varie

neuron/presynapse.md

@@ -43,8 +43,13 @@ Qui comprendiamo:
 
 Qui riportiamo la struttura della espressione G e una descrizione di come leggerla (uno dei possibili modi):
 
-- i possibili behavior della presynapsi sono espressi in due contesti. AP_ctx and NOT AP_ctx.
+- i possibili behavior della presynapsi sono espressi in due contesti. AP_ctx and NOT AP_ctx. I possibili behavior sono anche raggrupati in ms, sec e min, per facilitarne la verifica. Quello che conta sono gli RF specifici di ciascuno snipplet.
-- i possibili behavior sono anche raggrupati in ms, sec e min, per facilitarne la verifica. Quello che conta sono gli RF specifici di ciascuno snipplet.
+- All'arrivo di un AP dal SOMA, si aprono i canali ionici VGCC. Il numero di VGCC e' soggetto a tuning a medi termine.
+- i VGCC fanno entrare ioni Ca2+ nella Presynapse, in base a:
+  - quanto Ca2+ e' gia' presente (proxy per CDI)
+  - alla concentrazione di eCB (che arriva dalla Postsynapse e tende a limitare l'ingresso di Ca2+ per limitare indirettamente il rilascio di NT)
+  - alla concentrazione di NT (proxy per mGlur) 
+- il rilascio di NT avviene in base alla concetrazione di Ca2+ e la concentrazione di Rrp (readily release pool)
 - 
 
 ```Gen
@@ -119,7 +124,8 @@ container: PRESYNAPSE
 
 #### ms: AP_ctx: PRESYNAPSE
 
-##### NTreleaseHigh: interacting
+
+##### NTreleaseLow: interacting
 
 Il rilascio di NT lo facciamo nel contesto di AP. Biologicamente dovrebbe avvenire solo in base alle concentrazioni, quindi anche al difuori degli AP.
 
@@ -135,39 +141,6 @@ Ci sono 4 casi che dipendono da RRP, Ca2+ e indirettamente da concentrazione di
 
 NT empty. Qui siamo contestualizzati se Ca2+ full, il che dovrebbe significare indirettamente che non ci sono NT nella SYN.
 
-```Gen
-interacting: NTreleaseHigh
-  contained_by: PRESYNAPSE
-
-  in_context: AP_ctx
-  rf: ( active: 3x ) # High
-
-  hypothesis: ( Ca2+ fullness ) AND ( Rrp fullness )  AND 
-              NOT( ATP empty )
-    action: [Rrp decrease, NT increase, ATP decrease]
-    trace: None
-```
-
-##### NTreleaseMediumness: interacting
-
-In tutti i casi di NT
-
-```Gen
-interacting: NTreleaseMedium
-  contained_by: PRESYNAPSE
-
-  in_context: AP_ctx
-  rf: ( active: 9x ) # Medium
-
-  hypothesis: (( Ca2+ fullness ) AND ( Rrp mediumness ) OR 
-              ( Ca2+ mediumness ) AND ( Rrp fullness )) AND
-              NOT( ATP empty )
-    action: [Rrp decrease, Nt increase, ATP decrease]
-    trace: None
-```
-
-##### NTreleaseLow: interacting
-
 In tutti i casi di NT
 
 ```Gen
@@ -184,7 +157,40 @@ interacting: NTreleaseLow
     trace: None
 ```
 
-##### AP-CaClearanceHigh: interacting
+##### NTreleaseMedium: interacting
+
+In tutti i casi di NT
+
+```Gen
+interacting: NTreleaseMedium
+  contained_by: PRESYNAPSE
+
+  in_context: AP_ctx
+  rf: ( active: 9x ) # Medium
+
+  hypothesis: (( Ca2+ fullness ) AND ( Rrp mediumness ) OR 
+              ( Ca2+ mediumness ) AND ( Rrp fullness )) AND
+              NOT( ATP empty )
+    action: [Rrp decrease, Nt increase, ATP decrease]
+    trace: None
+```
+
+##### NTreleaseHigh: interacting
+
+```Gen
+interacting: NTreleaseHigh
+  contained_by: PRESYNAPSE
+
+  in_context: AP_ctx
+  rf: ( active: 3x ) # High
+
+  hypothesis: ( Ca2+ fullness ) AND ( Rrp fullness )  AND 
+              NOT( ATP empty )
+    action: [Rrp decrease, NT increase, ATP decrease]
+    trace: None
+```
+
+##### AP-CaClearanceMedium: interacting
 
 Qui eliminiamo Ca2+. Non comprendiamo per ora:
 
@@ -198,6 +204,20 @@ Abbiamo il caso di clearance nel contesto di un AP e non nel contesto di AP, per
 
 ---
 
+```Gen
+interacting: AP-CaClearanceMedium
+  contained_by: PRESYNAPSE
+
+  in_context: AP_ctx
+  rf: ( active: 6x ) # mediumness
+
+  hypothesis: (Ca2+ mediumness)
+    action: [Ca2+ decrease]
+    trace: None
+```
+
+##### AP-CaClearanceHigh: interacting
+
 ```Gen
 interacting: AP-CaClearanceHigh
   contained_by: PRESYNAPSE
@@ -210,20 +230,6 @@ interacting: AP-CaClearanceHigh
     trace: None
 ```
 
-##### AP-CaClearanceMediumness: interacting
-
-```Gen
-interacting: AP-CaClearanceMediumness
-  contained_by: PRESYNAPSE
-
-  in_context: AP_ctx
-  rf: ( active: 6x ) # mediumness
-
-  hypothesis: (Ca2+ mediumness)
-    action: [Ca2+ decrease]
-    trace: None
-```
-
 ### NOT AP_ctx: PRESYNAPSE
 
 #### ms: NOT AP_ctx: PRESYNAPSE
@@ -242,7 +248,7 @@ interacting: NotAP-CaClearance
     trace: None
 ```
 
