{"EMPIAR-11849":{"imagesets":[{"segmentations":[{"file":"data/Labels","description":"Segmentation model of gold particles of a human hepatoma-derived cell (Huh-7) immunostained using antibody against Golgi matrix protein GM130 and imaged using Focused Ion Beam Scanning Electron Microscopy (FIB-SEM) with voxels of 4.0 x 4.0 x 8.0 nm\nSegmentation was done in DeepMIB using 54 images as a training set\n\nI. Belevich, and E. Jokitalo, DeepMIB: User-friendly and open-source software for training of deep learning network for biological image segmentation, PLoS Comput Biol. 2021 Mar 2;17(3):e1008374. doi: 10.1371/journal.pcbi.1008374","original_files":"data/Images","original_format":"TIFF","entry":null}],"name":"FIB-SEM dataset showing localization of a Golgi matrix protein GM130 (purple) in human hepatocellular carcinoma cell (Huh-7)","directory":"data/Images","category":"reconstructed volumes","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":564,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":40.0,"pixel_height":40.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Huh7, a human hepatoma-derived cell was immunostained using antibody against Golgi matrix protein GM130 and imaged using Focused Ion Beam Scanning Electron Microscopy (FIB-SEM) with voxels of 4.0 x 4.0 x 8.0 nm.\n\nImmunolabeling as described in\nLak B, Li S, Belevich I, Sree S, Butkovic R, Ikonen E, Jokitalo E. Specific subdomain localization of ER resident proteins and membrane contact sites resolved by electron microscopy. Eur J Cell Biol. 2021 Sep-Nov;100(7-8):151180. doi: 10.1016/j.ejcb.2021.151180. Epub 2021 Oct 4\n\nStained using ferrocyanide-reduced osmium + thiocarbohydrazide + osmium (OTO) method\n\nPurified mouse anti-GM130 was from BD biosciences.","image_width":"3269","image_height":"1397"}],"workflow_file":null,"grant_references":[{"funding_body":"Academy of Finland","code":"1331998","country":"Finland"}],"version_history":[],"title":"FIB-SEM dataset showing localization of a Golgi matrix protein GM130 in human hepatocellular carcinoma cell (Huh-7)","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-11849"}],"status":"REL","deposition_date":"2024-01-08","release_date":"2024-02-15","obsolete_date":null,"update_date":"2024-02-15","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":"Jokitalo E","author_orcid":"0000-0002-4159-6934"}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[{"name":"EMPIAR-11746"}],"citation":[{"authors":[{"name":"Belevich I","author_orcid":"0000-0003-2190-4909"},{"name":"Jokitalo E","author_orcid":"0000-0002-4159-6934"}],"editors":[],"published":false,"j_or_nj_citation":false,"title":"Localization of a Golgi matrix protein GM130 in human hepatocellular carcinoma cell (Huh-7)","volume":null,"country":"","first_page":null,"last_page":null,"year":null,"language":null,"doi":null,"pubmedid":null,"details":null,"book_chapter_title":null,"publisher":"","publication_location":"","journal":null,"journal_abbreviation":null,"issue":null,"preprint":null}],"dataset_size":"1.1 GB","experiment_type":"FIB-SEM","scale":"cell","entry_doi":"10.6019/EMPIAR-11849"}}