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 type: comprehension
expand_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: instantiate_container:
@: BEHAVIOR_PRE [] @: BEHAVIOR_PRE []
@@ -32,23 +50,9 @@ BEHAVIOR_PRE
type: container type: container
activity_scope: !DAY 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: snippets:
# &AP # *AP
@: ACCUMULATOR [snip: NTreleaseLow, RF: active 12x] @: ACCUMULATOR [snip: NTreleaseLow, RF: active 12x]
@: ACCUMULATOR [snip: NTreleaseMedium, RF: active 9x] @: ACCUMULATOR [snip: NTreleaseMedium, RF: active 9x]
@: ACCUMULATOR [snip: NTreleaseHigh, RF: active 6x] @: ACCUMULATOR [snip: NTreleaseHigh, RF: active 6x]
@@ -57,7 +61,7 @@ BEHAVIOR_PRE
@: ACCUMULATOR [snip: TracesAccMedium, RF: active 6x] @: ACCUMULATOR [snip: TracesAccMedium, RF: active 6x]
@: ACCUMULATOR [snip: TracesAccHigh, RF: active 10x] @: ACCUMULATOR [snip: TracesAccHigh, RF: active 10x]
# NOT &AP # NOT *AP
@: ACCUMULATOR [snip: eCBClearenceMedium, RF: active 24x] @: ACCUMULATOR [snip: eCBClearenceMedium, RF: active 24x]
@: ACCUMULATOR [snip: eCBClearenceLow, RF: active 48x] @: 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) - **_CaTraces**: sono le tracce di permanenza della concentrazione di Ca2+. Servono alla modulazione (TUN)
- **_eCB**: retrograde signal updates from postsynapsis (postsynaptic input) - **_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. 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 ```Gen
NTreleaseLow NTreleaseLow
in_context: &AP in_context: *AP
hypothesis: ( _Ca2+ mediumness ) AND ( _Rrp mediumness ) AND NOT( _ATP empty ) hypothesis: ( _Ca2+ mediumness ) AND ( _Rrp mediumness ) AND NOT( _ATP empty )
action: [_Rrp decrease, _Nt increase, _ATP decrease] action: [_Rrp decrease, _Nt increase, _ATP decrease]
@@ -113,7 +117,7 @@ NTreleaseLow
```Gen ```Gen
NTreleaseMedium NTreleaseMedium
in_context: &AP in_context: *AP
hypothesis: (( _Ca2+ fullness ) AND ( _Rrp mediumness ) OR hypothesis: (( _Ca2+ fullness ) AND ( _Rrp mediumness ) OR
( _Ca2+ mediumness ) AND ( _Rrp fullness )) AND ( _Ca2+ mediumness ) AND ( _Rrp fullness )) AND
@@ -127,7 +131,7 @@ NTreleaseMedium
```Gen ```Gen
NTreleaseHigh NTreleaseHigh
in_context: &AP in_context: *AP
hypothesis: ( _Ca2+ fullness ) AND ( _Rrp fullness ) AND hypothesis: ( _Ca2+ fullness ) AND ( _Rrp fullness ) AND
NOT( _ATP empty ) 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. - 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 - 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 - 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. - 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. - 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 ```Gen
Ca2+TracesAccuLow Ca2+TracesAccuLow
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ emptiness) hypothesis: (_Ca2+ emptiness)
action: [CaTraceLow increase] action: [CaTraceLow increase]
@@ -162,7 +166,7 @@ Ca2+TracesAccuLow
```Gen ```Gen
Ca2+TracesAccMedium Ca2+TracesAccMedium
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ mediumness) hypothesis: (_Ca2+ mediumness)
action: [CaTraceMed increase] action: [CaTraceMed increase]
@@ -174,14 +178,14 @@ Ca2+TracesAccMedium