-##### CaTracesAccumulationFast: interacting
+##### CaTracesAccumulationLow: interacting
 
 Serve a dare la velocita' al trasporto di vesicles da RP a RRP. 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.
 
@@ -252,30 +258,30 @@ The result is that Tr_Ca encodes not the instantaneous calcium level but the rec
 
 ---
 
-Qui le tracce CaTrace si accumulano di piu' perche' RF e' minore, se c'e' la condizione, perche' va a fare il controllo piu' spesso.
-
 ```Gen
-interacting: CaTracesAccumulationFast
+interacting: CaTracesAccumulationLow
   contained_by: PRESYNAPSE
 
   in_context: NOT AP_ctx
-  rf: ( active: 12x ) # fast
+  rf: ( active: 24x ) # Low
 
-  hypothesis: (Ca2+ fullness)
+  hypothesis: (Ca2+ mediumness)
     action: [CaTrace increase]
     trace: None
 ```
 
-##### CaTracesAccumulationSlow: interacting
+##### CaTracesAccumulationHigh: interacting
+
+Qui le tracce CaTrace si accumulano di piu' perche' RF e' minore, se c'e' la condizione, perche' va a fare il controllo piu' spesso.
 
 ```Gen
-interacting: CaTracesAccumulationSlow
+interacting: CaTracesAccumulationHigh
   contained_by: PRESYNAPSE
 
   in_context: NOT AP_ctx
-  rf: ( active: 24x ) # Slow
+  rf: ( active: 12x ) # high
 
-  hypothesis: (Ca2+ mediumness)
+  hypothesis: (Ca2+ fullness)
     action: [CaTrace increase]
     trace: None
 ```
@@ -316,7 +322,7 @@ interacting: CaTracesClearance
     trace: None
 ```
 
-##### RPShuttleSlow: interacting
+##### RPShuttleLow: interacting
 
 This happens in the seconds loop, once per second.
 
@@ -480,9 +486,11 @@ container: VGCC-PRE
 
 ### AP_ctx: VGCC-PRE
 
+Da rivedere le condizioni per aggiungere mGluR che ha come proxy NT concentration!!!!!
+
 #### ms: AP_ctx: VGCC-PRE
 
-##### Ca2+enterOpen: interacting
+##### Ca2+enterLow: interacting
 
 Here we comprehend the breaking activity on VGCC by: CDI, eCB and mGluR:
 
@@ -524,8 +532,8 @@ interacting: Ca2+enterMedium
   rf: ( active: 6x ) # Medium
 
   hypothesis: (Ca2+ mediumness) OR 
-              (eCB mediumness) AND (Ca2+ empty) OR 
+              ((eCB mediumness) AND (Ca2+ empty)) OR 
-              (eCB full) AND (Ca2+ empty) AND (NT empty)
+              ((eCB full) AND (Ca2+ empty) AND (NT empty))
     action: [Ca2+ increase, ATP decrease]
     trace: None
 ```
@@ -540,7 +548,7 @@ interacting: Ca2+enterHigh
   rf: ( active: 3x ) # High
 
   hypothesis: (Ca2+ mediumness) AND (eCB full) OR 
-              (eCB mediumness))
+              (eCB mediumness)
     action: [Ca2+ increase, ATP decrease]
     trace: None
 ```