{"EMPIAR-10624":{"imagesets":[{"segmentations":[],"name":"Cryo soft X-ray tomography reconstruction of NIH-3T3 cells","directory":"data","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":3,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":100.0,"pixel_height":100.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Data name :20200311_tomo04_3DS30_man.mrc\nCollection date: 11/03/2020\nLocation: Mistral Beamline, Alba Synchrotron (Spain)\nSample: NIH-3T3 (CRL-1658)\nFluorophore: Mitotracker Red (CMXRos) exogenous administration\nFiducials: 100 nm Au Fiducial (BBI Solutions)\nSupport: Quantifoil on Au Finder grid (3 mm F2/2)\n\n520 eV; 25 nm Zoneplate; 984 * 974 Pixel; 10 * 10 * 10 nm Voxel size \n-65 to 65 degree rotation with steps of 1 degree (131 images). \n\nData is already normalized and deconvolved using the standard Mistral prep-processing pipeline\nAlignment of the Raw data done using IMOD, reconstruction done using tomo3D with 30 iterations of SIRT","image_width":"984","image_height":"974"},{"segmentations":[],"name":"Cryo Soft X-ray tomography of NIH-3T3 cells with Tetraspeck as correlative fiducial markers","directory":"data","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":1,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":100.0,"pixel_height":100.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Data name :20200312_tomo23_3DS30_man.mrc\nCollection date: 12/03/2020\nLocation: Mistral Beamline, Alba Synchrotron (Spain)\nSample: NIH-3T3 (CRL-1658)\nFluorophore: Mitotracker Red (CMXRos) exogenous administration\nFiducials: 100 nm Au Fiducial (BBI Solutions) and 200 nm Tetraspeck\nSupport: Quantifoil on Au Finder grid (3 mm F2/2)\n\n520 eV; 25 nm Zoneplate; 984 * 974 Pixel; 10 * 10 * 10 nm Voxel size \n-65 to 65 degree rotation with steps of 1 degree (131 images). \n\nData is already normalized and deconvolved using the standard Mistral prep-processing pipeline\nAlignment of the Raw data done using IMOD, reconstruction done using tomo3D with 30 iterations of SIRT","image_width":"984","image_height":"974"},{"segmentations":[],"name":"Cryo Soft X-ray tomography of Tetraspeck on Quantifoil","directory":"data","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":1,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":100.0,"pixel_height":100.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Data name :20200311_tomo03_3DS30_man.mrc\nCollection date: 11/03/2020\nLocation: Mistral Beamline, Alba Synchrotron (Spain)\nSample: Tetraspeck on quantifoil\nFiducials: 100 nm Au Fiducial (BBI Solutions)\nSupport: Quantifoil on Au Finder grid (3 mm F2/2)\n\n520 eV; 25 nm Zoneplate; 984 * 974 Pixel; 10 * 10 * 10 nm Voxel size \n-65 to 65 degree rotation with steps of 1 degree (131 images). \n\nData is already normalized and deconvolved using the standard Mistral prep-processing pipeline\nAlignment of the Raw data done using IMOD, reconstruction done using tomo3D with 30 iterations of SIRT","image_width":"984","image_height":"974"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"Cryo Soft X-ray data for tetraspeck correlation","principal_investigator":[{"author_orcid":"0000-0001-7626-5935","middle_name":null,"organization":"Mistral Beamline Alba Synchrotron","street":"Carrer de la Llum, 2- 26","town_or_city":"Cerdanyola del Valles","state_or_province":"Barcelona","post_or_zip":"08290","telephone":null,"fax":null,"first_name":"Eva","last_name":"Pereiro","email":"epereiro [at] cells.es","country":"Spain","entry":"EMPIAR-10624"}],"status":"REL","deposition_date":"2021-01-15","release_date":"2021-02-12","obsolete_date":null,"update_date":"2022-02-25","corresponding_author":{"author":{"author_orcid":"0000-0002-9395-8108","middle_name":null,"organization":"Mistral Beamline Alba Synchrotron","street":"Carrer de la Llum, 2- 26","town_or_city":"Cerdanyola del Valles","state_or_province":"Barcelona","post_or_zip":"08290","first_name":"Johannes","last_name":"Groen","country":"Spain"}},"authors":[{"author":{"name":"Groen J","author_orcid":"0000-0002-9395-8108"}},{"author":{"name":"Pereiro E","author_orcid":"0000-0001-7626-5935"}}],"cross_references":[],"biostudies_references":[{"name":"S-BSST576"}],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Okolo CA","author_orcid":"0000-0001-8779-8673"},{"name":"Kounatidis I","author_orcid":"0000-0001-9877-0457"},{"name":"Groen J","author_orcid":"0000-0002-9395-8108"},{"name":"Nahas KL","author_orcid":"0000-0003-3501-8473"},{"name":"Balint S","author_orcid":null},{"name":"Fish TM","author_orcid":"0000-0001-7125-4137"},{"name":"Koronfel MA","author_orcid":null},{"name":"Cortajarena AL","author_orcid":null},{"name":"Dobbie IM","author_orcid":"0000-0002-5531-5865"},{"name":"Pereiro E","author_orcid":"0000-0001-7626-5935"},{"name":"Harkiolaki M","author_orcid":"0000-0001-8091-9057"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Sample preparation strategies for efficient correlation of 3D SIM and soft X-ray tomography data at cryogenic temperatures","volume":"16","country":"","first_page":"2851","last_page":"2885","year":"2021","language":"English","doi":"10.1038/s41596-021-00522-4","pubmedid":"33990802","details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Nature protocols","journal_abbreviation":"Nat Protoc","issue":"6","preprint":false}],"dataset_size":"6.8 GB","experiment_type":"CLXM","scale":null,"entry_doi":"10.6019/EMPIAR-10624"}}