dandiarchive-dataset/s3://dandiarchive/dandisets/000722/draft/dandiset.yaml

'@context': https://raw.githubusercontent.com/dandi/schema/master/releases/0.6.4/context.json
about:
- identifier: UBERON:0008930
  name: Somatosensory Cortex
  schemaKey: Anatomy
- identifier: UBERON:0000955
  name: Brain
  schemaKey: Anatomy
access:
- schemaKey: AccessRequirements
  status: dandi:OpenAccess
assetsSummary:
  numberOfBytes: 0
  numberOfFiles: 0
  schemaKey: AssetsSummary
citation: Chollet, Etienne; Yaël Balbastre; Mauri, Chiara; Magnain, Caroline; Fischl,
  Bruce; Wang, Hui (2024) sOCT of the Human Somatosensory Cortex and Vessel Segmentation
  (Version draft) [Data set]. DANDI archive. https://dandiarchive.org/dandiset/000722/draft
contributor:
- affiliation:
  - name: Massachussets General Hospital
    schemaKey: Affiliation
  email: echollet@mgh.harvard.edu
  identifier: 0009-0006-4730-525X
  includeInCitation: true
  name: Chollet, Etienne
  roleName:
  - dcite:ContactPerson
  - dcite:Author
  schemaKey: Person
- awardNumber: NIF\R1\232460
  email: y.balbastre@ucl.ac.uk
  identifier: 0000-0001-8758-9978
  includeInCitation: true
  name: Yaël Balbastre
  schemaKey: Person
- includeInCitation: true
  name: Mauri, Chiara
  schemaKey: Person
- awardNumber: CZI (2019- 198101, 2021-244261)
  includeInCitation: true
  name: Magnain, Caroline
  schemaKey: Person
- includeInCitation: true
  name: Fischl, Bruce
  schemaKey: Person
- includeInCitation: true
  name: Wang, Hui
  schemaKey: Person
dateCreated: '2023-12-04T23:33:28.541355+00:00'
description: 'This dataset contains a 3.4 x 2.9 x 1.1 cm block of Human somatosensory
  cortex imaged by Serial-sectionning Optical Coherence Tomography (sOCT) at 20 µm
  isotropic resolution. Vessels in a 6 x 6 x 6 mm region of interest (ROI) were manually
  labeled and used to validate a machine-learning segmentation method.The output of
  the automatic segmentation method are also provided, both for the small ROI and
  large block.


  In details, the dataset contains:


  - `sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_OCT.ome.zarr` - Image of the
  full block of tissue

  - `sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_OCT.ome.zarr` - Image of the
  smaller region of interest

  - `derivatives/annotations/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-tissue_mask.ome.zarr`
  - Manually labeled tissue

  - `derivatives/annotations/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_mask.ome.zarr`
  - Manually labeled vessels

  - `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_mask.ome.zarr`
  - Vessel maximum-likelihood map (large block)

  - `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_label-vessels_mask.ome.zarr`
  - Vessel maximum-likelihood map (small block)

  - `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_probseg.ome.zarr`
  - Vessel probability map (large block)

  - `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_label-vessels_probseg.ome.zarr`
  - Vessel probability map (small block)'
ethicsApproval: []
id: DANDI:000722/draft
identifier: DANDI:000722
keywords:
- Optical Coherence Tomography
- Vasculature
license:
- spdx:CC-BY-4.0
manifestLocation:
- https://api.dandiarchive.org/api/dandisets/000722/versions/draft/assets/
name: sOCT of the Human Somatosensory Cortex and Vessel Segmentation
protocol:
- https://github.com/EtienneChollet/oct_vesselseg
relatedResource: []
repository: https://dandiarchive.org
schemaKey: Dandiset
schemaVersion: 0.6.4
studyTarget:
- Human Brain
url: https://dandiarchive.org/dandiset/000722/draft
version: draft
wasGeneratedBy:
- name: Unet validation data
  schemaKey: Project