Data Release v1300 (January 13, 2025) is the first quarterly release of 2025.

This version ADDS the following tables

  • synapse_target_predictions_ssa : a new synapse-target prediction classifier run on 200 million synapses

  • baylor_gnn_cell_type_fine_model_v2 : a new cell type classifier with neuron excitatory/inhibitory subclasses

  • coregistration_auto_phase3_fwd_apl_vess_combined_v2 : an update to the automatch table generated by combining coregistration_auto_phase3_fwd_v2 and apl_functional_coreg_vess_fwd

  • coregistration_auto_phase3_fwd_v2: an update to the automatic coregistration model

  • cg_cell_type_calls, gamlin_2023_mcs, gamlin_2023_mcs_met_types : a table collection associated with a forthcoming publication from Gamlin et al.

It includes all other tables as of v1181, with the following exceptions (removed tables still available in version 1181):

  • coregistration_auto_phase3_fwd_apl_vess_combined (REMOVED and superseded by coregistration_auto_phase3_fwd_apl_vess_combined_v2)

  • coregistration_auto_phase3_fwd (REMOVED and superseded by coregistration_auto_phase3_fwd_v2)

The following tables have updated status or entries, from VORTEX proofreading and annotations

  • proofreading_status_and_strategy (newly proofread cells and upgraded cell status)

  • vortex_compartment_targets (new manual annotations)

  • vortex_manual_myelination_v0 (new manual annotations)

Proofreading Summary (v1300)

Proofreading Status and Strategy

CAVE table name: proofreading_status_and_strategy

This table describes the status of cells selected for manual proofreading.

Column Description
pt_position, pt_supervoxel_id, pt_root_id Bound spatial point columns associated with the centroid of the cell nucleus
valid_id The root id of the neuron when it the proofreading assessment was made
status_dendrite True or False, indicates whether the dendrite is at least clean of false-marges. For extenstion status, see strategy_axon
status_axon True or False, indicates whether the axon is at least clean of false-marges. For extenstion status, see strategy_axon
strategy_dendrite Text codifying of most comprehensive proofreading strategy used on the dendrite. For details see Proofreading Strategies
strategy_axon Text codifying of most comprehensive proofreading strategy used on the axon. For details see Proofreading Strategies

VORTEX synapse compartments v1: labeling the targets of basket cell axons

CAVE table name: vortex_compartment_targets

Manual labeling of synaptic targets of putative parvalbumin basket cells, as part of the VORTEX project. This is a reference table on the synapses table synapses_pni_2, and shares reference ids with the automatic synapse labeling table synapse_target_structure.

Column Description
target_id reference id of the synapse in synapses_pni_2
tag Manual label of synapse type. One of: 'spine', 'shaft', 'soma', 'soma_spine','orphan','other'. Orphan refers to orphan neurites; other is a catch-all for synapses that do not match other labels
pre_pt_position, pre_pt_supervoxel_id, pre_pt_root_id The bound spatial point data for the presynaptic side of the synapse
post_pt_position, post_pt_supervoxel_id, post_pt_root_id The bound spatial point data for the postsynaptic side of the synapse