{"EMPIAR-10922":{"imagesets":[{"segmentations":[],"name":"Reconstructed 4x binned tomograms of thalamus neurons.","directory":"data/TS_01-54_thal_bin4","category":"reconstructed volumes","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":60,"frames_per_image":10,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":21.8,"pixel_height":21.8,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Tilt-series were filtered according to the cumulative radiation dose (Grant and Grigorieff, 2015) and aligned on the basis of the patch tracking algorithm using the IMOD ETOMO package (Kremer et al., 1996). Tomograms were reconstructed from aligned stacks using weighted back-projection in IMOD. Tomograms were further 4x binned, resulting in pixel sizes of 21.8 Å. Tomograms were denoised by edge enhancing diffusion (bnad command in Bsoft (Heymann et al., 2008)).","image_width":"928","image_height":"928"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"Cryo-electron tomographs of mouse thalamus neurons","principal_investigator":[{"author_orcid":"0000-0002-1594-2821","middle_name":null,"organization":"National Heart Lung and Blood Institute, National Institute of Health, US","street":"Center Drive","town_or_city":"Bethesda","state_or_province":"Maryland","post_or_zip":"20892","telephone":null,"fax":null,"first_name":"Naoko","last_name":"Mizuno","email":"naoko.mizuno [at] nih.gov","country":"United States","entry":"EMPIAR-10922"}],"status":"REL","deposition_date":"2022-01-10","release_date":"2022-03-04","obsolete_date":null,"update_date":"2022-10-10","corresponding_author":{"author":{"author_orcid":"0000-0002-4609-2719","middle_name":null,"organization":"National Hearth Lung and Blood Institute, National Institute of Health US","street":"Center Drive","town_or_city":"Bethesda","state_or_province":"Maryland","post_or_zip":"20892","first_name":"Hana","last_name":"Nedozralova","country":"United States"}},"authors":[{"author":{"name":"Nedozralova H","author_orcid":"0000-0002-4609-2719"}},{"author":{"name":"Basnet N","author_orcid":"0000-0001-6700-1241"}},{"author":{"name":"Ibiricu I","author_orcid":null}},{"author":{"name":"Bodakuntla S","author_orcid":"0000-0002-0448-7683"}},{"author":{"name":"Biertümpfel C","author_orcid":"0000-0002-7528-6547"}},{"author":{"name":"Mizuno N","author_orcid":"0000-0002-1594-2821"}}],"cross_references":["EMD-25486","EMD-25485"],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Nedozralova H","author_orcid":"0000-0002-4609-2719"},{"name":"Basnet N","author_orcid":"0000-0001-6700-1241"},{"name":"Ibiricu I","author_orcid":null},{"name":"Bodakuntla S","author_orcid":"0000-0002-0448-7683"},{"name":"Biertümpfel C","author_orcid":"0000-0002-7528-6547"},{"name":"Mizuno N","author_orcid":"0000-0002-1594-2821"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"In situ cryo-electron tomography reveals local cellular machineries for axon branch development","volume":"221","country":"","first_page":null,"last_page":null,"year":"2022","language":"English","doi":"10.1083/jcb.202106086","pubmedid":"35262630","details":"Tomographic reconstruction of mouse thalamic axons. Reconstructed bin4 tomograms. Volumes were filtered using the bandpass filter. Tomograms were reconstructed in IMOD by weighted back projection.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"The Journal of cell biology","journal_abbreviation":"J Cell Biol","issue":"4","preprint":false},{"authors":[{"name":"Nedozralova H","author_orcid":"0000-0002-4609-2719"},{"name":"Basnet N","author_orcid":"0000-0001-6700-1241"},{"name":"Ibiricu I","author_orcid":null},{"name":"Bodakuntla S","author_orcid":"0000-0002-0448-7683"},{"name":"Biertümpfel C","author_orcid":"0000-0002-7528-6547"},{"name":"Mizuno N","author_orcid":"0000-0002-1594-2821"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"In situ cryo-electron tomography reveals local cellular machineries for axon branch development","volume":null,"country":"","first_page":null,"last_page":null,"year":"2021","language":"English","doi":"10.1101/2021.07.28.454169","pubmedid":null,"details":"Tomographic reconstruction of mouse thalamic axons. Reconstructed bin4 tomograms. Volumes were filtered using the bandpass filter. Tomograms were reconstructed in IMOD by weighted back projection.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"bioRxiv","journal_abbreviation":"","issue":null,"preprint":true}],"dataset_size":"71.1 GB","experiment_type":"EMDB","scale":"cell","entry_doi":"10.6019/EMPIAR-10922"}}