image:doyle.jpg]]</td>
<td width=60% align=center>
John C. Doyle 

John G Braun Professor 
of Control and Dynamical Systems 
Electrical Engineering 
and BioEngineering 
Division of Engineering and Applied Science 
California Institute of Technology 

</td>
<td align=center width=20%>

[[Latest Adventure| http://www.cds.caltech.edu/~murray/wiki/John]]

[[J. Doyle’s Bio]]

[[News]]

[[Calendar]]

[[#Contact|Contact]]

[https://www.cds.caltech.edu/squirrelmail/src/login.php CDS Webmail]
</td>
</tr></table>
{| align=center
|[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]||[[Image:Blossoms900strip.jpg]]
|}
<hr>
==Papers==
*favourite papers
*[[Papers|More Papers]]

== Research ==
John Doyle's [[research]] interests are in theoretical foundations for complex networks in engineering and biology, as well as multiscale physics, and include integrating modeling, ID, analysis and design of uncertain nonlinear systems, and computation in analysis and simulation, including complexity theory to guide algorithm development.

Applications interests are motivated by the interplay between: control, dynamical systems, and design and analysis of large, complex systems.

== Contact ==
{| width=100%
|- valign=top
| width=50% |

'''Mailing Address'''

John Doyle 
Control and Dynamical Systems, MC 107-81 
California Institute of Technology 
1200 E. California Blvd 
Pasadena, CA 91125 USA
| width=50% |

'''Contact information'''

E-mail: 
Office: 109 Steele, 
Phone:(626) 395-4808/Fax:626.395-6170 
Asst: Gloria Bain, x4140 
Labs: 12 STL, 110 GUG (x2319)
|-
|

===Other links===

*[http://www.caltech.edu California Institute of Technology]
**[http://www.eas.caltech.edu Engineering and Applied Science Division]
***[http://www.be.caltech.edu/ Bioengineering Department]
***[http://www.cds.caltech.edu Control and Dynamical Systems Department]
***[http://www.ee2.caltech.edu/ Electrical Engineering Department]
|}

Complex networks

2007-08-19T00:06:44Z

Doyle2:

==Introduction and review papers==
Introductory and review papers on complex networks, biological complexity and robustness.

Copied from "http://www.cds.caltech.edu/~doyle/CmplxNets/"

*Physics talk (slides) Nov 11, 2004
*Emergent complexity (slides) Nov 22, 2004 Georgia Tech
*Old IPAM slides
*Complexity and Robustness, JM Carlson and J Doyle, PNAS, 99, Suppl. 1, 2538-2545 (pdf)
*Reverse Engineering of Biological Complexity, ME Csete and J Doyle, Science, 295, 1664 (2002) (pdf)
*See also introductory papers on [[Research|HOT]]

==Supplementary material==

*Biological examples (pdf)
*Feedback examples (pdf)
*Legos and protocols: Notes and Pictures
*Biology and protocols: Slides
*Integral feedback: Proofs and Notes

==Links==
*[Feedback Control Theory, by Doyle, Francis and Tannenbaum]
*[Internet Protocols, Evolution, and Theory]
*[Systems Biology Workbench (SBW) and Markup Language (SBML)]

==Selected additional references:==

*''Robust Flow Stability: Theory, Computations and Experiments in Near Wall Turbulence'',

PhD thesis by Kumar Bobba (pdf)

*''Bow ties, metabolism, and disease'',

Csete M.E. and J.C. Doyle,

Trends in Biotechnology, 22(9):pp 446-450; 2004,(pdf).

*''Robustness of cellular functions'',

J. Stelling, U. Sauer, Z. Szallasi, F. J. Doyle III, and J. Doyle,

Cell, October, 2004 (pdf).

*''Surviving Heat Shock: Control Strategies for Robustness and Performance'',

H. El-Samad, H. Kurata , J.C. Doyle , C.A. Gross, and M. Khammash,

PNAS 2004,

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

*''Mutation, specialization, and hypersensitivity in highly optimized tolerance''

Zhou, Carlson, and Doyle,

PNAS 2002 99: 2049-2054;

*''Power laws, Highly Optimized Tolerance and generalized source coding'',

Doyle and Carlson,

PRL, (pdf)

*''Highly Optimized Tolerance: A Mechanism for Power Laws in Designed Systems'',

Carlson and Doyle,

PRE, (pdf)

*''Robust perfect adaptation in bacterial chemotaxis through integral feedback control'',

Yi, Huang, Simon, and Doyle,

PNAS, (Link or PDF)

*''Feedback regulation of the heat shock response in E. Coli'',

Kurata, El-Samad, Yi, Khammash, and Doyle, draft, (PS (7M) or Zipped (300k))

*''Structured semidefinite programs and semialgebraic geometry methods in robustness and optimization'',

Pablo Parrilo,

PhD Thesis, Control and Dynamical Systems, Caltech, (Gzipped postscript)

==Slides from old talks on Complexity and Robustness==

1. CDC plenary slides (ppt)

2. Introduction to complex networks (ppt)

3. Allerton plenary (ppt)

4. Introduction to HOT (ppt)

==Additional recommended books==

A course in Robust Control Theory: A Convex Approach, Dullerud and Paganini, Springer

Essentials of Robust Control, Zhou, Prentice-Hall

Cells, Embryos, and Evolution, Gerhart and Kirschner

==Related news and commentary items==
*http://www.aip.org/enews/physnews/2000/split/pnu474-1.htm
*http://helix.nature.com/nsu/000323/000323-2.html
*The power of design, Mark Newman, Nature 405, 412-413 (2000)
*http://unisci.com/stories/20001/0314004.htm:
*http://www.pnas.org/cgi/content/full/97/10/5031

[[Category:Research]]
[[Category:Complex Networks]]

Group

2007-08-19T00:05:12Z

Doyle2: /* Other collaborators */

John Doyle's research group is part of [http://www.cds.caltech.edu/people/ CDS department] at Caltech.

==Current Group==
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''Faculty'''
|'''Postdocs
|'''Students'''
|-
|John Doyle
|[http://www.cds.caltech.edu/people/portal/?id=662 Aaron D. Ames]

[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~maryam/ Maryam Fazel]

[http://www.cds.caltech.edu/~dtarraf/ Danielle C.Tarraf]

|''Graduate students''
[http://www.cds.caltech.edu/people/portal/?id=4 Aristotelis Asimakopoulos]

[http://www.cds.caltech.edu/people/portal/?id=384 Gentian Buzi]

[http://www.cds.caltech.edu/~andyl/ Andrew Lamperski]

[http://www.cds.caltech.edu/people/portal/?id=331 Dennice Maynard Gayme]

|-
|'''Admin staff'''
|'''Visitors'''
|''Undergraduate students''
|-
|[http://www.cds.caltech.edu/people/portal/?id=469 Gloria Bain]
|[http://www.cds.caltech.edu/people/portal/?id=713 Rutika Muchhala (student)]

[http://www.cds.caltech.edu/~lun/ Lun Li]
|[http://www.cds.caltech.edu/people/portal/?id=722 Chinwendu Enyioha]

|}

==Past Group==
===Alumni===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006'''
|'''1990-1999'''
|-
|[http://www.cds.caltech.edu/~chen/ Lijun Chen]

