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Archive MaleCNS research sources, provenance, bibliography and immutable data inventory

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Digital Drosophila Archive
2026-09-29 03:38:32 +08:00
commit 3981628ff8
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/anatomical-weight/summary.json
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{
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/anatomy-vs-efficacy/summary.json
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{
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/audit/final-summary.json
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{
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/audit/frozen-before.json
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/audit/integrity.json
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/audit/phase4m.yaml
+59
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phase: 4M
name: KCMBON-SynapticEfficacy-v1
frozen_phase4l_config: /data/digital-drosophila/models/male-cns-lif/olfactory-grounding-v1/phase4l.yaml
experiment_root: /data/digital-drosophila/experiments/phase4m-kcmbon-efficacy
model_root: /data/digital-drosophila/models/male-cns-lif/kcmbon-efficacy-v1
mechanisms:
additive:
label: Phase4L-additive-delta-weight-baseline
update: frozen Phase4J apply_v2, including its pre-existing 25 percent per-edge floor
multiplicative:
label: PresynapticEfficacy-v1
update: E_new = max(0, E_old * (1 - eta_effective_mv / W_syn_mv_per_contact * D * eligibility))
interpretation: engineering per-anatomical-contact efficacy conversion, not measured release probability
bounded_multiplicative:
label: KCMBON-SynapticEfficacy-v1
update: E_new = max(0.75, E_old * (1 - eta_effective_mv / W_syn_mv_per_contact * D * eligibility))
lower_bound_provenance: frozen Phase4J max_fractional_depression 0.25
protocol:
pairing_counts: [1, 2, 5, 10, 20, 50, 100]
train_seeds: [51201, 51202, 51203, 51204, 51205]
evaluation_seeds: [51301, 51302, 51303, 51304, 51305]
target_compartment_verbatim: "y5B'2a"
matched_dan_type: PAM15
unrelated_compartment_verbatim: "y2a'1"
unrelated_dan_type: PPL103
dan_time_ms: 90.0
duration_ms: 120.0
formal_training_pairings: 100
forced_odor: ODOR_A
neutral_odor: ODOR_B
input_mode: physiological
no_random_terminal_heterogeneity: true
gates:
seed_majority: 3
functional_direction: MBON spike decrease or first-spike latency increase in A; B must not show equal-or-greater change
selection: evaluate every predeclared pairing count; formal whole-brain test uses the predeclared 100-pairing endpoint only
no_functional_gate_on_g_alone: true
postsynaptic:
branch_name: MBON-PostsynapticPlasticity-v1
current_status: AUDIT-ONLY-NOT-RUN-COMPARTMENT-SPECIFIC-QUANTITATIVE-RULE-UNKNOWN
never_modify_global_threshold: true
prohibitions:
change_base_CSR: false
change_edge_existence: false
change_raw_synapse_count: false
change_global_Wsyn: false
change_transmitter_sign: false
change_LIF: false
change_APL: false
change_eligibility_v2: false
change_olfactory_encoder: false
expand_plastic_mask: false
tune_from_phase4k_5_percent: false
formal_conditioning_before_transfer_gates: false
registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/audit/post-run-qualification.json
+7
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@@ -0,0 +1,7 @@
{
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"whole_brain_feedback_label_is_operational_not_causal_proof": true
}
registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/conditioning/gate.json
+14
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@@ -0,0 +1,14 @@
{
"acquisition": "NOT-RUN",
"controls": "NOT-RUN",
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},
"status": "NOT-RUN-GATE-BLOCKED"
}
registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/controls/summary.json
+8
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@@ -0,0 +1,8 @@
{
"D_zero": "analytic identity E=1, no dopamine update",
"frozen_no_plasticity": "isolated E=1 reference replay",
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"matched_seed_same_KC_spikes": "RUN",
"random_reward": "NOT-RUN-FORMAL-CONDITIONING-BLOCKED",
"unrelated_DAN": "NOT-RUN-FORMAL-CONDITIONING-BLOCKED"
}
registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/isolated-replay/summary.json
+505
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@@ -0,0 +1,505 @@
{
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registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/literature-audit/phase4m_literature_audit.json
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{
