XPP-Aut statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

XPP-Aut specifications

Information


Unique identifier OMICS_20205
Name XPP-Aut
Alternative names X-windows PhasePlane plus Auto, XPP
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB, Python
Computer skills Advanced
Version 8.0
Stability Stable
Maintained Yes

Download


download.png
download.png
download.png
download.png

Versioning


No version available

Maintainers


  • person_outline XPP-Aut Team
  • person_outline Ashutosh Mohan

Additional information


http://www.math.pitt.edu/~bard/xpp/whatis.html http://www.math.pitt.edu/~bard/xpp/help/xpphelp.html Tuto: http://www.math.pitt.edu/~bard/bardware/tut/start.html

Information


Unique identifier OMICS_20205
Name XPP-Aut
Alternative names X-windows PhasePlane plus Auto, XPP
Interface Graphical user interface
Restrictions to use None
Computer skills Medium
Version 2.5.1
Stability Stable
Mobile operating system iOS, Android
Maintained Yes

Download


download.png

Versioning


No version available

Maintainers


  • person_outline XPP-Aut Team
  • person_outline Ashutosh Mohan

Additional information


http://www.math.pitt.edu/~bard/xpp/whatis.html http://www.math.pitt.edu/~bard/xpp/help/xpphelp.html Tuto: http://www.math.pitt.edu/~bard/bardware/tut/start.html

XPP-Aut citations

 (66)
library_books

Parallel arrangements of positive feedback loops limit cell to cell variability in differentiation

2017
PLoS One
PMCID: 5706692
PMID: 29186174
DOI: 10.1371/journal.pone.0188623

[…] e report the results from the models with AND configurations.First we investigated the steady state responses of these networks in absence of any intrinsic or extrinsic sources of variabilities using XPP-AUT software tool[] (http://www.math.pitt.edu/~bard/xpp/xpp.html) to generate one-parameter bifurcation diagrams of the models. These models generate reversible bistable switches while we varied t […]

call_split

Multiscale positive feedbacks contribute to unidirectional gastric disease progression induced by helicobacter pylori infection

2017
BMC Syst Biol
PMCID: 5700561
PMID: 29166909
DOI: 10.1186/s12918-017-0497-y
call_split See protocol

[…] Time series simulations and phase plane analyses were performed using XppAut ((http://www.math.pitt.edu/~bard/xpp/xpp.html). Bifurcation analysis was done using Oscill8 (http://oscill8.sourceforge.net/). All figures were plotted in MATLAB (https://mathworks.com/). […]

library_books

Cell cycle transitions: a common role for stoichiometric inhibitors

2017
Mol Biol Cell
PMCID: 5687042
PMID: 28931595
DOI: 10.1091/mbc.E17-06-0349

[…] Supplemental Text. We also provide the code for each model in the form of “.ode” files (see the Supplemental ODE Files) that allow the users to reproduce our figures with the free available software XPP/AUTO (www.math.pitt.edu/∼bard/xpp/xpp.html). […]

library_books

Neuronal Intrinsic Physiology Changes During Development of a Learned Behavior

2017
eNeuro
PMCID: 5649544
PMID: 29062887
DOI: 10.1523/ENEURO.0297-17.2017

[…] ABA=180nS,and Vsyn=-90mV. Excitatory currents have values of αAMPA=1100M-1ms-1, βAMPA=0.19ms-1,gAMPA=20nS,and Vsyn=0mV. Circuit simulations were performed using XPPAUT (http://www.math.pitt.edu/∼bard/xpp/xpp.html). […]

call_split

A dynamical framework for complex fractional killing

2017
Sci Rep
PMCID: 5556027
PMID: 28808338
DOI: 10.1038/s41598-017-07422-2
call_split See protocol

[…] uously altered, and the positions of the apoptosis initiation threshold (as well as the BAXm inactivation threshold) were computed. Computations were done using XPPAUT (http://www.math.pitt.edu/~bard/xpp/xpp.html), or Oscill8 (http://oscill8.sourceforge.net/). All data was then plotted using MATLAB (https://mathworks.com/). […]

library_books

DNA damage during S phase mediates the proliferation quiescence decision in the subsequent G1 via p21 expression

2017
Nat Commun
PMCID: 5364389
PMID: 28317845
DOI: 10.1038/ncomms14728

[…] ng the Systems Biology Toolbox 2 (ref. ) for MatLab (version 8.6.0 R2015b) and simulated with the CVODE routine from SUNDIALS. Bifurcation diagrams were calculated using the freely available software XPP-Aut. Different versions of the model are available at http://cellcycle.org.uk/publication. The model was also deposited in the BioModels database and assigned the identifier MODEL1607210001. Kinet […]

Citations

Looking to check out a full list of citations?

XPP-Aut reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review XPP-Aut