[http://www.cds.caltech.edu/~lun Lun Li]

[http://www.cds.caltech.edu/people/portal/?id=6 Xin Liu]

[http://www.cds.caltech.edu/~alfredo/ Alfredo Martinez]

[http://www.cds.caltech.edu/people/portal/?id=184 Oluwatosin Otitoju]

|[http://www.cds.caltech.edu/~xlfeng/ Xiaolin Feng]

[http://www.seas.upenn.edu/~jadbabai/ Ali Jadbabaie]

[http://www.cds.caltech.edu/people/portal/?id=40 Yindi Jing]

[http://users.ox.ac.uk/~engs0587/ Antonis Papachristodoulou]

[http://www.mit.edu/~parrilo/ Pablo Parrilo]

[http://www.cds.caltech.edu/~prajna/ Steven Prajna]

[http://www.cds.caltech.edu/~jiantao/ Jiantao Wang]

[http://www.cds.caltech.edu/~jyu/ Jie Yu]

[http://www.cds.caltech.edu/~xyzhu/ Xiaoyun Zhu]

|Carolyn Beck

Raff D'Andrea

Sonja Glavaski

Irene Gregory

Yun Huang

Michael Kantner

Sven Khatri

[http://www.ee.ucla.edu/~paganini/ Fernando Paganini]

[http://www.stanford.edu/dept/MSandE/people/faculty/primbs/index.html James Primbs]

Jorge Tierno

|}

===Past Postdocs===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|?
|[http://www.nps.navy.mil/orfacpag/resumePages/alderson.htm David Alderson]

[http://www.bmc.riken.jp/~reiko/index.htm Reiko Tanaka]

|?
|}

===Past Visitors===
{| width=100% border=0 cellpadding=0 cellspacing=0
|-
|'''2007'''
|'''2000-2006
|'''1990-1999'''
|-
|
|?
|?
|}
2007 2000-2006 1990-1999

==Other collaborators==
Some collaborators at John Doyle's 50th birthday Connections Workshop, 2004: [[Image:JCDgraph.jpg]]

To Do Q

2007-08-18T02:25:33Z

Doyle2: /* Hana's log hours */

==Homepage==

==Papers==
[[Papers]] page:
*Converted ext paper to internal links for 2005-2009 papers
*copied joint Netlab papers to CDS server next and adjust the ext links to int links
*everyone can add their papers to the website.

==Other pages==
[[J. Doyle’s Bio]] page: Do we copy J Doyle's CV from old websites -see

[[Group]] page: Asked Gloria & Lijun to add to list of past & present people. Lun has added quite a few via CDS/Netlab/Google pages.

[[Research]] page: need to expand.

[[Complex networks]] need to update and edit.

[[Systems biology]] needs expanding and updating.

Need to define and select "categories".

Need to get group contributing to wiki.

==Other==

===Links / Access ===

Need to increase internal wiki links and add "categories"

Need to find out how to link "Presentations"

File permisssions last set by Lachlan and Lun July 2007.

Ask Lun:
* to set up separate username/password for :John Doyle, Lun & Hana,
**Do you want Individual users or group users?
**See [[Help:Contents]] for tips on creating accounts.

===images===
Shrink Images into thumbnail using Photoshop on Netlab's remote desktop later:

==Old webpages==
http://www.cds.caltech.edu/~doyle/home.htm

http://www.cds.caltech.edu/~doyle/

==Hana's log hours==
{| border=1
!Date
!Time
!Hrs
|-
|7/8/07 Lun helped! ||2-6.30pm ||4.5
|-
|7/9/07 ||10am-1pm ||3
|-
|7/15/07 Lun helped||12-3.30pm||3.5
|-
|7/16/07||12-12.30am||0.5
|-
|7/18/07||4-4.30pm, 6-7pm||1.5
|-
|7/27/07||10-10.30||0.5
|-
|7/31/07||12-12.30||0.5
|-
|8/2/07||2.30-4.30||2.0
|-
|8/4/07||4.30-5||0.5
|-
|8/10/07||4-6.30||2.5
|-
|8/14/07 ||9.30-11.30||2
|-
|8/17/07||6.30-7.30||1
|}

Waiting on Betta at Netlab to arrange payment account.

Lun: installed wiki, enabled LocalSettings to upload, edited current/past Group (adding links & names, edit main page/structure); hidden edit tabs to users not logged in

Hana: copied links to papers from Netlab & Lun's page, Systems-Biol page, J DOyle's old page onto wiki, set up to do list / main page/stucture/help page/sidebar/research/papers pages & bio copied. Added IEEE explore publications to pages.

2000-2004

2007-08-18T02:23:55Z

Doyle2: /* Conferences */

John Doyle's papers from 2000-2004.

==2004==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c3/Papachristodoulou-ccr04.pdf ''Methodological Frameworks for Largescale Network Analysis and Design'']

Antonis Papachristodoulou, Lun Li and John C. Doyle

Computer Communication Review, 34(3), Jul 2004 (566k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1f/Diabetes2004.pdf ''Metabolic Syndrome and Robustness Tradeoffs''],

Kitano, H., Oda, K., Kimura, T., Matsuoka, Y., Csete, M., Doyle, J., Muramatsu, M..

Diabetes 53, S6-S15, 2004

[http://scitation.aip.org/dbt/dbt.jsp?KEY=IPSBDJ&Volume=1 '' Evolving a lingua franca and associated software infrastructure for computational systems biology: theSystemsBiologyMarkupLanguage(SBML) project''],

M. Hucka; A. Finney; B.J. Bornstein; S.M. Keating; B.E. Shapiro; J. Matthews; B.L. Kovitz; M.J. Schilstra; A. Funahashi; J.C. Doyle; and H. Kitano

IEE Systems Biology. 1:41-53, 2004

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c0/CDC04_2-Papachristodoulou.pdf ''Analysis of non-linear differential equation model of TCP/AQM protocols using sums of squares.'']

A. Papachristodoulou, J. C. Doyle and Steven H. Low.

in Proceedings of IEEE Conference on Decision and Control (CDC), Paradise Island, Bahamas, Dec 2004 (140k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

[http://www.ee2.caltech.edu/news.html Winner of Best Student paper award]

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Role of Optimization in Understanding and Modeling Internet Topology''],

D. Alderson, W. Willinger, L. Li and J. C. Doyle,

In Proceedings of the 7th INFORMS Tele-communications Conference, Boca Raton, FL, Mar 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Wsc04.pdf ''More 'Normal' Than Normal: Scaling Distributions and Complex Systems''],

W. Willinger, D. Alderson, J. C. Doyle and L. Li,

WSC (Winter Simulation Conference), Washington D. C., 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5b/Imc04.pdf ''A Pragmatic Approach to Dealing with High-variability in Network Measurements''],

W. Willinger, D. Alderson, and L. Li,

In Proceedings of Internet Measurement Conference (ACM SIGCOMM), Scicily, Italy, Oct 2004.

*''Managing complexity and uncertainty''

Doyle, J.C.;

SICE 2004 Annual Conference vol. 1; ppxlvii - l; 4-6 Aug. 2004.

