{"EMPIAR-12041":{"imagesets":[{"segmentations":[],"name":"FIB-SEM dataset of WT mouse hippocampal neurons (DG region)","directory":"data/WT_5nm_1950slices","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1950,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":50.0,"pixel_height":50.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"FIB milling step 5 nm. Images were acquired with pixel size 2.5 nm, xy binned by 2 resulting in voxel size 5x5x5 nm. \nThe SEM (Zeiss Crossbeam 540) was operated at an accelerating voltage of 1.4 kV with 0.3 nA current. The ESB detector was used with a grid voltage of 1000 V. Ion beam milling was performed at an accelerating voltage of 30 kV and current of 700 pA.\nImages were aligned, grey level adjusted and converted to 8 bit using Zeiss Atlas 5 software.","image_width":"2205","image_height":"592"},{"segmentations":[],"name":"FIB-SEM dataset of hippocampal neurons (DG region) from FAM92A1 KO mouse","directory":"data/HO_5_nm_894slices","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":894,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":50.0,"pixel_height":50.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"FIB milling step 5 nm. Images were acquired with pixel size 2.5 nm, xy binned by 2 resulting in voxel size 5x5x5 nm. \nThe SEM (Zeiss Crossbeam 540) was operated at an accelerating voltage of 1.4 kV with 0.3 nA current. The EsB detector was used with a grid voltage of 1000 V. Ion beam milling was performed at an accelerating voltage of 30 kV and current of 700 pA.\nImages were aligned, grey level adjusted and converted to 8 bit using Zeiss Atlas 5 software.","image_width":"5143","image_height":"816"},{"segmentations":[],"name":"raw FIB-SEM dataset of WT mouse hippocampal neurons (DG region)","directory":"data/raw_data/WT1_raw_data_Zeiss_crossbeam_540","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1999,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":25.0,"pixel_height":25.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Raw images from WT-1 sample (10.10.2022) acquired with Zeiss crossbeam 540. Images were acquired with pixel size 2.5 nm, milling thickness 5 nm. The SEM was operated at an accelerating voltage of 1.4 kV with 0.3 nA current. The ESB detector was used with a grid voltage of 1000 V. Ion beam milling was performed at an accelerating voltage of 30 kV and current of 700 pA. Both ESB and Inlens images were collected.","image_width":"8768","image_height":"8768"},{"segmentations":[],"name":"raw FIB-SEM dataset of hippocampal neurons (DG region) from FAM92A1 KO mouse","directory":"data/raw_data/HO1_raw_data_Zeiss_crossbeam_540","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":903,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":25.0,"pixel_height":25.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"Raw images from HO-1 sample (10.10.2022) acquired with Zeiss crossbeam 540. Images were acquired with pixel size 2.5 nm, milling thickness 5 nm. The SEM was operated at an accelerating voltage of 1.4 kV with 0.3 nA current. The ESB detector was used with a grid voltage of 1000 V. Ion beam milling was performed at an accelerating voltage of 30 kV and current of 700 pA. Both ESB and Inlens images were collected.","image_width":"14976","image_height":"14976"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"FIB-SEM datasets of hippocampal neurons from WT and FAM92A1 knockout mice","principal_investigator":[{"author_orcid":"0000-0002-4159-6934","middle_name":"Sofia","organization":"University of Helsinki","street":"Viikinkaari 9 C","town_or_city":"Helsinki","state_or_province":null,"post_or_zip":"00790","telephone":"358504696799","fax":null,"first_name":"Eija","last_name":"Jokitalo","email":"eija.jokitalo [at] helsinki.fi","country":"Finland","entry":"EMPIAR-12041"}],"status":"REL","deposition_date":"2023-12-22","release_date":"2024-12-02","obsolete_date":null,"update_date":"2024-12-02","corresponding_author":{"author":{"author_orcid":"0000-0003-3862-9237","middle_name":null,"organization":"Electron Microscopy Unit, Helsinki Institute of Life Science, Institute of Biotechnology, University of Helsinki","street":"Viikinkaari 9","town_or_city":"Helsinki","state_or_province":null,"post_or_zip":"00790","first_name":"Helena","last_name":"Vihinen","country":"Finland"}},"authors":[{"author":{"name":"Vihinen H","author_orcid":"0000-0003-3862-9237"}},{"author":{"name":"Jokitalo E","author_orcid":"0000-0002-4159-6934"}},{"author":{"name":"Wang L","author_orcid":"0000-0003-4988-2190"}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Wang L","author_orcid":null},{"name":"Yang Z","author_orcid":null},{"name":"Satoshi F","author_orcid":"0000-0001-9925-5131"},{"name":"Prasanna X","author_orcid":"0000-0003-2270-5493"},{"name":"Yan Z","author_orcid":null},{"name":"Vihinen H","author_orcid":"0000-0003-3862-9237"},{"name":"Chen Y","author_orcid":null},{"name":"Zhao Y","author_orcid":null},{"name":"He X","author_orcid":null},{"name":"Bu Q","author_orcid":null},{"name":"Li H","author_orcid":null},{"name":"Zhao Y","author_orcid":null},{"name":"Jiang L","author_orcid":null},{"name":"Qin F","author_orcid":null},{"name":"Dai Y","author_orcid":null},{"name":"Zhang N","author_orcid":null},{"name":"Qin M","author_orcid":null},{"name":"Kuang W","author_orcid":null},{"name":"Zhao Y","author_orcid":"0000-0002-5168-5842"},{"name":"Jokitalo E","author_orcid":"0000-0002-4159-6934"},{"name":"Vattulainen I","author_orcid":"0000-0001-7408-3214"},{"name":"Kajander T","author_orcid":"0000-0002-5094-227X"},{"name":"Zhao H","author_orcid":"0000-0002-1606-5621"},{"name":"Cen X","author_orcid":"0000-0002-9760-5238"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Membrane remodeling by FAM92A1 during brain development regulates neuronal morphology, synaptic function, and cognition","volume":"15","country":"","first_page":null,"last_page":null,"year":"2024","language":"English","doi":"10.1038/s41467-024-50565-w","pubmedid":"39043703","details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Nature communications","journal_abbreviation":"Nat Commun","issue":"1","preprint":false}],"dataset_size":"73.6 GB","experiment_type":"FIB-SEM","scale":"cell","entry_doi":"10.6019/EMPIAR-12041"}}