{"EMPIAR-10998":{"imagesets":[{"segmentations":[],"name":"Micrographs of untilted lamellae from cryo-FIB milled S. cerevisiae cells","directory":"data/Micrographs","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":28,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.06,"pixel_height":1.06,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Micrographs were recorded as movies on a Titan Krios at 300 keV equipped with a K3 direct detector and an energy filter, with an exposure rate of 1 e-/Å2 and a total exposure of 30 e-/Å2.","image_width":"5760","image_height":"4092"},{"segmentations":[],"name":"Templates of S. cerevisiae 60S ribosomal subunits at different stages of maturation, used for 2D template matching","directory":"data/Templates","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":3,"frames_per_image":384,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.06,"pixel_height":1.06,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"3D density maps used as templates in 2D template matching to detect 60S ribosomal subunits in the 2D images of lamellae of S. cerevisiae cells. The density maps were generated with the cryo-EM simulator implemented in cisTEM.","image_width":"384","image_height":"384"},{"segmentations":[],"name":"Scaled maximum intensity projections of SNR values obtained by 2D template matching with the mature 60S template","directory":"data/Scaled_MIPs/Search_with_mature_60S","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":28,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.06,"pixel_height":1.06,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Maximum intensity projections (MIPs) of the observed SNR values, scaled by subtracting the average SNR, and dividing by the standard deviation of the SNR per pixel. The MIPs display peaks in places where ribosomal subunits were detected by 2D template matching. Peaks are associated with specific x,y locations, defocus and orientations of the targets that correspond with the matching template.","image_width":"5760","image_height":"4092"},{"segmentations":[],"name":"Scaled maximum intensity projections of SNR values obtained by 2D template matching with the LN60S template","directory":"data/Scaled_MIPs/Search_with_LN60S","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":28,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.06,"pixel_height":1.06,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Maximum intensity projections (MIPs) of the observed SNR values, scaled by subtracting the average SNR, and dividing by the standard deviation of the SNR per pixel. The MIPs display peaks in places where ribosomal subunits were detected by 2D template matching. Peaks are associated with specific x,y locations, defocus and orientations of the targets that correspond with the matching template.","image_width":"5760","image_height":"4092"},{"segmentations":[],"name":"Scaled maximum intensity projections of SNR values obtained by 2D template matching with the EN60S template","directory":"data/Scaled_MIPs/Search_with_EN60S","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":28,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.06,"pixel_height":1.06,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Maximum intensity projections (MIPs) of the observed SNR values, scaled by subtracting the average SNR, and dividing by the standard deviation of the SNR per pixel. The MIPs display peaks in places where ribosomal subunits were detected by 2D template matching. Peaks are associated with specific x,y locations, defocus and orientations of the targets that correspond with the matching template.","image_width":"5760","image_height":"4092"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"In situ single particle classification reveals distinct 60S maturation intermediates in cells","principal_investigator":[{"author_orcid":"0000-0002-1506-909X","middle_name":null,"organization":"University of Massachusetts Chan Medical School","street":"368 Plantation Street","town_or_city":"Worcester","state_or_province":"Massachusetts","post_or_zip":"01605","telephone":"+1-774-455-6682","fax":"+1-508-721-7027","first_name":"Nikolaus","last_name":"Grigorieff","email":"niko [at] grigorieff.org","country":"United States","entry":"EMPIAR-10998"}],"status":"REL","deposition_date":"2022-04-04","release_date":"2022-05-03","obsolete_date":null,"update_date":"2022-05-03","corresponding_author":{"author":{"author_orcid":"0000-0002-1506-909X","middle_name":null,"organization":"University of Massachusetts Chan Medical School","street":"368 Plantation Street","town_or_city":"Worcester","state_or_province":"Massachusetts","post_or_zip":"01605","first_name":"Nikolaus","last_name":"Grigorieff","country":"United States"}},"authors":[{"author":{"name":"Lucas BA","author_orcid":"0000-0001-9162-0421"}},{"author":{"name":"Zhang K","author_orcid":"0000-0002-3273-2797"}},{"author":{"name":"Loerch S","author_orcid":"0000-0002-1731-516X"}},{"author":{"name":"Grigorieff N","author_orcid":"0000-0002-1506-909X"}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Lucas BA","author_orcid":"0000-0001-9162-0421"},{"name":"Zhang K","author_orcid":"0000-0002-3273-2797"},{"name":"Loerch S","author_orcid":"0000-0002-1731-516X"},{"name":"Grigorieff N","author_orcid":"0000-0002-1506-909X"}],"editors":[],"published":false,"j_or_nj_citation":true,"title":"In situ single particle classification reveals distinct 60S maturation intermediates in cells","volume":null,"country":"United Kingdom","first_page":null,"last_page":null,"year":"2022","language":"English","doi":null,"pubmedid":null,"details":"28 2D images of lamellae produced by cryo-FIB milling Saccharomyces cerevisiae cells that were searched using 2D template matching, using Saccharomyces cerevisiae 60S ribosomal subunits as templates. Three different 60S templates were used, representing different stages of ribosome biogenesis.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"eLife","journal_abbreviation":"elife","issue":null,"preprint":false},{"authors":[{"name":"Lucas BA","author_orcid":"0000-0001-9162-0421"},{"name":"Zhang K","author_orcid":"0000-0002-3273-2797"},{"name":"Loerch S","author_orcid":"0000-0002-1731-516X"},{"name":"Grigorieff N","author_orcid":"0000-0002-1506-909X"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"<i>In situ</i> single particle classification reveals distinct 60S maturation intermediates in cells","volume":null,"country":"","first_page":null,"last_page":null,"year":"2022","language":"English","doi":"10.1101/2022.04.10.487797","pubmedid":null,"details":"28 2D images of lamellae produced by cryo-FIB milling Saccharomyces cerevisiae cells that were searched using 2D template matching, using Saccharomyces cerevisiae 60S ribosomal subunits as templates. Three different 60S templates were used, representing different stages of ribosome biogenesis.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"bioRxiv","journal_abbreviation":"","issue":null,"preprint":true}],"dataset_size":"10.5 GB","experiment_type":"Exception","scale":null,"entry_doi":"10.6019/EMPIAR-10998"}}