==2003==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/b/b6/TCPstability-CompNet2003.pdf ''Linear stability of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang and J. C. Doyle

Computer Networks Journal, 43(5):633-647, Dec 2003 (465k).

*''Computational complexity of μ calculation''
R.P. Braatz, P. M. Young, J. C. Doyle, M. Morari
Automatic Control, IEEE Transactions
39(5):1000-1002, May 1994.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5c/Pfldnet03.pdf " ''FAST Kernel: Background Theory and Experimental Results'']

C. Jin, D. X. Wei, S. H. Low, G. Buhrmaster, J. Bunn, D. H. Choe, R. L. A. Cottrell, J. C. Doyle, H. Newman, F. Paganini, S. Ravot and S. Singh.

in Presented at International Workshop on Protocols for Fast Long-Distance Networks (PFLDnet), CERN, Geneva, Switzerland, 3-4 Feb 2003 (431k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/24/MD-Paganini03.pdf ''A Control Theoretical Look at Internet Congestion Control'']
F. Paganini, J. C. Doyle and S. H. Low.

in Multidisciplinary Research in Control: The Mohammed Dahleh Symposium 2002. Springer Lecture Notes in Control and Information Sciences, Vol. 289
L. Giarre' and B. Bamieh (eds.), Springer-Verlag, 2003 (283k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/db/Tcpip2003.pdf ''Can Shortest Path Routing and TCP Maximize Utility'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (157k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/3d/Fast-infocom03.pdf ''A new TCP/AQM for Stable Operation In Fast Networks'']

F. Paganini, Z. Wang, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (1.4MB)

*''Model validation and robust stability analysis of the bacterial heat shock response using SOSTOOLS.''

El-Samad, H.; Prajna, S.; Papachristodoulou, A.; Khammash, M.; Doyle, J.C.;

in Proceedings of IEEE Conference on Decision and Control, vol. 4:3766 - 3771; 9-12 Dec. 2003.

===Book===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ab/RobustInternetII-Doyle-2002.pdf '' Robustness and the Internet: Theoretical foundations'']

John C. Doyle, Jean Carlson, Steven H. Low, Fernando Paganini, Glenn Vinnicombe, Walter Willinger, Jason Hickey, Pablo Parrilo and Lieven Vandenberghe.

in ''Robust design: a repertoire from biology, ecology, and engineering.''
E. Jen (eds.), Oxford University Press, 2003

==2002==
===Journals===
[http://netlab.caltech.edu/publications/csm2001-2002.ps ''Internet Congestion Control'']

S. H. Low, F. Paganini and J. C. Doyle

IEEE Control Systems Magazine, 22(1):28-43, Feb 2002 (225k)

*''Reverse Engineering of Biological Complexity''

Marie E. Csete, John C. Doyle

Science 1 295(5560):1664 - 1669, March 2002

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12076125&dopt=Abstract ''Robustness as a measure of plausibility in models of biochemical networks (abstract)''],

Morohashi, M., Winn, A. E., Borisuk, M. T., Bolouri, H., Doyle, J.,
and Kitano, H.

J Theor Biol. 2002 May 7;216(1):19-30.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/72/Fast-allerton02.pdf '' A new TCP/AQM for Stability and Performance in Fast Networks''],

Fernando Paganini, Zhikui Wang, Steven H. Low and John C. Doyle

in Proceedings of 39th Annual Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2002 (1.36M)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/21/JWanginfocom02.pdf ''Dynamics of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of IEEE Infocom, New York, NY, Jun 2002 (435k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/8/88/Acc02.pdf ''Extensions of Jump Markov System Estimation''],

K. Sun, L. Li, G. Panayotopoulos and A. Packard,

American Control Conference, 2002.

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11928498&dopt=Abstract ''The ERATO Systems Biology Workbench: enabling interaction and exchange between software tools for computational biology'' (Abstract)]

Hucka, M., Finney, A., Sauro, H. M., Bolouri, H., Doyle, J., and Kitano,H.

in Proceedings of Pac Symp Biocomput. 450-61, 2002.

===?===
*[http://netlab.caltech.edu/publications/scalable2SLow2002.ps ''A New TCP Congestion Control with Empty Queues and Scalable Stability'']

F. Paganini, S. H. Low, Z. Wang, S. Athuraliya and J. C. Doyle.

2002

==2001==
===Journals===
===Conferences===

[http://netlab.caltech.edu/publications/cdc01.ps ''Scalable Laws for Stable Network Congestion Control'']

Fernando Paganini, J. C. Doyle and S. H. Low.

in Proceedings of IEEE CDC, Orlando, FL, Dec 2001 (475k).

*''Linear stability of TCP/RED and a Scalable Control'' (invited)

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2001.

==2000==
*''A receding horizon generalization of pointwise min-norm controllers.''

Primbs, J.A.; Nevistic, V.; Doyle, J.C.;

IEEE Transactions on Automatic Control 45(5):898 - 909, May 2000.
[[Category:Papers]]

2000-2004

2007-08-18T02:20:49Z

Doyle2: /* 2004 */

John Doyle's papers from 2000-2004.

==2004==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c3/Papachristodoulou-ccr04.pdf ''Methodological Frameworks for Largescale Network Analysis and Design'']

Antonis Papachristodoulou, Lun Li and John C. Doyle

Computer Communication Review, 34(3), Jul 2004 (566k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1f/Diabetes2004.pdf ''Metabolic Syndrome and Robustness Tradeoffs''],

Kitano, H., Oda, K., Kimura, T., Matsuoka, Y., Csete, M., Doyle, J., Muramatsu, M..

Diabetes 53, S6-S15, 2004

[http://scitation.aip.org/dbt/dbt.jsp?KEY=IPSBDJ&Volume=1 '' Evolving a lingua franca and associated software infrastructure for computational systems biology: theSystemsBiologyMarkupLanguage(SBML) project''],

M. Hucka; A. Finney; B.J. Bornstein; S.M. Keating; B.E. Shapiro; J. Matthews; B.L. Kovitz; M.J. Schilstra; A. Funahashi; J.C. Doyle; and H. Kitano

IEE Systems Biology. 1:41-53, 2004

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c0/CDC04_2-Papachristodoulou.pdf ''Analysis of non-linear differential equation model of TCP/AQM protocols using sums of squares.'']

A. Papachristodoulou, J. C. Doyle and Steven H. Low.

in Proceedings of IEEE Conference on Decision and Control (CDC), Paradise Island, Bahamas, Dec 2004 (140k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

[http://www.ee2.caltech.edu/news.html Winner of Best Student paper award]

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Role of Optimization in Understanding and Modeling Internet Topology''],

D. Alderson, W. Willinger, L. Li and J. C. Doyle,

In Proceedings of the 7th INFORMS Tele-communications Conference, Boca Raton, FL, Mar 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Wsc04.pdf ''More 'Normal' Than Normal: Scaling Distributions and Complex Systems''],

W. Willinger, D. Alderson, J. C. Doyle and L. Li,

WSC (Winter Simulation Conference), Washington D. C., 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5b/Imc04.pdf ''A Pragmatic Approach to Dealing with High-variability in Network Measurements''],

W. Willinger, D. Alderson, and L. Li,

In Proceedings of Internet Measurement Conference (ACM SIGCOMM), Scicily, Italy, Oct 2004.

