{"EMPIAR-13511":{"imagesets":[{"segmentations":[],"name":"33592 unaligned multi-frame EER movies of B. megaterium gas vesicles at 1.518 A per pixel","directory":"data/EMBL_Krios_data_RawMovies","category":"micrographs - multiframe","header_format":"EER","data_format":"EER","num_images_or_tilt_series":33592,"frames_per_image":1971,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.518,"pixel_height":1.518,"micrographs_file_pattern":"data/EMBL_Krios_data_RawMovies/*eer","picked_particles_file_pattern":"","picked_particles_directory":"","details":"33,592 movies collected on a Titan Krios G4 (Thermo Fisher Scientific) with a C-FEG source, using a Falcon4i detector in EER format. Acquired at EMBL Heidelberg on 29 July 2022 with the help of Wim Hagen.\nPixel size: 1.518 Å\nEER fractions per movie: 1,971\nDefocus range: 0.25 to 0.75 µm\nTotal exposure: 10 e⁻/Ų\n# Notes\nThis dataset covers the same grids and sample as described in Huber et al. (2023) Cell, but was acquired at a larger scale, newer microscope and coarser pixel size than the dataset used in that publication. The goal was to increase the amount of gas vesicles imaged to reconstruct the central seam. However, because of the large variation in diameter, even a dataset of this size did not provide an adequate amount of same-diameter gas vesicles for proper averaging. Subsequent samples were pressure-treated for homogenization (only small GVs survive), and led to much more useful data.\nThis dataset however was used by Flip Jansen in his Master's thesis, which investigated the overall morphology of B. megaterium gas vesicles through image analysis:\nJansen (2023), \"A Pipeline for Segmentation and Structural Feature Extraction in Cryo-EM Single Particle Analysis of Gas Vesicles\"\nhttps://resolver.tudelft.nl/uuid:1a9ca4cd-f4d8-4f2f-bac1-f0bd396232c6","image_width":"4096","image_height":"4096"},{"segmentations":[],"name":"Aligned movies of B. megaterium gas vesicles at 1.518 A per pixel","directory":"data/EMBL_Krios_data_MotionCorRelion_16bitMRC_4k","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":33592,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"16 BIT FLOAT","pixel_width":1.518,"pixel_height":1.518,"micrographs_file_pattern":"data/EMBL_Krios_data_MotionCorRelion_16bitMRC_4k/*mrc","picked_particles_file_pattern":"","picked_particles_directory":"","details":"EER micrographs, aligned with RELION 4, saved as 16 bit MRC.","image_width":"4096","image_height":"4096"},{"segmentations":[],"name":"Thumbnails of aligned movies of B. megaterium gas vesicles at 1.518 A per pixel","directory":"data/EMBL_Krios_data_MotionCorRelion_thumbnail","category":"micrographs - single frame","header_format":"JPEG","data_format":"JPEG","num_images_or_tilt_series":33592,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":null,"pixel_height":null,"micrographs_file_pattern":"data/EMBL_Krios_data_MotionCorRelion_thumbnail/*jpeg","picked_particles_file_pattern":"","picked_particles_directory":"","details":"JPEG thumbnails of aligned micrographs","image_width":"4096","image_height":"4096"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"33,592 raw cryo-EM images of B. megaterium gas vesicles at 1.518 A per pixel","principal_investigator":[{"author_orcid":"0000-0003-3721-5104","middle_name":"J","organization":"Department of Bionanoscience / TU Delft","street":"Van der Maasweg 9","town_or_city":"Delft","state_or_province":"Zuid-Holland","post_or_zip":"2629HZ","telephone":null,"fax":null,"first_name":"Arjen","last_name":"Jakobi","email":"a.jakobi [at] tudelft.nl","country":"Netherlands","entry":"EMPIAR-13511"}],"status":"REL","deposition_date":"2026-04-01","release_date":"2026-05-05","obsolete_date":null,"update_date":"2026-05-05","corresponding_author":{"author":{"author_orcid":"0000-0003-3721-5104","middle_name":"T","organization":"Department of Bionanoscience / TU Delft","street":"Van der Maasweg 9","town_or_city":"Delft","state_or_province":"Zuid-Holland","post_or_zip":"2629HZ","first_name":"Stefan","last_name":"Huber","country":"Netherlands"}},"authors":[{"author":{"name":"Huber ST","author_orcid":"0000-0003-3721-5104"}},{"author":{"name":"Jakobi AJ","author_orcid":"0000-0002-7761-2027"}}],"cross_references":["EMD-14238"],"biostudies_references":[],"idr_references":[],"empiar_references":[{"name":"EMPIAR-12228"}],"citation":[{"authors":[{"name":"Huber ST","author_orcid":"0000-0003-3721-5104"},{"name":"Terwiel D","author_orcid":null},{"name":"Evers WH","author_orcid":null},{"name":"Maresca D","author_orcid":null},{"name":"Jakobi AJ","author_orcid":"0000-0002-7761-2027"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Cryo-EM structure of gas vesicles for buoyancy-controlled motility","volume":"186","country":"","first_page":"975","last_page":"986.e13","year":"2023","language":"English","doi":"10.1016/j.cell.2023.01.041","pubmedid":"36868215","details":"33,592 movies collected on a Titan Krios G4 (Thermo Fisher Scientific) with a C-FEG source, using a Falcon4i detector in EER format. Acquired at EMBL Heidelberg on 29 July 2022 with the help of Wim Hagen.\n\n# Acquisition Parameters\nPixel size: 1.518 Å\nEER fractions per movie: 1,971\nDefocus range: 0.25 to 0.75 µm\nTotal exposure: 10 e⁻/Ų\n\n# Notes\nThis dataset covers the same grids and sample as described in Huber et al. (2023) Cell, but was acquired at a larger scale, newer microscope and coarser pixel size than the dataset used in that publication. The goal was to increase the amount of gas vesicles imaged to reconstruct the central seam. However, because of the large variation in diameter, even a dataset of this size did not provide an adequate amount of same-diameter gas vesicles for proper averaging. Subsequent samples were pressure-treated for homogenization (only small GVs survive), and led to much more useful data.\nThis dataset however was used by Flip Jansen in his Master's thesis, which investigated the overall morphology of B. megaterium gas vesicles through image analysis:\nJansen (2023), \"A Pipeline for Segmentation and Structural Feature Extraction in Cryo-EM Single Particle Analysis of Gas Vesicles\"\nhttps://resolver.tudelft.nl/uuid:1a9ca4cd-f4d8-4f2f-bac1-f0bd396232c6","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Cell","journal_abbreviation":"Cell","issue":"5","preprint":false}],"dataset_size":"16.7 TB","experiment_type":"EMDB","scale":"molecule","related_pdb_entries":["7r1c"],"entry_doi":"10.6019/EMPIAR-13511"}}