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"source": "Stahl et al., eLife 2022",
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"url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC8956283/",
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"compartment": "multiple MB axonal compartments; longitudinally graded",
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"source": "Davidson, Kaushik and Hige, eNeuro 2023",
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"url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10616905/",
"experiment_type": "odor-DAN pairing with in vivo MBON calcium, KC acetylcholine and individual bouton calcium imaging",
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"model_interpretation": "supports local presynaptic efficacy and cautions against assigning identical biological release responses to all terminals; bouton-level parameters are not inferable from MaleCNS neuron-level CSR"
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"source": "Cohn et al., Cell 2015",
"doi": "10.1016/j.cell.2015.11.019",
"pmid": "26687359",
"url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC4732734/",
"experiment_type": "ex vivo KC stimulation and MBON electrophysiology with DAN activation",
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"source": "Pribbenow et al., eLife 2022",
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"source": "Zhang et al., Journal of Neuroscience 2019",
"doi": "10.1523/JNEUROSCI.1420-19.2019",
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"max_abs_error_mv": 0.0,
"pairing": 5,
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},
{
"exact": true,
"max_abs_error_mv": 0.0,
"pairing": 10,
"train_seed": 51205
},
{
"exact": true,
"max_abs_error_mv": 0.0,
"pairing": 20,
"train_seed": 51205
},
{
"exact": true,
"max_abs_error_mv": 0.0,
"pairing": 50,
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},
{
"exact": true,
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"pairing": 100,
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}
]
}
registry/catalog-20260929/evidence/phase4m-kcmbon-efficacy/whole-brain-replay/summary.json
+91
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@@ -0,0 +1,91 @@
{
"direct_feedback_vs_shared_edge_causal_disambiguation": "NOT-ESTABLISHED; no feedback edge ablation was authorized",
"endpoint_100_E_identity": {
"bounded_multiplicative": {
"A-specific": {
"E_reduction_mean": 0.06418240517377853,
"E_reduction_sum_mean": 6.739152526855468,
"changed_edges_mean": 29.0
},
"B-specific": {
"E_reduction_mean": 0.01132869701832533,
"E_reduction_sum_mean": 2.50364203453064,
"changed_edges_mean": 13.0
},
"inactive": {
"E_reduction_mean": 0.000590769900009036,
"E_reduction_sum_mean": 7.997252178192139,
"changed_edges_mean": 109.8
},
"shared": {
"E_reduction_mean": 0.029082241281867028,
"E_reduction_sum_mean": 10.73134708404541,
"changed_edges_mean": 43.0
}
},
"multiplicative": {
"A-specific": {
"E_reduction_mean": 0.07701239734888077,
"E_reduction_sum_mean": 8.086301803588867,
"changed_edges_mean": 29.0
},
"B-specific": {
"E_reduction_mean": 0.012025729194283486,
"E_reduction_sum_mean": 2.657686185836792,
"changed_edges_mean": 13.0
},
"inactive": {
"E_reduction_mean": 0.0005921017727814615,
"E_reduction_sum_mean": 8.015281772613525,
"changed_edges_mean": 109.8
},
"shared": {
"E_reduction_mean": 0.04587980955839157,
"E_reduction_sum_mean": 16.92964973449707,
"changed_edges_mean": 43.0
}
}
},
"endpoint_100_KC_recruitment_change": {
"bounded_multiplicative": {
"ODOR_A": 0.0,
"ODOR_B": 0.4
},
"multiplicative": {
"ODOR_A": 0.0,
"ODOR_B": 0.2
}
},
"feedback_causally_isolated_by_this_experiment": false,
"feedback_masks_memory": true,
"gates": {
"bounded_multiplicative": {
"A_KC_spike_L1_mean": 0.0,
"A_MBON_spike_L1_mean": 10.6,
"A_downstream_spike_L1_mean": 741.4,
"A_specific_functional_seeds": 1,
"B_KC_spike_L1_mean": 0.4,
"B_MBON_spike_L1_mean": 12.2,
"B_downstream_spike_L1_mean": 757.0,
"pass": false
},
"multiplicative": {
"A_KC_spike_L1_mean": 0.0,
"A_MBON_spike_L1_mean": 11.8,
"A_downstream_spike_L1_mean": 901.6,
"A_specific_functional_seeds": 1,
"B_KC_spike_L1_mean": 0.2,
"B_MBON_spike_L1_mean": 15.6,
"B_downstream_spike_L1_mean": 888.0,
"pass": false
}
},
"interpretation": "The prescribed WHOLE-BRAIN-FEEDBACK-MASKS-MEMORY label denotes isolated transfer PASS with whole-brain A/B specificity FAIL. It does not prove feedback is the unique cause; shared plastic edges and baseline network input may also contribute.",
"mean_post_brain_wall_seconds": 1.2878333504500687,
"operational_gate_label_only": true,
"status": "WHOLE-BRAIN-FEEDBACK-MASKS-MEMORY",
"tested_mechanisms": [
"multiplicative",
"bounded_multiplicative"
]
}