*''Managing complexity and uncertainty''

Doyle, J.C.;

SICE 2004 Annual Conference vol. 1; ppxlvii - l; 4-6 Aug. 2004.

==2003==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/b/b6/TCPstability-CompNet2003.pdf ''Linear stability of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang and J. C. Doyle

Computer Networks Journal, 43(5):633-647, Dec 2003 (465k).

*''Computational complexity of μ calculation''
R.P. Braatz, P. M. Young, J. C. Doyle, M. Morari
Automatic Control, IEEE Transactions
39(5):1000-1002, May 1994.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5c/Pfldnet03.pdf " ''FAST Kernel: Background Theory and Experimental Results'']

C. Jin, D. X. Wei, S. H. Low, G. Buhrmaster, J. Bunn, D. H. Choe, R. L. A. Cottrell, J. C. Doyle, H. Newman, F. Paganini, S. Ravot and S. Singh.

in Presented at International Workshop on Protocols for Fast Long-Distance Networks (PFLDnet), CERN, Geneva, Switzerland, 3-4 Feb 2003 (431k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/24/MD-Paganini03.pdf ''A Control Theoretical Look at Internet Congestion Control'']
F. Paganini, J. C. Doyle and S. H. Low.

in Multidisciplinary Research in Control: The Mohammed Dahleh Symposium 2002. Springer Lecture Notes in Control and Information Sciences, Vol. 289
L. Giarre' and B. Bamieh (eds.), Springer-Verlag, 2003 (283k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/db/Tcpip2003.pdf ''Can Shortest Path Routing and TCP Maximize Utility'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (157k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/3d/Fast-infocom03.pdf ''A new TCP/AQM for Stable Operation In Fast Networks'']

F. Paganini, Z. Wang, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (1.4MB)

===Book===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ab/RobustInternetII-Doyle-2002.pdf '' Robustness and the Internet: Theoretical foundations'']

John C. Doyle, Jean Carlson, Steven H. Low, Fernando Paganini, Glenn Vinnicombe, Walter Willinger, Jason Hickey, Pablo Parrilo and Lieven Vandenberghe.

in ''Robust design: a repertoire from biology, ecology, and engineering.''
E. Jen (eds.), Oxford University Press, 2003

==2002==
===Journals===
[http://netlab.caltech.edu/publications/csm2001-2002.ps ''Internet Congestion Control'']

S. H. Low, F. Paganini and J. C. Doyle

IEEE Control Systems Magazine, 22(1):28-43, Feb 2002 (225k)

*''Reverse Engineering of Biological Complexity''

Marie E. Csete, John C. Doyle

Science 1 295(5560):1664 - 1669, March 2002

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12076125&dopt=Abstract ''Robustness as a measure of plausibility in models of biochemical networks (abstract)''],

Morohashi, M., Winn, A. E., Borisuk, M. T., Bolouri, H., Doyle, J.,
and Kitano, H.

J Theor Biol. 2002 May 7;216(1):19-30.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/72/Fast-allerton02.pdf '' A new TCP/AQM for Stability and Performance in Fast Networks''],

Fernando Paganini, Zhikui Wang, Steven H. Low and John C. Doyle

in Proceedings of 39th Annual Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2002 (1.36M)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/21/JWanginfocom02.pdf ''Dynamics of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of IEEE Infocom, New York, NY, Jun 2002 (435k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/8/88/Acc02.pdf ''Extensions of Jump Markov System Estimation''],

K. Sun, L. Li, G. Panayotopoulos and A. Packard,

American Control Conference, 2002.

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11928498&dopt=Abstract ''The ERATO Systems Biology Workbench: enabling interaction and exchange between software tools for computational biology'' (Abstract)]

Hucka, M., Finney, A., Sauro, H. M., Bolouri, H., Doyle, J., and Kitano,H.

in Proceedings of Pac Symp Biocomput. 450-61, 2002.

===?===
*[http://netlab.caltech.edu/publications/scalable2SLow2002.ps ''A New TCP Congestion Control with Empty Queues and Scalable Stability'']

F. Paganini, S. H. Low, Z. Wang, S. Athuraliya and J. C. Doyle.

2002

==2001==
===Journals===
===Conferences===

[http://netlab.caltech.edu/publications/cdc01.ps ''Scalable Laws for Stable Network Congestion Control'']

Fernando Paganini, J. C. Doyle and S. H. Low.

in Proceedings of IEEE CDC, Orlando, FL, Dec 2001 (475k).

*''Linear stability of TCP/RED and a Scalable Control'' (invited)

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2001.

==2000==
*''A receding horizon generalization of pointwise min-norm controllers.''

Primbs, J.A.; Nevistic, V.; Doyle, J.C.;

IEEE Transactions on Automatic Control 45(5):898 - 909, May 2000.
[[Category:Papers]]

1985-1989

2007-08-18T02:18:46Z

Doyle2:

1989-1982...

==1989==
*''State-space solutions to standard H2 and H ∞ control problems''

Doyle, J.C.; Glover, K.; Khargonekar, P.P.; Francis, B.A.;

IEEE Transactions on Automatic Control 34(8):831 - 847, Aug 1989.

==1988==
===Journal===
*''State-space formulae for all stabilizing controllers that satisfy and H∞norm bound and relations to risk sensitivity''

Keith Glover and John C. Doyle

Systems & Control Letters 11(3):167-172 Sept 1988.

*''Robust control of ill-conditioned plants: high-purity distillation''

Skogestad, S.; Morari, M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 33(12):1092 - 1105, Dec 1988.

===Conference===
*''Structured singular value with repeated scalar blocks''

A. K. Packard and J. C. Doyle,

in Proceedings of Am. Contr. Conf., pp. 1213-1218, 1988.

==1987==
*''Linear Control Theory with an ${\bf H}_\infty $ Optimality Criterion''

Bruce A. Francis and John C. Doyle

SIAM Journal on Control and Optimization

SICON 25(4): 815-844, 1987 Society for Industrial and Applied Mathematics

==1985==
*''Structured uncertainty in control system design''

Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):260 - 265, Dec 1985.

*''The general distance problem in HÂ¿ synthesis.''

Cheng-Chih Chu; Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):1311 - 1316, Dec 1985.

==1984==
*''On inner-outer and spectral factorizations''

Cheng-Chih Chu; Doyle, J.C.;

IEEE Conference on Decision and Control, 23(1):1764 - 1765, Dec 1984.

==1983==

*''Synthesis of robust controllers and filters.''

Doyle, J.C.;

IEEE Conference on Decision and Control, 22(1):109 - 114, Dec 1983.

==1982==
*''Analysis of feedback systems with structured uncertainty''

J. C. Doyle

IEE Proc., Pt. D, vol. 129, pp. 242-250, 1982.

*''Performance and robustness analysis for structured uncertainty''
Doyle, J.C.; Wall, J.E.; Stein, G.;

IEEE Conference on Decision and Control, 21(1):629 - 636 Dec 1982

[[Category:Papers]]

1985-1989

2007-08-18T02:18:08Z

Doyle2: /* 1985 */

1989-1982...

