Members of the scientific community request and justify proofreading effort in the dataset. For example:

• proofreading axons and dendrites for a specific group of neurons

• annotating the locations of dense core vesicles in these particular cells

• annotating locations where microglia have engulfed synapses

A Scientific Steering Group will evaluate all the plans and prioritize the manual work based upon the resources available to the virtual observatory.

The steering group meets 2-3 times annually to review proposals.

Plans will then be carried out by staff of the virtual observatory, with no costs to the requestor.

Plans will be completed within the assigned project period of 6 months.

The data produced from the efforts of the manual proofreaders is then shared with the entire scientific community for everyone to benefit from.

Data releases will occur at least quarterly.

Our quarterly release includes the following new tables:

• vortex_thalamic_proofreading_status : selected proofreading of thalamic axons, as part of the VORTEX effort

• multi_input_spine_predictions_ssa : a new prediction of which synapses share a spine head, based on analysis from synapse_target_predictions_ssa

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_astrocyte_proofreading_status (newly proofread cells and upgraded cell status)

See Release Manifests v1412 for more details

Our quarterly release includes the following new 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.

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)

See Release Manifests v1300 for more details

Our quarterly data release includes:

• Axon extension on 273 wholly new pyramidal cells, and upgrades to 400 previously proofread but truncated cells

• Manual labeling of 20,000 synapse targets.

• Further cleaning of 6 selected astrocytes to remove incorrectly merged neurites.

• Updates to the proofreading table: now proofreading_status_and_strategy

See: v1181 Release Manifest for more

We have concluded our first Project Period, with:

• Axon extension on 109 functionally co-registered pyramidal cells (6 previously proofread with incomplete extension, 103 wholly new).

• Manual labeling of 73,000 synapse targets from 20 basket cells (putative parvalbumin cells).

• Manual annotation of myelination and nodes of Ranvier on 53 mm of axon.

• Selection of 12 astrocytes for segmentation quality and completeness, and ‘cleaning’ to remove incorrectly merged neurites from 3 astrocytes.

• Vasculature: validation and advertisement of an improved vasculature mask from Donglai Wei and colleagues. Viewable from the Microns Gallery https://www.microns-explorer.org/gallery-mm3, and hosted on bossdb at: s3://bossdb-open-data/wei2024/minnie/bv

• Updates to the proofreading table: now proofreading_status_and_strategy

See: v1078 Release Manifest for more

Highlights include: derived visual tuning properties of the functional recordings, associated with the coregistered cells. And updated flat segmentation.

See Release Manifests for v943

Release of public datastack v795. Adds annotation tables containing the updated cell typing and models based on multiple methods, and further proofreading of various cell types including L5ET and L5IT excitatory cells.

Public annotation tables can be viewed with the Dash App and the current segmentation explored with neuroglancer.

Follow instructions in Visualization for data access

This released focused on releasing and updated version of the segmentation with more proofreading, including 1,051 cells with at least cleaned axons. It also marked the first release where almost 100% of the neurons have been made single soma. It also contained more co-registration, including a manual table with 13,925 entries, and a larger automated registration with >20,000 entries that had high confidence. Finally, the release contained updated cell type calls and models based on multiple methods.

This release was accompanied by an update to the preprint describing the dataset (https://www.biorxiv.org/content/10.1101/2021.07.28.454025v3)

This version has an updated segmentation, which included more proofread cells including cells with at least clean 410 axons. It also contained an update to functional coregistration which includes now 9518 coregistered ROIs. Finally, it now includes a broader array of cell type calls in the dataset, including both manual and automated tables.

This was the initial release of the dataset, that included all the image data, the synapse detection, nucleus detection, and the functional dataset. It included 249 cells with at least clean dendrites, and 200 functional coregistered cells. It had some basic cell type calls including a model for what was likely neurons in the dataset, and excitatory vs inhibitory calls, both manual and automated.