Difference between revisions of "Dr. Carlos J. Camacho Laboratory"

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The research I have done in the laboratory has, so far, yielded a [[Curriculum_Vitae#Publications|paper published]]<ref name=Camacho2006>Carlos J. Camacho, Ma H, and '''P. Christoph Champ''' (2006). Scoring a diverse set of high-quality docked conformations: A metascore based on electrostatic and desolvation interactions. [http://www3.interscience.wiley.com/cgi-bin/abstract/112467717/ABSTRACT?CRETRY=1&SRETRY=0 ''Proteins, 63(4):868-77'']. [[http://www.hubmed.org/display.cgi?uids=16506242 HubMed]]</ref> and four Web Servers:
 
The research I have done in the laboratory has, so far, yielded a [[Curriculum_Vitae#Publications|paper published]]<ref name=Camacho2006>Carlos J. Camacho, Ma H, and '''P. Christoph Champ''' (2006). Scoring a diverse set of high-quality docked conformations: A metascore based on electrostatic and desolvation interactions. [http://www3.interscience.wiley.com/cgi-bin/abstract/112467717/ABSTRACT?CRETRY=1&SRETRY=0 ''Proteins, 63(4):868-77'']. [[http://www.hubmed.org/display.cgi?uids=16506242 HubMed]]</ref> and four Web Servers:
 
* '''[[FastContact|FastContact Server]]''': a free energy scoring tool for protein-protein complex structures.
 
* '''[[FastContact|FastContact Server]]''': a free energy scoring tool for protein-protein complex structures.
:: Programmer, Server architect, and administrator; July 2005–present.
+
:: Version 1.0: Programmer, Server architect, and administrator; July 2005–December 2006.
 +
:: Version 2.0: Programmer, Server architect, and administrator; January 2007-present.
 
* '''[[SmoothDock|SmoothDock Server]]''' (currently under development):
 
* '''[[SmoothDock|SmoothDock Server]]''' (currently under development):
 
:: Programmer, Server architect, and administrator; January 2005–present (note: This server uses code optimised and run in parallel on 256 processors).
 
:: Programmer, Server architect, and administrator; January 2005–present (note: This server uses code optimised and run in parallel on 256 processors).

Revision as of 09:39, 29 January 2007

The Dr. Carlos J. Camacho Laboratory is where I did scientific research from October 2004 - July 2005 and from March 2006 - September 2006 (in absentia).

Research topics

Results

The research I have done in the laboratory has, so far, yielded a paper published[1] and four Web Servers:

Version 1.0: Programmer, Server architect, and administrator; July 2005–December 2006.
Version 2.0: Programmer, Server architect, and administrator; January 2007-present.
Programmer, Server architect, and administrator; January 2005–present (note: This server uses code optimised and run in parallel on 256 processors).
Programmer, Server architect, and administrator; November 2004–present.
Server architect and administrator; September 2004–present.

CAPRI

I was a participant of "Round 6" (17-Jan-2005) and "Round 7" (29-May-2005) of CAPRI. Our group presented the "SmoothDock Server".

Benchmarks

see: Protein-Protein Docking Benchmark

References

  1. Carlos J. Camacho, Ma H, and P. Christoph Champ (2006). Scoring a diverse set of high-quality docked conformations: A metascore based on electrostatic and desolvation interactions. Proteins, 63(4):868-77. [HubMed]

Further reading

  • Katchalski-Katzir, E, Shariv I, Eisenstein M, Friesem AA, Aflalo C, Vakser IA. Molecular surface recognition: Determination of geometric fit between proteins and their ligands by correlation techniques. Proc Natnl Acad Sci USA, 89(6):2195-9.
  • Gray JJ, Moughon S, Wang C, Schueler-Furman O, Kuhlman B, Rohl CA, Baker D (2003). Protein-protein docking with simultaneous optimization of rigid-body displacement and side-chain conformations. J Mol Bio, 331(1):281-99.
  • Proteins: Structure, Function, and Genetics (special edition) Volume 52, Issue 1, 2003, all pages.

External links