[{"dataset_id":"deshmukh-2024-092","title":"M. musculus, alpha cell whole-cell dataset (SXT)","paper_title":"Subcellular Feature-Based Classification of α and β Cells Using Soft X-ray Tomography.","year":2024,"source":"Cells","source_type":"paper","public_data_status":"none","species":"M. musculus","cell_type":"M. musculus, alpha cell","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":38.25,"axial_resolution_nm":38.25,"isotropic":true,"organelles":["nucleus","mitochondria","vesicles"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","density"],"sample_size":8,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"8 alpha, 7 beta","source_study_id":"Deshmukh 2024","publication_pmid":"38786091","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/38786091/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"deshmukh-2024-093","title":"M. musculus, beta cell whole-cell dataset (SXT)","paper_title":"Subcellular Feature-Based Classification of α and β Cells Using Soft X-ray Tomography.","year":2024,"source":"Cells","source_type":"paper","public_data_status":"none","species":"M. musculus","cell_type":"M. musculus, beta cell","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":38.25,"axial_resolution_nm":38.25,"isotropic":true,"organelles":["nucleus","mitochondria","vesicles"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","density"],"sample_size":7,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Deshmukh 2024","publication_pmid":"38786091","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/38786091/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"hair-2024-013","title":"Leishmania mexicana whole-cell dataset (SBF-SEM)","paper_title":"Whole cell reconstructions of Leishmania mexicana through the cell cycle.","year":2024,"source":"PLOS Pathogens","source_type":"paper","public_data_status":"partial","species":"Leishmania mexicana","cell_type":"Leishmania mexicana","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle; Other: Physiological relevance (in vitro vs sand fly-derived)","modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":5.0,"axial_resolution_nm":87.5,"isotropic":false,"organelles":["nucleus","er","mitochondria","vacuole/lysosome","lipid droplets","golgi","flagella/cilia"],"organelle_pairs":["er:flagella/cilia","er:golgi","er:lipid droplets","er:mitochondria","er:nucleus","er:vacuole/lysosome","flagella/cilia:golgi","flagella/cilia:lipid droplets","flagella/cilia:mitochondria","flagella/cilia:nucleus","flagella/cilia:vacuole/lysosome","golgi:lipid droplets","golgi:mitochondria","golgi:nucleus","golgi:vacuole/lysosome","lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","density"],"sample_size":51,"sample_size_bucket":"51+","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available. 41 in vitro, 10 sand fly-derived","source_study_id":"Hair 2024","publication_pmid":"38416776","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/38416776/","public_locator_urls":["https://zenodo.org/records/10652021","https://www.ebi.ac.uk/empiar/EMPIAR-11826/"],"included_status":"included"},{"dataset_id":"dang-2023-069","title":"Candida utilis whole-cell dataset (SXT)","paper_title":"Direct Visualization and Restoration of Metallic Ion-Induced Subcellular Ultrastructural Remodeling.","year":2023,"source":"ACS Nano","source_type":"paper","public_data_status":"none","species":"Candida utilis","cell_type":"Candida utilis","tissue_or_system":null,"comparator_class":"treatment","comparator_detail":"Stressors","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":30.0,"axial_resolution_nm":30.0,"isotropic":true,"organelles":["nucleus","mitochondria","vacuole/lysosome","lipid droplets"],"organelle_pairs":["lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","count","density","shape"],"sample_size":40,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Dang 2023","publication_pmid":"37156644","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37156644/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"feng-2023-038","title":"Chlorella pyrenoidosa whole-cell dataset (FIB-SEM)","paper_title":"FIB-SEM analysis on three-dimensional structures of growing organelles in wild Chlorella pyrenoidosa cells.","year":2023,"source":"Protoplasma","source_type":"paper","public_data_status":"none","species":"Chlorella pyrenoidosa","cell_type":"Chlorella pyrenoidosa","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State; Other: photosynthetic growth, cell size (increases across cell growth stages)","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":2.44,"axial_resolution_nm":8.0,"isotropic":false,"organelles":["nucleus","er","mitochondria","vacuole/lysosome","lipid droplets","chloroplast/plastid"],"organelle_pairs":["chloroplast/plastid:er","chloroplast/plastid:lipid droplets","chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:vacuole/lysosome","er:lipid droplets","er:mitochondria","er:nucleus","er:vacuole/lysosome","lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","shape"],"sample_size":9,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"3+ per growth stage; 20 imaged, 15 segmented, but 3 per stage chosen for reconstruction","source_study_id":"Feng 