==1989==
*''State-space solutions to standard H2 and H ∞ control problems''

Doyle, J.C.; Glover, K.; Khargonekar, P.P.; Francis, B.A.;

IEEE Transactions on Automatic Control 34(8):831 - 847, Aug 1989.

==1988==
===Journal===
*''State-space formulae for all stabilizing controllers that satisfy and H∞norm bound and relations to risk sensitivity''

Keith Glover and John C. Doyle

Systems & Control Letters 11(3):167-172 Sept 1988.

*''Robust control of ill-conditioned plants: high-purity distillation''

Skogestad, S.; Morari, M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 33(12):1092 - 1105, Dec 1988.

===Conference===
*''Structured singular value with repeated scalar blocks''

A. K. Packard and J. C. Doyle,

in Proceedings of Am. Contr. Conf., pp. 1213-1218, 1988.

==1987==
*''Linear Control Theory with an ${\bf H}_\infty $ Optimality Criterion''

Bruce A. Francis and John C. Doyle

SIAM Journal on Control and Optimization

SICON 25(4): 815-844, 1987 Society for Industrial and Applied Mathematics

==1985==
*''Structured uncertainty in control system design''

Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):260 - 265, Dec 1985.

*''The general distance problem in HÂ¿ synthesis.''

Cheng-Chih Chu; Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):1311 - 1316, Dec 1985.

==1984==
*''On inner-outer and spectral factorizations''

Cheng-Chih Chu; Doyle, J.C.;

IEEE Conference on Decision and Control, 23(1):1764 - 1765, Dec 1984.

==1983==

*''Synthesis of robust controllers and filters.''

Doyle, J.C.;

IEEE Conference on Decision and Control, 22(1):109 - 114, Dec 1983.

*''Performance and robustness analysis for structured uncertainty''
Doyle, J.C.; Wall, J.E.; Stein, G.;

IEEE Conference on Decision and Control, 21(1):629 - 636 Dec 1982

==1982==
*''Analysis of feedback systems with structured uncertainty''

J. C. Doyle

IEE Proc., Pt. D, vol. 129, pp. 242-250, 1982.

[[Category:Papers]]

1985-1989

2007-08-18T02:14:15Z

Doyle2: /* 1987 */

1989-1982...

==1989==
*''State-space solutions to standard H2 and H ∞ control problems''

Doyle, J.C.; Glover, K.; Khargonekar, P.P.; Francis, B.A.;

IEEE Transactions on Automatic Control 34(8):831 - 847, Aug 1989.

==1988==
===Journal===
*''State-space formulae for all stabilizing controllers that satisfy and H∞norm bound and relations to risk sensitivity''

Keith Glover and John C. Doyle

Systems & Control Letters 11(3):167-172 Sept 1988.

*''Robust control of ill-conditioned plants: high-purity distillation''

Skogestad, S.; Morari, M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 33(12):1092 - 1105, Dec 1988.

===Conference===
*''Structured singular value with repeated scalar blocks''

A. K. Packard and J. C. Doyle,

in Proceedings of Am. Contr. Conf., pp. 1213-1218, 1988.

==1987==
*''Linear Control Theory with an ${\bf H}_\infty $ Optimality Criterion''

Bruce A. Francis and John C. Doyle

SIAM Journal on Control and Optimization

SICON 25(4): 815-844, 1987 Society for Industrial and Applied Mathematics

==1985==
*''Structured uncertainty in control system design''

Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):260 - 265, Dec 1985.

*''The general distance problem in HÂ¿ synthesis.''

Cheng-Chih Chu; Doyle, J.C.;

IEEE Conference on Decision and Control, 24(1):1311 - 1316, Dec 1985.

==1982==
*''Analysis of feedback systems with structured uncertainty''

J. C. Doyle

IEE Proc., Pt. D, vol. 129, pp. 242-250, 1982.

[[Category:Papers]]

2005-2009

2007-08-18T02:11:47Z

Doyle2: /* Conferences */

John Doyle's papers from 2005-2009

==2007==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f5/PRE06.pdf ''Diversity of graphs with highly variable connectivity'']

David Alderson and Lun Li

Phyiscal Review E 75, 046102, 2007. (Copy to Netlab too)

*''Fundamental Limitations of Disturbance Attenuation in the Presence of Side Information''

Martins, N. C.; Dahleh, M. A.; Doyle, J. C.;

IEEE Transactions on Automatic Control, 52(1):56 - 66, Jan 2007

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/9/96/Netcod-info07.pdf ''Optimization Based Rate Control for Multi-cast with Network Coding'']

Lijun Chen, Tracey Ho, Steven H. Low, Mung Chiang and John C. Doyle.

in Proceedings of IEEE Infocom, Anchorage, Alaska, May 2007.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/31/Layering-IEEEProc-060402.pdf ''Layering as optimization decomposition''],

Mung Chiang and Steven H. Low and A. Robert Calderbank and John C. Doyle

in Proceedings of the IEEE, Jan 2007.

==2006==
===Journals===
[http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pcbi.0020059.eor ''Module-Based Analysis of Robustness Tradeoffs in the Heat Shock Response System '']

Hiroyuki Kurata, Hana El-Samad, Rei Iwasaki, Hisao Ohtake, John C Doyle, Irina Grigorova, Carol A. Gross, Mustafa Khammash,

[http://compbiol.plosjournals.org/ PLoS Computational Biology], early on-line release. (april 13, 2006)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fc/IM06.pdf ''Towards a Theory of Scale-Free Graphs: Definition, Properties, and Implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger,

Internet Mathematics, 2(4), p 431-523, Mar. 2006.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ae/Wireless-Chen-infocom06.pdf ''Cross-layer congestion control, routing and scheduling design in ad hoc wireless network''],

L. Chen and S. H. Low and M. Chiang and J. C. Doyle,

in Proceedings of IEEE Infocom, pp1-13; Barcelona, Spain, Apr 2006.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fe/Hotnets06.pdf ''Discovering Dependencies for Network Management''],

Victor Bahl, Paul Barham, Richard Black, Ranveer Chandra, Moises Goldszmidt, Rebecca Isaacs, Srikanth Kandula, Lun Li, John MacCormick, David A. Maltz, Richard Mortier, Mike Wawrzoniak, and Ming Zhang,

In Proc. of the ACM SIGCOMM Hot Topics in Networks (HotNets) Pisa, Italy, Sept 2006.

*''Complexity in Automation of SOS Proofs: An Illustrative Example''

Gayme, D.; Fazel, M.; Doyle, J.C.;

IEEE Conference on Decision and Control, Page(s):5851 - 5856, 13-15 Dec 2006.

===Book===
''Dual scheduling algorithm in a generalized switch: asymptotic optimality and throughput optimality'',

L. Chen and S. H. Low and J. C. Doyle,

in ''High-Performance Packet Switching Architectures'', Itamar Elhanany and Mounir Hamdi (Eds), Springer, Jun 2006.

===Technical report===
*[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/a4/Ramac.pdf ''Random Access Game and Medium Access Control Design'']

L. Chen, S. H. Low and J. C. Doyle,

(Caltech) Technical Report, March 2006.

