ocrampal/organism
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

varie

Browse Source
This commit is contained in:
ocrampal
2026-05-27 14:08:01 +02:00
parent ce5a4d8f63
commit b70e1c0fa0
1 changed files with 42 additions and 38 deletions
Download Patch File Download Diff File Expand all files Collapse all files
elements/neuron/presynapse.md
+42 -38
View File
@@ -17,7 +17,25 @@ PRESYNAPSE
type: comprehension
expand_comprehension:
_Vgcc_pre: VGCC-PRE [ full: 10x, active: 5x, empty: 2x ]
@VGCC-PRE: VGCC_PRE [ full: 10x, active: 5x, empty: 2x ]
tub_local:
_Vgcc_pre: TUB [ comp: @VGCC_PRE ]
_Ca2+: TUB [ full: 60x, active: 30x, empty: 0x ]
_Ca2+DevFull: TUB [ full: 100x, active: _Ca2+.full, empty: 40x ]
_Rrp: TUB [ full: 30x, active: 15x, empty: 0x ]
_Rp: TUB [ full: 30x, active: 15x, empty: 0x ]
_CaTraces: TUB [ full: 50x, active: 0x, empty: 0x ]
tub_intricated:
_NT: TUB [&ASTROSYNAPSE._NT]
_ATP: TUB [&ASTROCYTE?._ATP]
_eCB: TUB [&POSTSYNAPSE._eCB]
context_intricated:
*AP: CONTEXT [SOMA] ???
instantiate_container:
@: BEHAVIOR_PRE []
@@ -32,23 +50,9 @@ BEHAVIOR_PRE
type: container
activity_scope: !DAY
tub_local:
_Ca2+: TUB [ full: 60x, active: 30x, empty: 0x ]
_Rrp: TUB [ full: 30x, active: 15x, empty: 0x ]
_Rp: TUB [ full: 30x, active: 15x, empty: 0x ]
_CaTraces: TUB [ full: 50x, active: 0x, empty: 0x ]
tub_intricated:
_NT: TUB [ASTROSYNAPSE._NT]
_ATP: TUB [ASTROCYTE?._ATP]
_eCB: TUB [POSTSYNAPSE._eCB]
context_intricated:
&AP: CONTEXT [SOMA] ???
snippets:
# &AP
# *AP
@: ACCUMULATOR [snip: NTreleaseLow, RF: active 12x]
@: ACCUMULATOR [snip: NTreleaseMedium, RF: active 9x]
@: ACCUMULATOR [snip: NTreleaseHigh, RF: active 6x]
@@ -57,7 +61,7 @@ BEHAVIOR_PRE
@: ACCUMULATOR [snip: TracesAccMedium, RF: active 6x]
@: ACCUMULATOR [snip: TracesAccHigh, RF: active 10x]
# NOT &AP
# NOT *AP
@: ACCUMULATOR [snip: eCBClearenceMedium, RF: active 24x]
@: ACCUMULATOR [snip: eCBClearenceLow, RF: active 48x]
@@ -78,7 +82,7 @@ BEHAVIOR_PRE
- **_CaTraces**: sono le tracce di permanenza della concentrazione di Ca2+. Servono alla modulazione (TUN)
- **_eCB**: retrograde signal updates from postsynapsis (postsynaptic input)
#### &AP
#### *AP
Il rilascio di NT lo facciamo nel contesto di AP. Biologicamente dovrebbe avvenire solo in base alle concentrazioni, quindi anche al difuori degli AP.
@@ -101,7 +105,7 @@ In tutti i casi di NT
```Gen
NTreleaseLow
in_context: &AP
in_context: *AP
hypothesis: ( _Ca2+ mediumness ) AND ( _Rrp mediumness ) AND NOT( _ATP empty )
action: [_Rrp decrease, _Nt increase, _ATP decrease]
@@ -113,7 +117,7 @@ NTreleaseLow
```Gen
NTreleaseMedium
in_context: &AP
in_context: *AP
hypothesis: (( _Ca2+ fullness ) AND ( _Rrp mediumness ) OR
( _Ca2+ mediumness ) AND ( _Rrp fullness )) AND
@@ -127,7 +131,7 @@ NTreleaseMedium
```Gen
NTreleaseHigh
in_context: &AP
in_context: *AP
hypothesis: ( _Ca2+ fullness ) AND ( _Rrp fullness ) AND
NOT( _ATP empty )
@@ -143,14 +147,14 @@ Serve a:
- dare la velocita' al trasporto di vesicles da RP a RRP, anche se non avendo ancora compreso _ATP, la velocita' non cambia molto la sostanza.
- le tracce vengono eliminate quando il neurone e' in pausa, lontano da uno spike train, &TunePossible
- Abbiamo 3 tracce, high, medium and low. Andiamo a verificare una combinazione di queste per fare la modulazione
- RF e' a 10, questo dovrebbe essere un RF di campionamento durante &AP context che dovremmo assicurarci sia tipo 100. Il che implicherebbe 10 campionamenti.
