Difference between revisions of "Types of morphogens and factors"

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| width="200"| strainret_p,strainret_a,strainret_l || a number between 0 (no strain retention, default) and 1 (full strain retention).  
 
| width="200"| strainret_p,strainret_a,strainret_l || a number between 0 (no strain retention, default) and 1 (full strain retention).  
 
|- valign="top"  
 
|- valign="top"  
| width="200"| kbpar_p,kbpar_a,kbpar_l || a number between 0 (no overall inhibition of growth, default) and 1 (fully inhibited)
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| width="200"| arrest_p,arrest_a,arrest_l || a number between 0 (no overall inhibition of growth, default) and 1 (fully inhibited)
 
|}
 
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Revision as of 15:45, 28 May 2011

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GFtbox Growth factor naming conventions

Prefix

id_ identity factors (non-diffusible). Identity factors can be labelled as on the A or B side (ida_, idb_)
s_ signalling factors (diffuse not including polariser)
v_ visualising labels (e.g. theta, bend, kpar, other labels)
f_ finite element manipulation (e.g. seams, making holes)

Suffix

_p promotor: how much the expression of the factor is being promoted in the model
_l level of morphogen, i.e. *_p times *_a. This gets updated at the end of the interaction function and might change according to growth or mutation, see *_a.
_i index into the main data structure morphogen field, m.morphogen.
_a activity: by default it is 1 and if the factor is mutated or silenced then it is 0. However, it can be in the range [0,...,1].

Standard morphogens

Specifying growth

kapar_p,kapar_a,kapar_l specify growth on the 'A' side parallel to the polariser and in the plane of the tissue
kbpar_p,kbpar_a,kbpar_l specify growth on the 'B' side parallel to the polariser and in the plane of the tissue
kaper_p,kaper_a,kaper_l specify growth on the 'A' side perpendicular to the polariser and in the plane of the tissue
kbper_p,kbper_a,kbper_l specify growth on the 'B' side perpendicular to the polariser and in the plane of the tissue
knor_p,knor_a,knor_l] specify growth normal to the plane of the tissue (i.e. thickness)

Controlling growth

P Polariser level.
strainret_p,strainret_a,strainret_l a number between 0 (no strain retention, default) and 1 (full strain retention).
arrest_p,arrest_a,arrest_l a number between 0 (no overall inhibition of growth, default) and 1 (fully inhibited)