User:Yiannis Kaznessis

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
(Contact Info)
Current revision (11:49, 18 December 2009) (view source)
 
Line 1: Line 1:
-
<!-- Delete this entire line as part of your first edit of your user page --> {{New user}}
 
-
 
----
----
Line 13: Line 11:
*[[Special:Emailuser/Yiannis Kaznessis|Email me through OpenWetWare]]
*[[Special:Emailuser/Yiannis Kaznessis|Email me through OpenWetWare]]
-
In my group we are interested in computational synthetic biology. We are developing the Synthetic Biology Software Suite, a publicly available software suite that assists in rationally designing synthetic gene regulatory networks.  We combine components from BioBricks to generate networks of biomolecular reactions. We combine stochastic-discrete, stochastic-continuous and continuous-deterministic models to simulate these reaction networks. Version 1.0.1 is available on Sourceforge.net [http://synbioss.sourceforge.net/]. We are now incorporating the connection with BioBricks.
+
In my group we are interested in computational synthetic biology. We are developing the Synthetic Biology Software Suite, a publicly available software suite that assists in rationally designing synthetic gene regulatory networks.  We combine components from BioBricks to generate networks of biomolecular reactions. We combine stochastic-discrete, stochastic-continuous and continuous-deterministic models to simulate these reaction networks. Version 1.0.2 is available on Sourceforge.net [http://synbioss.sourceforge.net/]. We are now incorporating the connection with BioBricks.
-
In recent work, we developed multiscale models of gene regulatory networks with synthetic biology applications.Simulations have been used that model all biomolecular interactions in transcription, translation, regulation, and induction of gene regulatory networks, guiding the design of synthetic systems.
+
In recent work (Ramalingam, KI, Tomshine, JR, Maynard, JA, Kaznessis YN. " Forward engineering of synthetic bio-logical AND gates" Biochemical Engineering Journal, 2009, 47(1-3):38-47), we  used multiscale models of gene regulatory networks to design, build and test bio-logical AND gates.  
-
 
+
We are also participating in the iGEM competition. We were awarded a Gold Medal in 2009 for SynBioSS work.  
-
We are also participating in the iGEM competition. We are developing computer-aided designs of a comparator, an important component of control systems and implementing them in the lab[http://2008.igem.org/Team:Minnesota].
+
==Education==
==Education==
Line 34: Line 31:
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
<biblio>
<biblio>
 +
#Paper10 pmid=19830714
 +
#Paper11 pmid=19644174
 +
#Paper12 pmid=18757873
#Paper1 pmid=17986347
#Paper1 pmid=17986347
#Paper2 pmid=18190181  
#Paper2 pmid=18190181  
Line 43: Line 43:
#Paper8 pmid=15740306  
#Paper8 pmid=15740306  
#Paper9 pmid=16183880
#Paper9 pmid=16183880
 +

Current revision


Contents

Contact Info

  • Yiannis Kaznessis
  • Department of Chemical Engineering and Materials Science
  • University of Minnesota
  • 421 Washington Ave SE
  • Minneapolis, MN 55455, USA
  • Email me through OpenWetWare

In my group we are interested in computational synthetic biology. We are developing the Synthetic Biology Software Suite, a publicly available software suite that assists in rationally designing synthetic gene regulatory networks. We combine components from BioBricks to generate networks of biomolecular reactions. We combine stochastic-discrete, stochastic-continuous and continuous-deterministic models to simulate these reaction networks. Version 1.0.2 is available on Sourceforge.net [1]. We are now incorporating the connection with BioBricks.

In recent work (Ramalingam, KI, Tomshine, JR, Maynard, JA, Kaznessis YN. " Forward engineering of synthetic bio-logical AND gates" Biochemical Engineering Journal, 2009, 47(1-3):38-47), we used multiscale models of gene regulatory networks to design, build and test bio-logical AND gates.

We are also participating in the iGEM competition. We were awarded a Gold Medal in 2009 for SynBioSS work.

Education

  • 1999, PhD, University of Notre Dame
  • 1994, BS, Aristotle University in Thessaloniki

Research interests

  1. Statistical mechanics (yes, it can be fun!)
  2. Synthetic biology
  3. Computer simulations

Computational Synthetic Biology Publications

  1. Kaznessis YN. . pmid:19830714. PubMed HubMed [Paper10]
  2. Sotiropoulos V, Contou-Carrere MN, Daoutidis P, and Kaznessis YN. . pmid:19644174. PubMed HubMed [Paper11]
  3. Hill AD, Tomshine JR, Weeding EM, Sotiropoulos V, and Kaznessis YN. . pmid:18757873. PubMed HubMed [Paper12]
  4. Kaznessis YN. . pmid:17986347. PubMed HubMed [Paper1]
  5. Sotiropoulos V and Kaznessis YN. . pmid:18190181. PubMed HubMed [Paper2]
  6. Sotiropoulos V and Kaznessis YN. . pmid:17408514. PubMed HubMed [Paper3]
  7. Salis H and Kaznessis YN. . pmid:17200605. PubMed HubMed [Paper4]
  8. Tomshine J and Kaznessis YN. . pmid:16920827. PubMed HubMed [Paper5]
  9. Salis H, Sotiropoulos V, and Kaznessis YN. . pmid:16504125. PubMed HubMed [Paper6]
  10. Salis H and Kaznessis YN. . pmid:16356038. PubMed HubMed [Paper7]
  11. Salis H and Kaznessis Y. . pmid:15740306. PubMed HubMed [Paper8]
  12. Tuttle LM, Salis H, Tomshine J, and Kaznessis YN. . pmid:16183880. PubMed HubMed [Paper9]
All Medline abstracts: PubMed HubMed

Useful links

Personal tools