{"EMPIAR-12454":{"imagesets":[{"segmentations":[],"name":"Raw tilt-series of human macrophage cells infected with HIV-1","directory":"data/MDM-infected/raw_data","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":96,"frames_per_image":10,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":2.414,"pixel_height":2.414,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Each tilt series stack is ordered from lowest to highest tilt angle and contains already aligned tilt images (10 frames each aligned with alignframes on the fly in SerialEM). The mdoc metadata files are also provided.","image_width":"4096","image_height":"4096"},{"segmentations":[],"name":"Tilt cleaned, dose-filtered tilt-series of human macrophage cells infected with HIV-1","directory":"data/MDM-infected/input_stacks","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":96,"frames_per_image":10,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":2.414,"pixel_height":2.414,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Tilt cleaned (see TS_cleaning_MDM-inf.csv file) and dose-filtered tilt series. These stacks were used for tomogram reconstruction in IMOD and novaCTF. The relevant alignment files (.xf and .tlt) are provided in the alignment_files folder","image_width":"4096","image_height":"4096"},{"segmentations":[],"name":"Reconstructed tomograms of human macrophage cells infected with HIV-1 (4x binning and filtered with sirt-like filter)","directory":"data/MDM-infected/bin4_rec","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":96,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":9.656,"pixel_height":9.656,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Tomograms were reconstructed in IMOD with 4x binning and a sirt-like filter for better visualization. All tomograms have a z-height of 450 px (at 4x binning).","image_width":"1024","image_height":"1024"}],"workflow_file":null,"grant_references":[{"funding_body":"German Research Foundation (DFG)","code":"240245660","country":"Germany"}],"version_history":[],"title":"Cryo-ET dataset of FIB-milled HIV-1 infected human monocyte-derived macrophages","principal_investigator":[{"author_orcid":null,"middle_name":null,"organization":"Department of Mocelar Sociology, Max Planck Institute of Biophysics","street":null,"town_or_city":"Frankfurt am Main","state_or_province":"Hessen","post_or_zip":"60438","telephone":"+49 69 6303 3500","fax":null,"first_name":"Martin","last_name":"Beck","email":"Martin.Beck [at] biophys.mpg.de","country":"Germany","entry":"EMPIAR-12454"}],"status":"REL","deposition_date":"2024-09-25","release_date":"2025-04-03","obsolete_date":null,"update_date":"2025-04-03","corresponding_author":{"author":{"author_orcid":"0000-0002-7397-1321","middle_name":null,"organization":"Department of Mocelar Sociology, Max Planck Institute of Biophysics","street":"Max-von-Laue-Str. 3","town_or_city":"Frankfurt am Main","state_or_province":"Hessen","post_or_zip":"60438","first_name":"Martin","last_name":"Beck","country":"Germany"}},"authors":[{"author":{"name":"Kreysing JP","author_orcid":"0000-0002-4770-6313"}},{"author":{"name":"Welsch S","author_orcid":"0000-0002-6049-6664"}},{"author":{"name":"Turoňová B","author_orcid":"0000-0002-5457-4478"}},{"author":{"name":"Beck M","author_orcid":"0000-0002-7397-1321"}}],"cross_references":["EMD-51534","EMD-51533","EMD-51532","EMD-51531","EMD-51630","EMD-51628","EMD-51632","EMD-51627","EMD-51536","EMD-51631"],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Kreysing JP","author_orcid":"0000-0002-4770-6313"},{"name":"Heidari M","author_orcid":"0000-0002-8081-6602"},{"name":"Zila V","author_orcid":"0000-0003-2032-3600"},{"name":"Cruz-Leon S","author_orcid":"0000-0003-1256-2206"},{"name":"Obarska-Kosinska A","author_orcid":"0000-0001-7686-695X"},{"name":"Laketa V","author_orcid":"0000-0002-9472-2738"},{"name":"Rohleder L","author_orcid":"0009-0004-4624-3507"},{"name":"Welsch S","author_orcid":"0000-0002-6049-6664"},{"name":"Köfinger J","author_orcid":"0000-0001-8367-1077"},{"name":"Turoňová B","author_orcid":"0000-0002-5457-4478"},{"name":"Hummer G","author_orcid":"0000-0001-7768-746X"},{"name":"Kräuslich HG","author_orcid":"0000-0002-8756-329X"},{"name":"Beck M","author_orcid":"0000-0002-7397-1321"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Passage of the HIV capsid cracks the nuclear pore","volume":"188","country":"","first_page":"930","last_page":"943.e21","year":"2025","language":"English","doi":"10.1016/j.cell.2024.12.008","pubmedid":"39826544","details":"The tilt series stacks were obtained after motion correction of 10 frames and ordered from lowest to highest tilt angle. The data was collected using a dose-symmetric scheme starting from either +8 or -8 degree pre-tilt and covering a range from -60 to +60 degrees, with a tilt increment of 2 degrees.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Cell","journal_abbreviation":"Cell","issue":"4","preprint":false},{"authors":[{"name":"Kreysing JP","author_orcid":"0000-0002-4770-6313"},{"name":"Heidari M","author_orcid":"0000-0002-8081-6602"},{"name":"Zila V","author_orcid":"0000-0003-2032-3600"},{"name":"Cruz-Leon S","author_orcid":"0000-0003-1256-2206"},{"name":"Obarska-Kosinska A","author_orcid":"0000-0001-7686-695X"},{"name":"Laketa V","author_orcid":"0000-0002-9472-2738"},{"name":"Welsch S","author_orcid":"0000-0002-6049-6664"},{"name":"Köfinger J","author_orcid":"0000-0001-8367-1077"},{"name":"Turoňová B","author_orcid":"0000-0002-5457-4478"},{"name":"Hummer G","author_orcid":"0000-0001-7768-746X"},{"name":"Kräusslich HG","author_orcid":"0000-0002-8756-329X"},{"name":"Beck M","author_orcid":"0000-0002-7397-1321"}],"editors":[{"name":" ","author_orcid":null}],"published":true,"j_or_nj_citation":true,"title":"Passage of the HIV capsid cracks the nuclear pore","volume":null,"country":"","first_page":null,"last_page":null,"year":"2024","language":null,"doi":"10.1101/2024.04.23.590733","pubmedid":null,"details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"bioRxiv","journal_abbreviation":"","issue":null,"preprint":true}],"dataset_size":"560.6 GB","experiment_type":"EMDB","scale":"cell","entry_doi":"10.6019/EMPIAR-12454"}}