| {"created": "2024-02-16T10:47:44.297127+00:00", "modified": "2024-02-25T21:53:32.148990+00:00", "id": 10669918, "conceptrecid": "10669917", "doi": "10.5281/zenodo.10669918", "conceptdoi": "10.5281/zenodo.10669917", "doi_url": "https://doi.org/10.5281/zenodo.10669918", "metadata": {"title": "Human Lung Tissue Microscopy (DIC, Fluorescence, Cell and Nuclei Semantic Instance Annotations)", "doi": "10.5281/zenodo.10669918", "publication_date": "2024-02-22", "description": "<p>The zip file contains 3 folders (annotations, images and training_splits).<br><br>The annotation folder contains 3 folders (cell_instances, nuclei_instances and semantic). Cell and nuclei instance annotations are long int tif images, containing numbered instance ids and 0 in the background. Semantic annotations are 8-bit int png files containing the class ids (0: background, 1: normal tissue, 2: erythrocytes, 3: alveolar epithelial type 2 cells, 4: alveolar macrophages, 5: other nuclei, 6: alveolar epithelial type 2 cell nuclei, 7: alveolar macrophage nuclei, 8: cell debris).</p>\n<p>The image folder contains 4 folders (CD68, DAPI, DIC, proSPC), where DIC contains float valued background-corrected differential interference contrast images, the others contain normalized float-valued fluorescence channels of a multi-plex staining with CD-68 (whole alveolar macrophages), DAPI (any cell nuclei), proSPC (cytoplasm of alveolar epithelial type 2 cell). All images are in tif format.</p>\n<p>The training split folder contains 3 text files, with the image prefix (compared to images and annotations without ending, i.e. e.g. without \"_DIC.tif\") of all cases in the respective subset. With a total of 68 cases, there are 51 cases in the train set, 7 cases in the validation set and 10 cases in the test set.<br><br>The lung tissue origins from lung surgery of patients, but does not include resected tumors. Please see reference [1]. The images were acquired with a laser scanning microscope with 40x magnification and 1024 x 1024 pixels per image.</p>", "access_right": "open", "creators": [{"name": "Dohmen, Melanie", "affiliation": null, "orcid": "0000-0002-4447-0579"}, {"name": "Mittermaier, Mirja", "affiliation": "Charit\u00e9 - Universit\u00e4tsmedizin Berlin", "orcid": "0000-0003-0678-6676"}, {"name": "Hocke, Andreas", "affiliation": "Charit\u00e9 Universit\u00e4tsmedizin Berlin", "orcid": "0000-0002-6935-8612"}], "references": ["K. Zscheppang, J. Berg, S. Hedtrich, V. L, D. E. Wagner, N. Suttorp, S. Hippenstiel, and A. C. Hocke, \"Human pulmonary 3d models for translational research,\" Biotechnology Journal, vol. 13, no. 1, 2018."], "resource_type": {"title": "Dataset", "type": "dataset"}, "meeting": {"title": "Simultaneous Lung Cell and Nucleus Segmentation from Labelled versus Unlabelled Human Lung DIC Images", "acronym": "ISBI", "dates": "27-31 May 2024", "place": "Athens, Greece", "url": "https://biomedicalimaging.org/2024/"}, "relations": {"version": [{"index": 0, "is_last": true, "parent": {"pid_type": "recid", "pid_value": "10669917"}}]}}, "title": "Human Lung Tissue Microscopy (DIC, Fluorescence, Cell and Nuclei Semantic Instance Annotations)", "links": {"self": "https://zenodo.org/api/records/10669918", "self_html": "https://zenodo.org/records/10669918", "preview_html": "https://zenodo.org/records/10669918?preview=1", "doi": "https://doi.org/10.5281/zenodo.10669918", "self_doi": "https://doi.org/10.5281/zenodo.10669918", "self_doi_html": "https://zenodo.org/doi/10.5281/zenodo.10669918", "reserve_doi": "https://zenodo.org/api/records/10669918/draft/pids/doi", "parent": "https://zenodo.org/api/records/10669917", "parent_html": "https://zenodo.org/records/10669917", "parent_doi": "https://doi.org/10.5281/zenodo.10669917", "parent_doi_html": "https://zenodo.org/doi/10.5281/zenodo.10669917", "self_iiif_manifest": "https://zenodo.org/api/iiif/record:10669918/manifest", "self_iiif_sequence": "https://zenodo.org/api/iiif/record:10669918/sequence/default", "files": "https://zenodo.org/api/records/10669918/files", "media_files": "https://zenodo.org/api/records/10669918/media-files", "latest": "https://zenodo.org/api/records/10669918/versions/latest", "latest_html": "https://zenodo.org/records/10669918/latest", "versions": "https://zenodo.org/api/records/10669918/versions", "draft": "https://zenodo.org/api/records/10669918/draft", "access_links": "https://zenodo.org/api/records/10669918/access/links", "access_grants": "https://zenodo.org/api/records/10669918/access/grants", "access_users": "https://zenodo.org/api/records/10669918/access/users", "access_request": "https://zenodo.org/api/records/10669918/access/request", "access": "https://zenodo.org/api/records/10669918/access", "communities": "https://zenodo.org/api/records/10669918/communities", "communities-suggestions": "https://zenodo.org/api/records/10669918/communities-suggestions", "request_deletion": "https://zenodo.org/api/records/10669918/request-deletion", "file_modification": "https://zenodo.org/api/records/10669918/file-modification", "quota_increase": "https://zenodo.org/api/records/10669918/quota-increase", "requests": "https://zenodo.org/api/records/10669918/requests"}, "updated": "2024-02-25T21:53:32.148990+00:00", "recid": "10669918", "revision": 8, "files": [{"id": "0abf9207-ca03-4030-ac17-bbd14c5fc9bc", "key": "data_ISBI2024.zip", "size": 322196523, "checksum": "md5:802508cc3f5daf6f284848bf14875615", "links": {"self": "https://zenodo.org/api/records/10669918/files/data_ISBI2024.zip/content"}}], "swh": {}, "owners": [{"id": "1070484"}], "status": "published", "stats": {"downloads": 93, "unique_downloads": 66, "views": 267, "unique_views": 251, "version_downloads": 93, "version_unique_downloads": 66, "version_unique_views": 251, "version_views": 267}, "state": "done", "submitted": true} |