==2005==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/74/Ton_topology.pdf ''Understanding Internet Topology: Principles, Models, and Validation,'']

D. Alderson, L. Li, W. Willinger, J. C. Doyle,

IEEE/ACM Transaction on Networking, 13(6), Dec. 2005. 1.2MB

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/7e/PNAS05.pdf ''The 'Robust, Yet Fragile' Nature of the Internet'']

J.C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W.Willinger,

Proc. of the. National Academy of Sciences, Oct.4 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/6/64/Fast-network05.pdf ''FAST TCP: From Theory to Experiments''],

C. Jin and D. X. Wei and S. H. Low and G. Buhrmaster and J. Bunn and D. H. Choe and R. L. A. Cottrell and J. C. Doyle and W. Feng and O. Martin and H. Newman and F. Paganini and S. Ravot and S. Singh,

IEEE Network, 19(1):4-11, Jan/Feb 2005.(638k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Tcpip-ton2004-2005.pdf ''Cross-layer optimization in TCP/IP networks'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

IEEE/ACM Transactions on Networking, 13(3):582-568, Jun 2005 (409k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/e/e5/Paganini-fast-jour-2005.pdf ''Congestion control for high performance, stability and fairness in general networks'']

F. Paganini, Z. Wang, J. C. Doyle and S. H. Low.

IEEE/ACM Transactions on Networking, 13(1):43-56, Feb 2005 (444k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Optimization-based Approach to Modeling Internet Topology'']

D. Alderson, W. Willinger, L. Li, and J. Doyle,

Telecommunications Planning: Innovations in Pricing, Network Design and Management. S. Raghavan and G. Anandlingham, eds. Springer. 2005.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1b/Tcpmac-infocom05.pdf ''Joint congestion control and media access control design for wireless ad hoc networks'']

Lijun Chen, Steven H. Low and John C. Doyle.

in Proceedings of IEEE Infocom, Miami, FL, Mar 2005 (193k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/20/Doyle-topology-PNAS-0508-2005.pdf ''Robust Yet Fragile Nature of the Internet'']

J. C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W. Willinger

in Proceedings of the National Academy of Sciences,102(40): 14123–14475(635k), 4 Oct 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f6/Li-SFGraph-IM-0508-2005.pdf ''Towards a theory of scale-free graphs: definitions, properties, and implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger

Internet Mathematics, 2005 (909k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/dd/Sigmetrics05.pdf ''Optimization model of internet protocols'']

Steven H. Low, John Doyle, Lun Li, Ao Tang and Jiantao Wang

in Proceedings of SIGMETRICS,pp277 - 277, Banff, Alberta, Canada, June 6-10, 2005.

[[Category:Papers]]

2005-2009

2007-08-18T02:10:56Z

Doyle2: /* Conferences */

John Doyle's papers from 2005-2009

==2007==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f5/PRE06.pdf ''Diversity of graphs with highly variable connectivity'']

David Alderson and Lun Li

Phyiscal Review E 75, 046102, 2007. (Copy to Netlab too)

*''Fundamental Limitations of Disturbance Attenuation in the Presence of Side Information''

Martins, N. C.; Dahleh, M. A.; Doyle, J. C.;

IEEE Transactions on Automatic Control, 52(1):56 - 66, Jan 2007

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/9/96/Netcod-info07.pdf ''Optimization Based Rate Control for Multi-cast with Network Coding'']

Lijun Chen, Tracey Ho, Steven H. Low, Mung Chiang and John C. Doyle.

in Proceedings of IEEE Infocom, Anchorage, Alaska, May 2007.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/31/Layering-IEEEProc-060402.pdf ''Layering as optimization decomposition''],

Mung Chiang and Steven H. Low and A. Robert Calderbank and John C. Doyle

in Proceedings of the IEEE, Jan 2007.

==2006==
===Journals===
[http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pcbi.0020059.eor ''Module-Based Analysis of Robustness Tradeoffs in the Heat Shock Response System '']

Hiroyuki Kurata, Hana El-Samad, Rei Iwasaki, Hisao Ohtake, John C Doyle, Irina Grigorova, Carol A. Gross, Mustafa Khammash,

[http://compbiol.plosjournals.org/ PLoS Computational Biology], early on-line release. (april 13, 2006)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fc/IM06.pdf ''Towards a Theory of Scale-Free Graphs: Definition, Properties, and Implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger,

Internet Mathematics, 2(4), p 431-523, Mar. 2006.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ae/Wireless-Chen-infocom06.pdf ''Cross-layer congestion control, routing and scheduling design in ad hoc wireless network''],

L. Chen and S. H. Low and M. Chiang and J. C. Doyle,

in Proceedings of IEEE Infocom, Barcelona, Spain, Apr 2006.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/fe/Hotnets06.pdf ''Discovering Dependencies for Network Management''],

Victor Bahl, Paul Barham, Richard Black, Ranveer Chandra, Moises Goldszmidt, Rebecca Isaacs, Srikanth Kandula, Lun Li, John MacCormick, David A. Maltz, Richard Mortier, Mike Wawrzoniak, and Ming Zhang,

In Proc. of the ACM SIGCOMM Hot Topics in Networks (HotNets) Pisa, Italy, Sept 2006.

*''Complexity in Automation of SOS Proofs: An Illustrative Example''

Gayme, D.; Fazel, M.; Doyle, J.C.;

IEEE Conference on Decision and Control, Page(s):5851 - 5856, 13-15 Dec 2006.

===Book===
''Dual scheduling algorithm in a generalized switch: asymptotic optimality and throughput optimality'',

L. Chen and S. H. Low and J. C. Doyle,

in ''High-Performance Packet Switching Architectures'', Itamar Elhanany and Mounir Hamdi (Eds), Springer, Jun 2006.

===Technical report===
*[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/a4/Ramac.pdf ''Random Access Game and Medium Access Control Design'']

L. Chen, S. H. Low and J. C. Doyle,

(Caltech) Technical Report, March 2006.

==2005==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/74/Ton_topology.pdf ''Understanding Internet Topology: Principles, Models, and Validation,'']

D. Alderson, L. Li, W. Willinger, J. C. Doyle,

IEEE/ACM Transaction on Networking, 13(6), Dec. 2005. 1.2MB

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/7e/PNAS05.pdf ''The 'Robust, Yet Fragile' Nature of the Internet'']

J.C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W.Willinger,

Proc. of the. National Academy of Sciences, Oct.4 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/6/64/Fast-network05.pdf ''FAST TCP: From Theory to Experiments''],

C. Jin and D. X. Wei and S. H. Low and G. Buhrmaster and J. Bunn and D. H. Choe and R. L. A. Cottrell and J. C. Doyle and W. Feng and O. Martin and H. Newman and F. Paganini and S. Ravot and S. Singh,

IEEE Network, 19(1):4-11, Jan/Feb 2005.(638k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Tcpip-ton2004-2005.pdf ''Cross-layer optimization in TCP/IP networks'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

IEEE/ACM Transactions on Networking, 13(3):582-568, Jun 2005 (409k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/e/e5/Paganini-fast-jour-2005.pdf ''Congestion control for high performance, stability and fairness in general networks'']

F. Paganini, Z. Wang, J. C. Doyle and S. H. Low.

IEEE/ACM Transactions on Networking, 13(1):43-56, Feb 2005 (444k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Optimization-based Approach to Modeling Internet Topology'']

