DagsHub-Datasets
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dandiarchive-dataset


  
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            {"id":"DANDI:000722/draft","url":"https://dandiarchive.org/dandiset/000722/draft","name":"sOCT of the Human Somatosensory Cortex and Vessel Segmentation","about":[{"name":"Somatosensory Cortex","schemaKey":"Anatomy","identifier":"UBERON:0008930"},{"name":"Brain","schemaKey":"Anatomy","identifier":"UBERON:0000955"}],"access":[{"status":"dandi:OpenAccess","schemaKey":"AccessRequirements"}],"license":["spdx:CC-BY-4.0"],"version":"draft","@context":"https://raw.githubusercontent.com/dandi/schema/master/releases/0.6.4/context.json","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","keywords":["Optical Coherence Tomography","Vasculature"],"protocol":["https://github.com/EtienneChollet/oct_vesselseg"],"schemaKey":"Dandiset","identifier":"DANDI:000722","repository":"https://dandiarchive.org","contributor":[{"name":"Chollet, Etienne","email":"echollet@mgh.harvard.edu","roleName":["dcite:ContactPerson","dcite:Author"],"schemaKey":"Person","identifier":"0009-0006-4730-525X","affiliation":[{"name":"Massachussets General Hospital","schemaKey":"Affiliation"}],"includeInCitation":true},{"name":"Yaël Balbastre","email":"y.balbastre@ucl.ac.uk","schemaKey":"Person","identifier":"0000-0001-8758-9978","awardNumber":"NIF\\R1\\232460","includeInCitation":true},{"name":"Mauri, Chiara","schemaKey":"Person","includeInCitation":true},{"name":"Magnain, Caroline","schemaKey":"Person","awardNumber":"CZI (2019- 198101, 2021-244261)","includeInCitation":true},{"name":"Fischl, Bruce","schemaKey":"Person","includeInCitation":true},{"name":"Wang, Hui","schemaKey":"Person","includeInCitation":true}],"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.\n\nIn details, the dataset contains:\n\n- `sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_OCT.ome.zarr` - Image of the full block of tissue\n- `sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_OCT.ome.zarr` - Image of the smaller region of interest\n- `derivatives/annotations/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-tissue_mask.ome.zarr` - Manually labeled tissue\n- `derivatives/annotations/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_mask.ome.zarr` - Manually labeled vessels\n- `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_mask.ome.zarr` - Vessel maximum-likelihood map (large block)\n- `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_label-vessels_mask.ome.zarr` - Vessel maximum-likelihood map (small block)\n- `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-01_label-vessels_probseg.ome.zarr` - Vessel probability map (large block)\n- `derivatives/predictions/sub-I46/micr/sub-I46_sample-somatosensory_chunk-02_label-vessels_probseg.ome.zarr` - Vessel probability map (small block)","studyTarget":["Human Brain"],"assetsSummary":{"schemaKey":"AssetsSummary","numberOfBytes":0,"numberOfFiles":0},"schemaVersion":"0.6.4","ethicsApproval":[],"wasGeneratedBy":[{"name":"Unet validation data","schemaKey":"Project"}],"relatedResource":[],"manifestLocation":["https://api.dandiarchive.org/api/dandisets/000722/versions/draft/assets/"]}