VCell Posts – VCell- Modeling & Analysis Software

2021 Computational Cell Biology Workshop held June 21-23.

acowan 2022-05-18T15:17:00+00:00 June 24th, 2021|News, VCell Posts|

2021-6-24 CCAM’s annual Computational Cell Biology Workshop was again held online June 21-23, 2021. The workshop provided instruction to over 50 individuals from around the world on mathematical modeling techniques using VCell, COPASI and SpringSaLaD software. Fifteen of the participants worked closely with CCAM researchers to develop their own models related to their research projects. Another successful year for the modeling workshop! a combined workshop for VCell, COPASI, and SpringSaLaD modeling software. Thanks to all […]

Nicholson et al., 2020

acowan 2020-12-07T16:05:37+00:00 July 10th, 2020|publication, publication-2020, VCell Modeling Papers, VCell Posts|

Whole-Cell Photobleaching Reveals Time-Dependent Compartmentalization of Soluble Proteins by the Axon Initial Segment.
Nicholson, L., N. Gervasi, T. Falières, A. Leroy, D. Miremont, D. Zala, and C. Hanus.
Front Cell Neurosci. 2020 14:180.
PUBMED:32754013
doi:10.3389/fncel.2020.00180

Stone et al., 2019

acowan 2020-12-07T15:50:17+00:00 December 7th, 2019|publication, publication-2019, VCell Modeling Papers, VCell Posts|

Notch Pathway: A two-dimensional finite element model of cyclic adenosine monophosphate (cAMP) intracellular signaling
Stone, N., S. Shettlesworth, T.C. Rich, S.J. Leavesley, and A.-V. Phan
SN Appl. Sci. 2019 1:1713
DOI:10.1007/s42452-019-1757-9

20th Annual VCell Short Course

acowan 2020-03-11T15:49:18+00:00 June 30th, 2019|News, VCell Posts|

2019-6-18 CCAM hosted a Computational Cell Biology Workshop on June 24-26, 2019, a combined workshop for both VCell and COPASI modeling software. Ten scientists from the US, Netherlands and Germany traveled to work with the VCell and COPASI teams to construct models based on their own research interests. It was exciting to see VCell and COPASI models applied to such interesting cell biology projects. Thanks to all for a very successful course!

19th Annual VCell Short Course

acowan 2018-09-18T20:14:42+00:00 June 18th, 2018|News, VCell Posts|

2018-6-18 VCell hosted its 19th annual VCell Short Course on June 12-14, 2018. Ten scientists traveled to work with the VCell team to construct Virtual Cell models based on their own research interests. It was exciting to see the breadth of cell biological problems to which VCell models were applied. Thanks to all for a successful time!

VCell 7.0 with kinematics released

acowan 2018-06-18T15:04:12+00:00 March 15th, 2018|News, VCell Posts|

2018-3-15 Announcing the release of VCell 7.0. VCell 7 includes new 2D kinematics functionality for solving reaction diffusion equations within moving boundaries. To support models of cell motility and morphogenesis, this allows users to specify velocities of points, surfaces and volumes within the geometry. Other features in VCell 7.0 are methods for creating simulated fluorescence for direct comparison to microscopy data, the ability to use COMSOL Multiphysics solver (requires a local COMSOL license) and adaptive meshes for simulating […]

New published model of the PLC/PKC pathway

acowan 2018-02-26T20:28:51+00:00 July 10th, 2017|News, NRCAM publication, VCell Posts|

2017-07-10. A new publication in Biophysical Journal by Mohan 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

acowan 2018-02-26T20:29:05+00:00 July 1st, 2017|CCAM Events, News, 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 6.1 released to beta site

acowan 2016-11-07T19:15:17+00:00 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 […]

New VCell models of chemotactic networks

acowan 2016-11-07T20:00:07+00:00 July 27th, 2016|News, VCell Posts|

2016-07-27 A new publication from Sayak Bhattacharya and Pablo Iglesias at Johns Hopkins University describes the step-by-step construction of dynamical models of chemotactic networks using VCell (Bhattacharya and Iglesias 2016. Methods Mol. Biol. 1407:397, PMID 27271916). Publically available VCell models associated with the paper can be found on our list of published models here.