D. Alderson, W. Willinger, L. Li, and J. Doyle,

Telecommunications Planning: Innovations in Pricing, Network Design and Management. S. Raghavan and G. Anandlingham, eds. Springer. 2005.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1b/Tcpmac-infocom05.pdf ''Joint congestion control and media access control design for wireless ad hoc networks'']

Lijun Chen, Steven H. Low and John C. Doyle.

in Proceedings of IEEE Infocom, Miami, FL, Mar 2005 (193k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/20/Doyle-topology-PNAS-0508-2005.pdf ''Robust Yet Fragile Nature of the Internet'']

J. C. Doyle, D. Alderson, L. Li, S. H. Low, M. Roughan, S. Shalunov, R. Tanaka and W. Willinger

in Proceedings of the National Academy of Sciences,102(40): 14123–14475(635k), 4 Oct 2005.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/f/f6/Li-SFGraph-IM-0508-2005.pdf ''Towards a theory of scale-free graphs: definitions, properties, and implications'']

L. Li, D. Alderson, J. C. Doyle and W. Willinger

Internet Mathematics, 2005 (909k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/dd/Sigmetrics05.pdf ''Optimization model of internet protocols'']

Steven H. Low, John Doyle, Lun Li, Ao Tang and Jiantao Wang

in Proceedings of SIGMETRICS,pp277 - 277, Banff, Alberta, Canada, June 6-10, 2005.

[[Category:Papers]]

2000-2004

2007-08-18T02:08:50Z

Doyle2:

John Doyle's papers from 2000-2004.

==2004==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c3/Papachristodoulou-ccr04.pdf ''Methodological Frameworks for Largescale Network Analysis and Design'']

Antonis Papachristodoulou, Lun Li and John C. Doyle

Computer Communication Review, 34(3), Jul 2004 (566k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/1/1f/Diabetes2004.pdf ''Metabolic Syndrome and Robustness Tradeoffs''],

Kitano, H., Oda, K., Kimura, T., Matsuoka, Y., Csete, M., Doyle, J., Muramatsu, M..

Diabetes 53, S6-S15, 2004

[http://scitation.aip.org/dbt/dbt.jsp?KEY=IPSBDJ&Volume=1 '' Evolving a lingua franca and associated software infrastructure for computational systems biology: theSystemsBiologyMarkupLanguage(SBML) project''],

M. Hucka; A. Finney; B.J. Bornstein; S.M. Keating; B.E. Shapiro; J. Matthews; B.L. Kovitz; M.J. Schilstra; A. Funahashi; J.C. Doyle; and H. Kitano

IEE Systems Biology. 1:41-53, 2004

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/c/c0/CDC04_2-Papachristodoulou.pdf ''Analysis of non-linear differential equation model of TCP/AQM protocols using sums of squares.'']

A. Papachristodoulou, J. C. Doyle and Steven H. Low.

in Proceedings of IEEE Conference on Decision and Control (CDC), Paradise Island, Bahamas, Dec 2004 (140k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/01/Topology-sigcomm04.pdf ''A First-principles Approach to Understanding the Internet's Router-level Topology''][http://www.acm.org/sigs/sigcomm/sigcomm2004/papers.html#A_First_Principles Abstract]

Lun Li, David Alderson, W. Willinger and John C. Doyle

in Proceedings of ACM SIGCOMM, Portland, OR, Aug 2004 (1.5MB)

[http://www.ee2.caltech.edu/news.html Winner of Best Student paper award]

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/58/Informs-tc04-chap6.pdf ''The Role of Optimization in Understanding and Modeling Internet Topology''],

D. Alderson, W. Willinger, L. Li and J. C. Doyle,

In Proceedings of the 7th INFORMS Tele-communications Conference, Boca Raton, FL, Mar 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/0/02/Wsc04.pdf ''More 'Normal' Than Normal: Scaling Distributions and Complex Systems''],

W. Willinger, D. Alderson, J. C. Doyle and L. Li,

WSC (Winter Simulation Conference), Washington D. C., 2004.

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5b/Imc04.pdf ''A Pragmatic Approach to Dealing with High-variability in Network Measurements''],

W. Willinger, D. Alderson, and L. Li,

In Proceedings of Internet Measurement Conference (ACM SIGCOMM), Scicily, Italy, Oct 2004.

==2003==
===Journals===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/b/b6/TCPstability-CompNet2003.pdf ''Linear stability of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang and J. C. Doyle

Computer Networks Journal, 43(5):633-647, Dec 2003 (465k).

*''Computational complexity of μ calculation''
R.P. Braatz, P. M. Young, J. C. Doyle, M. Morari
Automatic Control, IEEE Transactions
39(5):1000-1002, May 1994.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/5/5c/Pfldnet03.pdf " ''FAST Kernel: Background Theory and Experimental Results'']

C. Jin, D. X. Wei, S. H. Low, G. Buhrmaster, J. Bunn, D. H. Choe, R. L. A. Cottrell, J. C. Doyle, H. Newman, F. Paganini, S. Ravot and S. Singh.

in Presented at International Workshop on Protocols for Fast Long-Distance Networks (PFLDnet), CERN, Geneva, Switzerland, 3-4 Feb 2003 (431k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/24/MD-Paganini03.pdf ''A Control Theoretical Look at Internet Congestion Control'']
F. Paganini, J. C. Doyle and S. H. Low.

in Multidisciplinary Research in Control: The Mohammed Dahleh Symposium 2002. Springer Lecture Notes in Control and Information Sciences, Vol. 289
L. Giarre' and B. Bamieh (eds.), Springer-Verlag, 2003 (283k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/d/db/Tcpip2003.pdf ''Can Shortest Path Routing and TCP Maximize Utility'']

J. Wang, L. Li, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (157k)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/3/3d/Fast-infocom03.pdf ''A new TCP/AQM for Stable Operation In Fast Networks'']

F. Paganini, Z. Wang, S. H. Low and J. C. Doyle.

in Proceedings of IEEE Infocom, San Francisco, CA, Apr 2003 (1.4MB)

===Book===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/a/ab/RobustInternetII-Doyle-2002.pdf '' Robustness and the Internet: Theoretical foundations'']

John C. Doyle, Jean Carlson, Steven H. Low, Fernando Paganini, Glenn Vinnicombe, Walter Willinger, Jason Hickey, Pablo Parrilo and Lieven Vandenberghe.

in ''Robust design: a repertoire from biology, ecology, and engineering.''
E. Jen (eds.), Oxford University Press, 2003

==2002==
===Journals===
[http://netlab.caltech.edu/publications/csm2001-2002.ps ''Internet Congestion Control'']

S. H. Low, F. Paganini and J. C. Doyle

IEEE Control Systems Magazine, 22(1):28-43, Feb 2002 (225k)

*''Reverse Engineering of Biological Complexity''

Marie E. Csete, John C. Doyle

Science 1 295(5560):1664 - 1669, March 2002

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12076125&dopt=Abstract ''Robustness as a measure of plausibility in models of biochemical networks (abstract)''],

Morohashi, M., Winn, A. E., Borisuk, M. T., Bolouri, H., Doyle, J.,
and Kitano, H.

