fixed markdown with lint
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# BEH-AXO.md
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## BEH-AXO: Container
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Qui comprendiamo:
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- BEH-AXO: Axon
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- BEH-PRE: Presynapse
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- BEH-VCGG: Voltage-Controlled Gated Channels
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# BEH-AXO: Container
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**Axon**: Axon does not contain specific behavior, here we comprehend it as a “cable” transporting the AP from SOMA to Presynapse. It expands BEH-PRE which can be Modulated (TUN).
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```Gen
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container: BEH-AXO
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expansion:
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- BEH-PRE ( fullness: 50x, active: 20x, emptiness: 10x )
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# modulated_by: TUN-SYN-AXO-PRE# possible/actual
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- BEH-PRE ( fullness: 50x, active: 20x, emptiness: 10x )
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# modulated_by: TUN-SYN-AXO-PRE# possible/actual
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```
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# BEH-PRE: Container
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## BEH-PRE: Container
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**Presynapse:** We treat each presynapse as standalone. The vesicle reserve pool is a strictly private, local resource of each individual presynaptic bouton. What is shared between synapses on the same axon are signals (neuromodulators) and metabolic resources (energy), but not the synaptic vesicles themselves. This ensures both independent computation and cooperative metabolic support within the axonal branch.
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**Tubs:**
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- Ca2+: Calcium Ion entering the Presynapse when VCGG open. They are key to check the concentration, release vescicles and modulation
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- Rrp: Readily Releasable Pool
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The Readily Releasable Pool consists of the vesicles that are "docked" and "primed" at the active zone of the synapse.
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@@ -40,6 +45,7 @@ Characteristics: This makes up the vast majority of the vesicles (up to 80% or 9
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**Behaviors**:
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L'idea e' che:
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- Fast
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-- i VCGG si aprano all'arrivo di un AP dal SOMA. Il numero dei VCGG presenti e' stato modulato (TUN) in una fase di non attivita' della presynapse
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-- I VCGG fanno entrare Ca2+ che ne aumenta la concentrazione
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@@ -60,13 +66,13 @@ container: BEH-PRE
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tub_local:
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- Ca2+ ( fullness: 60x, active: 30x, emptiness: 0x )
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# modulated_by: DEV-PRE-CA2+FULL # Full
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# modulated_by: DEV-PRE-CA2+FULL # Full
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- Rrp ( fullness: 30x, active: 15x, emptiness: 0x )
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# modulated_by: DEV-PRE-RRP-FULL # Full
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# modulated_by: DEV-PRE-RRP-FULL # Full
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- Rp ( fullness: 30x, active: 15x, emptiness: 0x )
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# modulated_by: DEV-PRE-RRP-FULL # Full
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# modulated_by: DEV-PRE-RRP-FULL # Full
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- TagRelease ( fullness: 1x, active: 0x, emptiness: 0x )
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@@ -74,10 +80,11 @@ container: BEH-PRE
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tub_intricated:
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- Nt ( contained_by: BEH-SYN ) # intricated name (from BEH-SYN)
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```
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## IntegrateCa2+: Context
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### IntegrateCa2+: Context
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Qui verifichiamo il livello di CA2+ nella presynapse. I comportamenti nella presinapsi dipendo tutti da questa concentrazione, sia quelli immediati di rilascio NT da vescicles che quelli di modulazione.
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***Tens Milliseconds Time Scale***
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@@ -90,16 +97,16 @@ context: IntegrateCa2+
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rf: ( active: 60x )
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condition: (Ca2+ empty)
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out_context: CaEmpty
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out_context: CaEmpty
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condition: NOT (Ca2+ empty) AND NOT (Ca2+ full)
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out_context: CaMedium
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out_context: CaMedium
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condition: (Ca2+ full)
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out_context: CaFull
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out_context: CaFull
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```
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## VescicleRelease: Episode
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### VescicleRelease: Episode
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Il rilascio di NT avviene solo se Ca+ FULLNESS? Ovviamente se ci sono Vesciche. O dipende da altro? Cioe’ cosi’ rilascerebbe tutte le vesciche se c’e’ fullness. Dovremmo mettere un tag, o una discesa improvvisa di Ca+ al release di una vescica. Perche’ potremmo avere il caso che i VGGC sia talmente tanti da far entrare tanto calcio da far si che la prima vescica consumi CA ma non abbastanza da andare sotto FULLNESS
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@@ -120,12 +127,12 @@ episode: VescicleRelease
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rf: ( active: 6x )
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hypothesis: (Ca2+ full) AND NOT (Rrp empty)
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action: [Rrp decrease, Nt increase, Ca2+ decrease,
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action: [Rrp decrease, Nt increase, Ca2+ decrease,
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TagRelease increase]
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trace: None
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trace: None
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```
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## Ca+ClearenceSlow: Episode
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### Ca+ClearenceSlow: Episode
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Svuotiamo a due velocita’. Il context (Check Ca+ concentration) e’ determinato a epoca piu’ lunga, tanto ci vuole qualche giro per fare entrare i primi Ca+
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Le tracce lasciate servono alla modulazione
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@@ -140,11 +147,12 @@ episode: Ca+ClearenceSlow
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rf: ( active: 6x )
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hypothesis: NOT (Ca+ empty) AND NOT (Ca+ full)
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action: [Ca+ decrease, CaTraces Increase]
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action: [Ca+ decrease, CaTraces Increase]
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trace: None
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```
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## Ca+ClearenceFast: Episode
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### Ca+ClearenceFast: Episode
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Qui l'idea oltre che a fare clearance e' anche quella di lasciare tracce su che livello di Ca2+ c'e' stato durante gli episodi. Un livello medio lascia meno tracce di un livello alto, e questo serve a ragionare sulla modulazione.
