{"EMPIAR-11746":{"imagesets":[{"segmentations":[{"file":"data/Labels","description":"Segmentation models of nuclear envelope (index=1), lipid droplets (index=2), lysosomes (index=3), mitochondria (index=4), golgi (index=5), endoplasmic reticulum (index=6), peroxisomes (index=7), and other unclassified objects (index=8)\nAll models were generated in Microscopy Image Browser (https://mib.helsinki.fi/)\nModels of lipid droplets, lysosomes and peroxisomes were done manually using brush, interpolation and segment-anything tools of MIB\nModels of nuclear envelope, golgi, endoplasmic reticulum and mitochondria were generated using the deep learning tool of MIB.","original_files":null,"original_format":"TIFF","entry":null}],"name":"Aligned and pre-processed FIB-SEM dataset of a human bone osteosarcoma epithelial cell (U2-OS)","directory":"data/Images","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1168,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":25.0,"pixel_height":25.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Z-step is 50Å\nVoxels: 0.0025 x 0.0025 x 0.005 um\n16bit raw images taken with EsB and InLens-SE detectors were fused as 70%+30%. The datasets were aligned and processed in Microscopy Image Browser (https://mib.helsinki.fi/)","image_width":"3394","image_height":"1385"}],"workflow_file":null,"grant_references":[{"funding_body":"Academy of Finland","code":"1331998","country":"Finland"}],"version_history":[],"title":"FIB-SEM dataset of a human bone osteosarcoma epithelial cell (U2-OS)","principal_investigator":[{"author_orcid":"0000-0002-4159-6934","middle_name":null,"organization":"Electron Microscopy Unit, Institute of Biotechnology, University of Helsinki","street":"PL56 (Viikinkaari 9)","town_or_city":"Helsinki","state_or_province":"Uusimaa","post_or_zip":"00014","telephone":"+358 50 4696799","fax":null,"first_name":"Eija","last_name":"Jokitalo","email":"eija.jokitalo [at] helsinki.fi","country":"Finland","entry":"EMPIAR-11746"}],"status":"REL","deposition_date":"2023-10-25","release_date":"2024-02-15","obsolete_date":null,"update_date":"2024-06-05","corresponding_author":{"author":{"author_orcid":"0000-0002-4159-6934","middle_name":null,"organization":"Electron Microscopy Unit, Institute of Biotechnology, University of Helsinki","street":"PL56 (Viikinkaari 9)","town_or_city":"Helsinki","state_or_province":"Uusimaa","post_or_zip":"00014","first_name":"Eija","last_name":"Jokitalo","country":"Finland"}},"authors":[{"author":{"name":"Belevich I","author_orcid":"0000-0003-2190-4909"}},{"author":{"name":"Schertel A","author_orcid":null}},{"author":{"name":"Zaversek T","author_orcid":null}},{"author":{"name":"Szyrynska N","author_orcid":"0000-0003-4735-1724"}},{"author":{"name":"Saarnio S","author_orcid":null}},{"author":{"name":"Jokitalo E","author_orcid":"0000-0002-4159-6934"}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[{"name":"EMPIAR-11849"}],"citation":[{"authors":[{"name":"Czymmek KJ","author_orcid":"0000-0002-5471-7395"},{"name":"Belevich I","author_orcid":"0000-0003-2190-4909"},{"name":"Bischof J","author_orcid":"0000-0002-5668-841X"},{"name":"Mathur A","author_orcid":"0000-0001-9734-9767"},{"name":"Collinson L","author_orcid":"0000-0003-0260-613X"},{"name":"Jokitalo E","author_orcid":"0000-0002-4159-6934"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Accelerating data sharing and reuse in volume electron microscopy","volume":"26","country":"","first_page":"498","last_page":"503","year":"2024","language":"English","doi":"10.1038/s41556-024-01381-3","pubmedid":"38609529","details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Nature cell biology","journal_abbreviation":"Nat Cell Biol","issue":"4","preprint":false}],"dataset_size":"5.2 GB","experiment_type":"FIB-SEM","scale":"cell","entry_doi":"10.6019/EMPIAR-11746"}}