J Theor Biol. 2002 May 7;216(1):19-30.

===Conferences===
[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/7/72/Fast-allerton02.pdf '' A new TCP/AQM for Stability and Performance in Fast Networks''],

Fernando Paganini, Zhikui Wang, Steven H. Low and John C. Doyle

in Proceedings of 39th Annual Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2002 (1.36M)

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/2/21/JWanginfocom02.pdf ''Dynamics of TCP/RED and a Scalable Control'']

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of IEEE Infocom, New York, NY, Jun 2002 (435k).

[http://www.cds.caltech.edu/%7Edoyle2/wiki/images/8/88/Acc02.pdf ''Extensions of Jump Markov System Estimation''],

K. Sun, L. Li, G. Panayotopoulos and A. Packard,

American Control Conference, 2002.

[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11928498&dopt=Abstract ''The ERATO Systems Biology Workbench: enabling interaction and exchange between software tools for computational biology'' (Abstract)]

Hucka, M., Finney, A., Sauro, H. M., Bolouri, H., Doyle, J., and Kitano,H.

in Proceedings of Pac Symp Biocomput. 450-61, 2002.

===?===
*[http://netlab.caltech.edu/publications/scalable2SLow2002.ps ''A New TCP Congestion Control with Empty Queues and Scalable Stability'']

F. Paganini, S. H. Low, Z. Wang, S. Athuraliya and J. C. Doyle.

2002

==2001==
===Journals===
===Conferences===

[http://netlab.caltech.edu/publications/cdc01.ps ''Scalable Laws for Stable Network Congestion Control'']

Fernando Paganini, J. C. Doyle and S. H. Low.

in Proceedings of IEEE CDC, Orlando, FL, Dec 2001 (475k).

*''Linear stability of TCP/RED and a Scalable Control'' (invited)

S. H. Low, F. Paganini, J. Wang, S. Adlakha and J. C. Doyle.

in Proceedings of Allerton Conference on Communication, Control, and Computing, Monticello, IL, Oct 2001.

==2000==
*''A receding horizon generalization of pointwise min-norm controllers.''

Primbs, J.A.; Nevistic, V.; Doyle, J.C.;

IEEE Transactions on Automatic Control 45(5):898 - 909, May 2000.
[[Category:Papers]]

1995-1999

2007-08-18T02:05:13Z

Doyle2:

John Doyle's older publications from 1995-1999.

==1999==
===Journal===
*''Two-degree-of-freedom controller design for an ill-conditioned distillation process using μ-synthesis.''

Lundstrom, P.; Skogestad, S.; Doyle, J.C.;

IEEE Transactions on Control Systems Technology 7(1):12 - 21 , Jan 1999.
==1998==

*''Robust control of ill-conditioned plants: high-purity distillation.''

Skogestad, S.; Morari, M.; Doyle, J.C.;

IEEE Transactions on Automatic Control 33(12):1092 - 1105; Dec 1998.

==1997==
===Journal===
*''A lower bound for the mixed μ problem''

Young, P.M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 42(1):123 - 128; Jan. 1997

*''Robustness analysis and synthesis for nonlinear uncertain systems.''

Wei-Min Lu; Doyle, J.C.;

IEEE Transactions on Automatic Control 42(12):1654 - 1662; Dec 1997.

===Book===
*''Essentials Of Robust Control.''

Kemin Zhou, John C. Doyle, September, 1997

by Prentice Hall. Copyright 1998, pp 411.

==1996==
===Journal===
*''Properties of the mixed μ problem and its bounds''

Young, P.M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 41(1):155-159 Jan. 1996

*''Stabilization of uncertain linear systems: an LFT approach.''

Lu, W.-M.; Zhou, K.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 41(1):50 - 65; Jan 1996.

===Books===
*''Robust and optimal control''

K Zhou, JC Doyle, K Glover - 1996 - Prentice-Hall, Inc. NJ, USA

Authors, Kemin Zhou, John C. Doyle, Keith Glover, Publisher, Prentice-Hall, Inc.

Collaborative Colleagues: John C. Doyle, Bruce A. Francis, Tryphon T. Georgiou, Keith Glover, Lun Li, Steven H. Low, Matthew Philip Newlin and Fernando Paganini.

===other===
*''Analysis and Synthesis Toolbox''

GJ Balas, JC Doyle, K Glover, A Packard, R Smith

? The MathWorks Inc, 1996 - mathworks.com

==1995==
*''&Hscr;∞ control of nonlinear systems: a convex characterization''

Wei-Min Lu; Doyle, J.C.;

IEEE Transactions on Automatic Control, 40(9):1668 - 1675, Sept 1995.

[[Category:Papers]]

1995-1999

2007-08-18T02:02:20Z

Doyle2: /* 1995 */

John Doyle's older publications from 1995-1999.

==1998==

*''Robust control of ill-conditioned plants: high-purity distillation.''

Skogestad, S.; Morari, M.; Doyle, J.C.;

IEEE Transactions on Automatic Control 33(12):1092 - 1105; Dec 1998.

==1997==
*''Essentials Of Robust Control.''
Kemin Zhou, John C. Doyle, September, 1997
by Prentice Hall. Copyright 1998, pp 411.

==1996==
===Journal===
*''Properties of the mixed μ problem and its bounds''

Young, P.M.; Doyle, J.C.;

IEEE Transactions on Automatic Control, 41(1):155-159 Jan. 1996
===Books===
*''Robust and optimal control''

K Zhou, JC Doyle, K Glover - 1996 - Prentice-Hall, Inc. NJ, USA

Authors, Kemin Zhou, John C. Doyle, Keith Glover, Publisher, Prentice-Hall, Inc.

Collaborative Colleagues: John C. Doyle, Bruce A. Francis, Tryphon T. Georgiou, Keith Glover, Lun Li, Steven H. Low, Matthew Philip Newlin and Fernando Paganini.

===other===
*''Analysis and Synthesis Toolbox''

GJ Balas, JC Doyle, K Glover, A Packard, R Smith

? The MathWorks Inc, 1996 - mathworks.com

==1995==
*''&Hscr;∞ control of nonlinear systems: a convex characterization''

Wei-Min Lu; Doyle, J.C.;

IEEE Transactions on Automatic Control, 40(9):1668 - 1675, Sept 1995.

*''Two-degree-of-freedom controller design for an ill-conditioned distillation process using μ-synthesis.''
Lundstrom, P.; Skogestad, S.; Doyle, J.C.;
IEEE Transactions on Control Systems Technology 7(1):12 - 21 , Jan 1999.

*''A lower bound for the mixed μ problem''

Young, P.M.; Doyle, J.C.;

Automatic Control, IEEE Transactions on 42(1):123 - 128; Jan. 1997

Robustness analysis and synthesis for nonlinear uncertain systems
Wei-Min Lu; Doyle, J.C.;
IEEE Transactions on Automatic Control 42(12):1654 - 1662; Dec 1997.

Stabilization of uncertain linear systems: an LFT approach
Lu, W.-M.; Zhou, K.; Doyle, J.C.;
IEEE Transactions on Automatic Control, 41(1):50 - 65; Jan 1996.

[[Category:Papers]]