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Clearance mechanisms (in order of speed):
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@@ -165,8 +173,8 @@ episode: Ca+ClearenceFast
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rf: ( active: 1x )
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condition: (Ca2+ full)
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action: [Ca2+ decrease, CaTraces Increase]
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trace: None
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action: [Ca2+ decrease, CaTraces Increase]
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trace: None
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```
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```Gen
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@@ -178,25 +186,26 @@ episode: Ca+ClearenceMedium
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rf: ( active: 1x )
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hypothesis: NOT (Ca2+ full) AND NOT (Ca2+ empty)
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action: [Ca2+ decrease, CaTraces Increase]
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trace: None
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action: [Ca2+ decrease, CaTraces Increase]
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trace: None
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```
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## STP - Pr Upregulation: Observable
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### STP - Pr Upregulation: Observable
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**Observed behavior**
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Upregulation (Facilitation): Residual Ca²⁺ from previous spikes increases P_r for next release
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***Timing: > 10 ms***
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## STD - Pr Downregulation: Observable
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### STD - Pr Downregulation: Observable
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**Observed behavior**
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Downregulation (Depression): High-frequency firing depletes readily releasable vesicle pool, decreasing P_r
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***Timing: > 10 ms***
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## VesciclesRecycling: Episode
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### VesciclesRecycling: Episode
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Dobbiamo capire se lasciare il recicling RecP oppure avere solo un Rp, almeno al primo giro di comprensione, per semplificare.
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Sequential steps:
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@@ -217,12 +226,12 @@ episode: VesciclesRecycling
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in_context:
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rf: ( fullness: 10x, active: 5x, emptiness: 2x )
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# si parte con active, poi viene modulato
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# modulated_by: DEV-PRE-VesciclesRecycling-RF
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# modulated_by: DEV-PRE-VesciclesRecycling-RF
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hypothesis:
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```
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## VescicleFromRPtoRRP-Slow: Episode
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### VescicleFromRPtoRRP-Slow: Episode
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Superpriming requires ATP for phosphorylation reactions and for molecular motors that move vesicles. If the reserve pool is depleted or ATP is low, the superpriming "conveyor belt" has nothing to feed into the RRP. (Astrocyte)
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@@ -240,11 +249,11 @@ episode: VescicleFromRPtoRRP-Slow
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rf: ( active: 30x )
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hypothesis: NOT (RP empty)
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action: [RP decrease, RRP increase]
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trace: None
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action: [RP decrease, RRP increase]
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trace: None
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```
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## VescicleFromRPtoRRP-Medium: Episode
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### VescicleFromRPtoRRP-Medium: Episode
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***Seconds-Minutes Time Scale***
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@@ -256,11 +265,11 @@ episode: VescicleFromRPtoRRP-Medium
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rf: ( active: 15x )
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hypothesis: NOT (RP empty)
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action: [RP decrease, RRP increease]
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trace: None
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action: [RP decrease, RRP increease]
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trace: None
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```
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## VescicleFromRPtoRRP-Fast: Episode
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### VescicleFromRPtoRRP-Fast: Episode
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***Seconds-Minutes Time Scale***
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@@ -275,7 +284,8 @@ episode: VescicleFromRPtoRRP-Fast
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action: [RP decrease, RRP increase]
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trace: None
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```
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## VesiclesFillingRP: Episode
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### VesiclesFillingRP: Episode
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Qui riempiamo le vesciche. Fino ad un numero massimo, che viene modulato in DEV
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@@ -287,12 +297,12 @@ episode: VesiclesFillingRP
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in_context: AwayFromSpike
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rf: ( fullness: 100x, active: 60x, emptiness: 30x )
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# modulated_by: DEV-PRE-VesiclesFillingRP-RF # RF
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# modulated_by: DEV-PRE-VesiclesFillingRP-RF # RF
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hypothesis:
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```
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# BEH-PRE-VGCC: Container
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## BEH-PRE-VGCC: Container
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**Voltage Gated Ion Channels**: When an AP arrives from the SOMA, VCGG are opened and they let in CA2+ initiating the possible release of NT from the vescicles. In theory each RRP has its own VCGG nearby. We do not comprehend this, but consider VCGG shared between all the RPP of the presynapse (we impose a floor)
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@@ -300,13 +310,13 @@ episode: VesiclesFillingRP
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container: BEH-PRE-VGCC
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tub_intricated:
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- Ca2+ ( contained_by: BEH-PRE )
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- Ca2+ ( contained_by: BEH-PRE )
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context_intricated:
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- AP ( contained_by: BEH-SOMA )
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context_intricated:
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- AP ( contained_by: BEH-SOMA )
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```
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## VgccOpen: Episode
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### VgccOpen: Episode
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Auto-inhibition? Ca²⁺ binding to calmodulin on VGCC. 5-50 ms
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@@ -346,6 +356,6 @@ episode: VgccOpen
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rf: ( active: 1x )
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hypothesis: NOT (Ca2+ full)
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action: [Ca2+ increase]
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trace: None # Se Ca+FULLNESS, lascio tracce di overflow per modulazione DOWN, da capire UP
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action: [Ca2+ increase]
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trace: None # Se Ca+FULLNESS, lascio tracce di overflow per modulazione DOWN, da capire UP
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```
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