```Gen ```Gen
Ca2+TracesAccumulationHigh Ca2+TracesAccumulationHigh
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ fullness) hypothesis: (_Ca2+ fullness)
action: [CaTraceHigh increase] action: [CaTraceHigh increase]
trace: None trace: None
``` ```
#### NOT &AP #### NOT *AP
##### eCBClearance ##### eCBClearance
@@ -192,7 +196,7 @@ Qui non facciamo un flush di eCB, riduciamo ogni mezzo secondo (context) di un R
```Gen ```Gen
eCBClearance: ( active: 24x ) # Slow eCBClearance: ( active: 24x ) # Slow
in_context: NOT &AP in_context: NOT *AP
hypothesis: NOT (eCB empty) hypothesis: NOT (eCB empty)
action: [eCB decrease] action: [eCB decrease]
@@ -210,7 +214,7 @@ Rate: 0.00 – 0.25
```Gen ```Gen
RPShuttleLow RPShuttleLow
in_context: NOT &AP in_context: NOT *AP
hypothesis: (CaTraceLow fullness) OR hypothesis: (CaTraceLow fullness) OR
(RP emptiness) OR (RP emptiness) OR
@@ -228,7 +232,7 @@ Rate: 0.50 – 0.97
```Gen ```Gen
RPShuttleMedium RPShuttleMedium
in_context: &AP in_context: *AP
hypothesis: (CaTraceMedium fullness) AND (RP mediumness) AND (_Rrp mediumness) OR hypothesis: (CaTraceMedium fullness) AND (RP mediumness) AND (_Rrp mediumness) OR
(CaTraceHigh fullness) AND (RP mediumness) AND (_Rrp mediumness) OR # signal boost (CaTraceHigh fullness) AND (RP mediumness) AND (_Rrp mediumness) OR # signal boost
@@ -247,7 +251,7 @@ Rate: 1.25 – 1.94
```Gen ```Gen
RPShuttleHigh RPShuttleHigh
in_context: &AP in_context: *AP
hypothesis: (CaTraceHigh fullness) AND (RP fullness) AND (_Rrp mediumness) OR # signal + supply hypothesis: (CaTraceHigh fullness) AND (RP fullness) AND (_Rrp mediumness) OR # signal + supply
(CaTraceHigh fullness) AND (RP mediumness) AND (_Rrp emptiness) OR # signal + vacancy (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!!!!! 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 ```Gen
Ca2+enterLow Ca2+enterLow
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ empty) AND (eCB empty) hypothesis: (_Ca2+ empty) AND (eCB empty)
action: [_Ca2+ increase, _ATP decrease] action: [_Ca2+ increase, _ATP decrease]
@@ -457,7 +461,7 @@ Ca2+enterLow
```Gen ```Gen
Ca2+enterMedium Ca2+enterMedium
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ mediumness) OR hypothesis: (_Ca2+ mediumness) OR
((eCB mediumness) AND (_Ca2+ empty)) OR ((eCB mediumness) AND (_Ca2+ empty)) OR
@@ -471,7 +475,7 @@ Ca2+enterMedium
```Gen ```Gen
Ca2+enterHigh Ca2+enterHigh
in_context: &AP in_context: *AP
hypothesis: (_Ca2+ mediumness) AND (eCB full) OR hypothesis: (_Ca2+ mediumness) AND (eCB full) OR
(eCB mediumness) (eCB mediumness)
@@ -479,9 +483,9 @@ Ca2+enterHigh
trace: None 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: 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 ```Gen
Ca2+ClearanceLow Ca2+ClearanceLow
in_context: NOT &AP in_context: NOT *AP
hypothesis: (NOT _Ca2+ fullness) AND (NOT _Ca2+ empty) hypothesis: (NOT _Ca2+ fullness) AND (NOT _Ca2+ empty)
action: [_Ca2+ decrease] action: [_Ca2+ decrease]
@@ -512,7 +516,7 @@ Ca2+ClearanceLow
```Gen ```Gen
Ca2+ClearanceHigh Ca2+ClearanceHigh
in_context: NOT &AP in_context: NOT *AP
hypothesis: NOT (Ca2+ empty) hypothesis: NOT (Ca2+ empty)
action: [Ca2+ decrease] action: [Ca2+ decrease]