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So far acowan has created 17 blog entries.

biomodel-116929971

August 30th, 2017|Uncategorized|

Name: “Dreyer_2017_AIMS Biophysics”
Saved: Tue, 31 May 2016  13:42:11 GMT
vcell identifier: biomodel-116929912
Owned by: “idreyer”

download model (.vcml)

biomodel-116929912

August 30th, 2017|Uncategorized|

Name: “Dreyer_2017_AIMS Biophysics”
Saved: Tue, 31 May 2016  13:42:11 GMT
vcell identifier: biomodel-116929912
Owned by: “idreyer”

download model (.vcml)

biomodel-116930032

August 30th, 2017|Uncategorized|

Name: “Wittek_et_al_JIntegrPlantBiol_2017_Phloem Fungus”
Saved: Tue, 31 May 2016  13:42:11 GMT
vcell identifier: biomodel-116930032
Owned by: “idreyer”

download model (.vcml)

Acevedo et. al 2017

August 24th, 2017|publication, publication-2017|

A Noncanonical Binding Site in the EVH1 Domain of VASP Regulates Its Interactions with the Proline Rich Region of Zyxin
Acevedo, LA, Greenwood, AI, Nicholson, LK
Biochemistry. Aug 23.
PMID: 28783324    doi:10.1021/acs.biochem.7b00618

New published model of the PLC/PKC pathway

July 10th, 2017|News, NRCAM publication, Uncategorized, VCell Posts|

2017-07-10. A new publication in Biophysical Journal by Song et al. uses a VCell model to define mechanisms for signal amplification in the PLC/PKC pathway during chemotaxis.  Link to the publication and view model details from our Published Models listing.

Summer Research Projects

July 1st, 2017|CCAM Events, News, Uncategorized, VCell Posts|

7-1-2017.  CCAM welcomes several undergraduates and a graduate rotation student who are working on projects related to VCell this summer . Undergraduate students include Keeyan Ghoreshi, Anvin Thomas, Natalie de la Garrique and Shahan Kamal from UConn Storrs and Kevin Gaffney from the University of Oklahoma. Joe Masison is a new MD/PhD student from University of Maryland. Keeyan is working on the infrastructure for Sloppy Modeling projects, Shahan is modeling pathways using high-throuput data, Natalie […]

VCell model of Plant and fungal transporters

May 10th, 2017|News, NRCAM publication|

2017-05-10. A VCell model has recently been published by Wittek et al. that describes the battle between fungal and plant  sugar transporters. View model details from our Published Models listing.

New VCell model of kidney podocyte cytoskeleton

March 10th, 2017|News, NRCAM publication|

2017-03-10. A new model from the Iyengar and Loew laboratories examines how cytoskeletal dynamics effect local changes in the complex morphology of kidney podocytes. Link to the publication and view model details from our Published Models listing.

New publication describes hybrid deterministic – stochastic spatial solver

December 28th, 2016|News, NRCAM publication|

A new publication in PLoS Computational Biology from Boris Slepchenko and coworkers describes the new hybrid deterministic stochastic spatial solver used in VCell.  Schaff, J.C., F. Gao, Y. Li, I.L. Novak, and B.M. Slepchenko. 2016. Numerical Approach to Spatial Deterministic-Stochastic Models Arising in Cell Biology. PLoS Comput Biol. 12:e1005236. PMID 27959915

 

VCell 6.1 released to beta site

October 25th, 2016|News, VCell Posts|

2016-10-14.  A new version of VCell (6.1) was released to beta site. The new version replaces VCell 6.0 in beta, and enhances the new Rule-Based Modeling capabilities available in VCell. Advantages of Rule-Based Modeling in VCell are

  • Specify rule-based models in a GUI, no scripting language required
  • Rule-based models can span multiple compartments
  • Reactions and rules can be mixed in one model
  • Full support for rules in all VCell Application types (spatial, nonspatial, deterministic, stochastic).
  • A set of rules can […]