{"EMPIAR-11078":{"imagesets":[{"segmentations":[],"name":"Deconvoluted bin4 tomograms for visualization","directory":"data/bin4_deconvoluted_tomos_forvisualisation","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":20,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":13.68,"pixel_height":13.68,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Volumes reconstructed in IMOD were deconvoluted using tom_deconv.m:\nhttps://github.com/dtegunov/tom_deconv/blob/master/tom_deconv.m","image_width":"928","image_height":"928"},{"segmentations":[],"name":"CTF-corrected bin4 tomograms","directory":"data/bin4_CTFcorrected_tomos_usedinalignments","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":20,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":13.68,"pixel_height":13.68,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Volumes reconstructed in IMOD at bin4 using phase-flipping for CTF correction.","image_width":"928","image_height":"928"},{"segmentations":[],"name":"CTF-corrected bin2 tomograms","directory":"data/bin2_CTFcorrected_tomos_usedinalignments","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":19,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":6.84,"pixel_height":6.84,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Volumes reconstructed in IMOD at bin2 using phase-flipping for CTF correction.","image_width":"1856","image_height":"1856"},{"segmentations":[],"name":"Subtomograms at bin2","directory":"data/subtomograms_bin2","category":"subtomograms","header_format":"EM","data_format":"EM","num_images_or_tilt_series":2923,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":6.84,"pixel_height":6.84,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Subtomograms extracted from bin2 tomograms used in alignments and averaging. Each sub-directory contains the particles for a specific structure, namely:\nA/ (IFT-A)\nB/ (IFT-B)\nD/ (IFT-Dynein 1b)\nMTD-MIP/\nSleeve/\nStellate/\nY-link/","image_width":null,"image_height":null},{"segmentations":[],"name":"Aligned tilt series stacks","directory":"data/Tomo1","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":20,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED 16 BIT INTEGER","pixel_width":13.68,"pixel_height":13.68,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Drift-corrected, aligned tilt series for each tomogram in a single stack (.ali extension from IMOD)","image_width":"928","image_height":"928"},{"segmentations":[],"name":"Unaligned tilt series raw frames","directory":"data/Tomo1/raw_data/raw_frames","category":"micrographs - multiframe","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":20,"frames_per_image":10,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED 16 BIT INTEGER","pixel_width":3.42,"pixel_height":3.42,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Raw frames from Titan Krios (300 kV, Cs 2.7 mm) equipped with K2 direct electron detector in counting mode and energy filter. The number of frames is variable. In each of the 20 tomogram folders (Tomo1-Tomo20), there is:\nAligned tilt series (.ali file)\nraw_data/imod_metadata/ (.defocus, .tlt and .xf metadata files for reconstruction in IMOD)\nraw_data/mdocs/ (.mdoc files from SerialEM with data collection information)\nraw_data/raw_frames/ (raw frames for individual tilts in MRC format, compressed with bzip2)","image_width":"3838","image_height":"3710"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"In situ cryo-electron tomography of the C. reinhardtii ciliary transition zone","principal_investigator":[{"author_orcid":"0000-0002-0941-4387","middle_name":"D.","organization":"Biozentrum, University of Basel","street":"Spitalstrasse 41","town_or_city":"Basel","state_or_province":null,"post_or_zip":"4056","telephone":null,"fax":null,"first_name":"Benjamin","last_name":"Engel","email":"ben.engel [at] unibas.ch","country":"Switzerland","entry":"EMPIAR-11078"}],"status":"REL","deposition_date":"2022-06-23","release_date":"2022-08-12","obsolete_date":null,"update_date":"2022-08-12","corresponding_author":{"author":{"author_orcid":"0000-0003-4247-4303","middle_name":"Diogo","organization":"Biozentrum, University of Basel","street":"Spitalstrasse 41","town_or_city":"Basel","state_or_province":null,"post_or_zip":"4056","first_name":"Ricardo","last_name":"Righetto","country":"Switzerland"}},"authors":[{"author":{"name":"van den Hoek H","author_orcid":"0000-0003-4978-8516"}},{"author":{"name":"Klena N","author_orcid":"0000-0002-2631-2294"}},{"author":{"name":"Jordan MA","author_orcid":"0000-0001-6248-8863"}},{"author":{"name":"Alvarez Viar G","author_orcid":null}},{"author":{"name":"Righetto RD","author_orcid":"0000-0003-4247-4303"}},{"author":{"name":"Schaffer M","author_orcid":"0000-0001-8748-1748"}},{"author":{"name":"Erdmann PS","author_orcid":"0000-0001-8289-9133"}},{"author":{"name":"Wan W","author_orcid":"0000-0003-2497-3010"}},{"author":{"name":"Geimer S","author_orcid":"0000-0001-6095-9721"}},{"author":{"name":"Plitzko JM","author_orcid":"0000-0002-6402-8315"}},{"author":{"name":"Baumeister W","author_orcid":"0000-0001-8154-8809"}},{"author":{"name":"Pigino G","author_orcid":"0000-0002-2295-9568"}},{"author":{"name":"Hamel V","author_orcid":"0000-0001-5092-2343"}},{"author":{"name":"Guichard P","author_orcid":"0000-0002-0363-1049"}},{"author":{"name":"Engel BD","author_orcid":"0000-0002-0941-4387"}}],"cross_references":["EMD-15262"],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"van den Hoek H","author_orcid":"0000-0003-4978-8516"},{"name":"Klena N","author_orcid":"0000-0002-2631-2294"},{"name":"Jordan MA","author_orcid":"0000-0001-6248-8863"},{"name":"Alvarez Viar G","author_orcid":null},{"name":"Righetto RD","author_orcid":"0000-0003-4247-4303"},{"name":"Schaffer M","author_orcid":"0000-0001-8748-1748"},{"name":"Erdmann PS","author_orcid":"0000-0001-8289-9133"},{"name":"Wan W","author_orcid":"0000-0003-2497-3010"},{"name":"Geimer S","author_orcid":"0000-0001-6095-9721"},{"name":"Plitzko JM","author_orcid":"0000-0002-6402-8315"},{"name":"Baumeister W","author_orcid":"0000-0001-8154-8809"},{"name":"Pigino G","author_orcid":"0000-0002-2295-9568"},{"name":"Hamel V","author_orcid":"0000-0001-5092-2343"},{"name":"Guichard P","author_orcid":"0000-0002-0363-1049"},{"name":"Engel BD","author_orcid":"0000-0002-0941-4387"}],"editors":[{"name":" ","author_orcid":null}],"published":true,"j_or_nj_citation":true,"title":"In situ architecture of the ciliary base reveals the stepwise assembly of intraflagellar transport trains","volume":"377","country":"","first_page":"543","last_page":"548","year":"2022","language":"English","doi":"10.1126/science.abm6704","pubmedid":"35901159","details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Science (New York, N.Y.)","journal_abbreviation":"Science","issue":"6605","preprint":false}],"dataset_size":"302.0 GB","experiment_type":"EMDB","scale":"molecule","entry_doi":"10.6019/EMPIAR-11078"}}