- RF e' a 10, questo dovrebbe essere un RF di campionamento durante *AP context che dovremmo assicurarci sia tipo 100. Il che implicherebbe 10 campionamenti.
- The biological meaning is that a synapse that has just been through a burst is primed for fast recovery — the molecular machinery for vesicle docking is already engaged, calcium-dependent priming factors are still elevated, and the system is in a ready state. A synapse that has been silent for several seconds has cooled down and replenishes slowly.
- So after one second of silence CaTrace has fallen to ~37% of its peak value, after two seconds to ~14%, after three seconds to ~5%. It asymptotes toward zero but never exactly reaches it. Between spikes, Ca2+ falls toward zero as the pumps clear it. The result is that CaTrace encodes not the instantaneous calcium level but the recent history of calcium activity — a smoothed, time-averaged measure of how active the synapse has been over the past one to two seconds.
```Gen
Ca2+TracesAccuLow
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ emptiness)
action: [CaTraceLow increase]
@@ -162,7 +166,7 @@ Ca2+TracesAccuLow
```Gen
Ca2+TracesAccMedium
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ mediumness)
action: [CaTraceMed increase]
@@ -174,14 +178,14 @@ Ca2+TracesAccMedium
```Gen
Ca2+TracesAccumulationHigh
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ fullness)
action: [CaTraceHigh increase]
trace: None
```
#### NOT &AP
#### NOT *AP
##### eCBClearance
@@ -192,7 +196,7 @@ Qui non facciamo un flush di eCB, riduciamo ogni mezzo secondo (context) di un R
```Gen
eCBClearance: ( active: 24x ) # Slow
in_context: NOT &AP
in_context: NOT *AP
hypothesis: NOT (eCB empty)
action: [eCB decrease]
@@ -210,7 +214,7 @@ Rate: 0.00 – 0.25
```Gen
RPShuttleLow
in_context: NOT &AP
in_context: NOT *AP
hypothesis: (CaTraceLow fullness) OR
(RP emptiness) OR
@@ -228,7 +232,7 @@ Rate: 0.50 – 0.97
```Gen
RPShuttleMedium
in_context: &AP
in_context: *AP
hypothesis: (CaTraceMedium fullness) AND (RP mediumness) AND (_Rrp mediumness) OR
(CaTraceHigh fullness) AND (RP mediumness) AND (_Rrp mediumness) OR # signal boost
@@ -247,7 +251,7 @@ Rate: 1.25 – 1.94
```Gen
RPShuttleHigh
in_context: &AP
in_context: *AP
hypothesis: (CaTraceHigh fullness) AND (RP fullness) AND (_Rrp mediumness) OR # signal + supply
(CaTraceHigh fullness) AND (RP mediumness) AND (_Rrp emptiness) OR # signal + vacancy
@@ -418,7 +422,7 @@ BEHAVIOR_VGCC_PRE
```
#### &AP
#### *AP
Da rivedere le condizioni per aggiungere mGluR che ha come proxy NT concentration!!!!!
@@ -445,7 +449,7 @@ Devo controllare che le condizioni sotto siano esaustive. Qui ho confuso high co
```Gen
Ca2+enterLow
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ empty) AND (eCB empty)
action: [_Ca2+ increase, _ATP decrease]
@@ -457,7 +461,7 @@ Ca2+enterLow
```Gen
Ca2+enterMedium
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ mediumness) OR
((eCB mediumness) AND (_Ca2+ empty)) OR
@@ -471,7 +475,7 @@ Ca2+enterMedium
```Gen
Ca2+enterHigh
in_context: &AP
in_context: *AP
hypothesis: (_Ca2+ mediumness) AND (eCB full) OR
(eCB mediumness)
@@ -479,9 +483,9 @@ Ca2+enterHigh
trace: None
```
#### NOT &AP
#### NOT *AP
Qui eliminiamo Ca2+. Il tempo che ci mette ad eliminare il Ca2+ dovrebbe essere minoe dell'inervallo fra un &AP e un'altra. Siccome non comprendiamo per ora _ATP, non c'e' accumulo di Ca2+ per mancanza di _ATP (stanchezza).
Qui eliminiamo Ca2+. Il tempo che ci mette ad eliminare il Ca2+ dovrebbe essere minoe dell'inervallo fra un *AP e un'altra. Siccome non comprendiamo per ora _ATP, non c'e' accumulo di Ca2+ per mancanza di _ATP (stanchezza).
Non non comprendiamo anche il ristabilimento del Voltage, con altri Ioni entranti e uscenti, per ora tutto dipende da AP del SOMA. Non comprendiamo per ora:
@@ -500,7 +504,7 @@ Qui disinguiamo:
```Gen
Ca2+ClearanceLow
in_context: NOT &AP
in_context: NOT *AP
hypothesis: (NOT _Ca2+ fullness) AND (NOT _Ca2+ empty)
action: [_Ca2+ decrease]
@@ -512,7 +516,7 @@ Ca2+ClearanceLow
```Gen
Ca2+ClearanceHigh
in_context: NOT &AP
in_context: NOT *AP
hypothesis: NOT (Ca2+ empty)
action: [Ca2+ decrease]