2023","publication_pmid":"36416933","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/36416933/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"jadav-2023-111","title":"H446 (lung cancer) whole-cell dataset (SBF-SEM)","paper_title":"Beyond the surface: Investigation of tumorsphere morphology using volume electron microscopy.","year":2023,"source":"Journal of Structural Biology","source_type":"paper","public_data_status":"none","species":"Human (cancer)","cell_type":"H446 (lung cancer)","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle; Methodology","modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":9.0,"axial_resolution_nm":27.0,"isotropic":false,"organelles":["nucleus","mitochondria","vesicles"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","count","surface_area","shape"],"sample_size":6,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Jadav 2023","publication_pmid":"37805154","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37805154/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"mocaer-2023-002","title":"Ensiculifera tyrrhenica whole-cell dataset (FIB-SEM)","paper_title":"Targeted volume correlative light and electron microscopy of an environmental marine microorganism.","year":2023,"source":"Journal of Cell Science","source_type":"paper","public_data_status":"partial","species":"Ensiculifera tyrrhenica","cell_type":"Ensiculifera tyrrhenica","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":8.0,"axial_resolution_nm":8.0,"isotropic":true,"organelles":["nucleus","mitochondria","chloroplast/plastid","golgi","flagella/cilia"],"organelle_pairs":["chloroplast/plastid:flagella/cilia","chloroplast/plastid:golgi","chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","flagella/cilia:golgi","flagella/cilia:mitochondria","flagella/cilia:nucleus","golgi:mitochondria","golgi:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available.","source_study_id":"Mocaer 2023","publication_pmid":"37455654","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37455654/","public_locator_urls":["https://github.com/mobie/environmentaldinoflagellate-vCLEM","https://www.ebi.ac.uk/empiar/EMPIAR-11399/"],"included_status":"included"},{"dataset_id":"wang-2023-103","title":"MCF10A (breast epithelia) whole-cell dataset (Fluorescence)","paper_title":"Spatial topology of organelle is a new breast cancer cell classifier.","year":2023,"source":"iScience","source_type":"paper","public_data_status":"none","species":"Human (differentiated)","cell_type":"MCF10A (breast epithelia)","tissue_or_system":null,"comparator_class":"methodology","comparator_detail":"Cell Type/Species; Methodology","modality":"Fluorescence","modality_family":"optical","lateral_resolution_nm":40.0,"axial_resolution_nm":200.0,"isotropic":false,"organelles":["nucleus","mitochondria","early endosome"],"organelle_pairs":["early endosome:mitochondria","early endosome:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","contacts","shape"],"sample_size":20,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Wang 2023","publication_pmid":"37519903","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37519903/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"wang-2023-112","title":"MDA231 (breast cancer) whole-cell dataset (Fluorescence)","paper_title":"Spatial topology of organelle is a new breast cancer cell classifier.","year":2023,"source":"iScience","source_type":"paper","public_data_status":"none","species":"Human (cancer)","cell_type":"MDA231 (breast cancer)","tissue_or_system":null,"comparator_class":"methodology","comparator_detail":"Cell Type/Species; Methodology","modality":"Fluorescence","modality_family":"optical","lateral_resolution_nm":40.0,"axial_resolution_nm":200.0,"isotropic":false,"organelles":["nucleus","mitochondria","early endosome"],"organelle_pairs":["early endosome:mitochondria","early endosome:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","contacts","shape"],"sample_size":20,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"10 cells per 4 cell lines per 2 culture conditions","source_study_id":"Wang 2023","publication_pmid":"37519903","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37519903/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"wang-2023-113","title":"T47D (breast cancer) whole-cell dataset (Fluorescence)","paper_title":"Spatial topology of organelle is a new breast cancer cell classifier.","year":2023,"source":"iScience","source_type":"paper","public_data_status":"none","species":"Human (cancer)","cell_type":"T47D (breast cancer)","tissue_or_system":null,"comparator_class":"methodology","comparator_detail":"Cell Type/Species; Methodology","modality":"Fluorescence","modality_family":"optical","lateral_resolution_nm":40.0,"axial_resolution_nm":200.0,"isotropic":false,"organelles":["nucleus","mitochondria","early endosome"],"organelle_pairs":["early endosome:mitochondria","early endosome:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","contacts","shape"],"sample_size":20,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Wang 2023","publication_pmid":"37519903","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37519903/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"wang-2023-114","title":"AU565 (breast cancer) whole-cell dataset (Fluorescence)","paper_title":"Spatial topology of organelle is a new breast cancer cell classifier.","year":2023,"source":"iScience","source_type":"paper","public_data_status":"none","species":"Human (cancer)","cell_type":"AU565 (breast cancer)","tissue_or_system":null,"comparator_class":"methodology","comparator_detail":"Cell Type/Species; Methodology","modality":"Fluorescence","modality_family":"optical","lateral_resolution_nm":40.0,"axial_resolution_nm":200.0,"isotropic":false,"organelles":["nucleus","mitochondria","early endosome"],"organelle_pairs":["early endosome:mitochondria","early endosome:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","contacts","shape"],"sample_size":20,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Wang 2023","publication_pmid":"37519903","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/37519903/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"burrell-2022-014","title":"Eimeria tenella whole-cell dataset (SBF-SEM)","paper_title":"Cellular electron tomography of the apical complex in the apicomplexan parasite Eimeria tenella shows a highly organised gateway for regulated secretion.","year":2022,"source":"PLoS Pathogens","source_type":"paper","public_data_status":"none","species":"Eimeria tenella","cell_type":"Eimeria tenella","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":150.0,"isotropic":null,"organelles":["nucleus","mitochondria"],"organelle_pairs":["mitochondria:nucleus"],"metric_families":["volume","volume_fraction","count"],"sample_size":25,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Burrell 2022","publication_pmid":"35816515","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35816515/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"johkura-2022-090","title":"R. norvegicus, hepatocyte whole-cell dataset (SBF-SEM)","paper_title":"Whole-cell observation of ZIO-stained Golgi apparatus in rat hepatocytes with serial block-face scanning electron microscope, SBF-SEM.","year":2022,"source":"Microscopy","source_type":"paper","public_data_status":"none","species":"R. norvegicus","cell_type":"R. norvegicus, hepatocyte","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species; Other","modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":10.0,"axial_resolution_nm":70.0,"isotropic":false,"organelles":["nucleus","golgi"],"organelle_pairs":["golgi:nucleus"],"metric_families":["volume","volume_fraction","count","surface_area"],"sample_size":8,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"4 single-nuc, 4 binuc","source_study_id":"Johkura 2022","publication_pmid":"35535544","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35535544/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"li-2022-087","title":"INS-1E (R. norvegicus) whole-cell dataset (SXT)","paper_title":"Auto-segmentation and time-dependent systematic analysis of mesoscale cellular structure in β-cells during insulin secretion.","year":2022,"source":"PLoS One.","source_type":"paper","public_data_status":"none","species":"Rodent","cell_type":"INS-1E (R. norvegicus)","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":60.0,"axial_resolution_nm":60.0,"isotropic":true,"organelles":["nucleus","mitochondria","vesicles"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","count","distance","density"],"sample_size":132,"sample_size_bucket":"51+","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"40 tomograms from SXT extended to 132. unsure if those original 40 are included in the 132. 3 for analysis","source_study_id":"Li 2022","publication_pmid":"35324950","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35324950/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"loconte-2022-088","title":"INS-1E (R. norvegicus) whole-cell dataset (SXT)","paper_title":"Soft X-ray tomography to map and quantify organelle interactions at the mesoscale.","year":2022,"source":"Structure","source_type":"paper","public_data_status":"none","species":"Rodent","cell_type":"INS-1E (R. norvegicus)","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":60.0,"axial_resolution_nm":60.0,"isotropic":true,"organelles":["nucleus","mitochondria","vesicles"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","count","distance","contacts","density","other"],"sample_size":56,"sample_size_bucket":"51+","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Loconte 2022","publication_pmid":"35148829","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35148829/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"midorikawa-2022-049","title":"Arabidopsis thaliana, mesophyll whole-cell dataset (FESEM)","paper_title":"Three-dimensional nanoscale analysis of light-dependent organelle changes in Arabidopsis mesophyll cells","year":2022,"source":"PNAS Nexus","source_type":"paper","public_data_status":"none","species":"Arabidopsis thaliana","cell_type":"Arabidopsis thaliana, mesophyll","tissue_or_system":null,"comparator_class":"other","comparator_detail":"Light/Dark","modality":"FESEM","modality_family":"EM","lateral_resolution_nm":10.0,"axial_resolution_nm":100.0,"isotropic":false,"organelles":["nucleus","mitochondria","vacuole/lysosome","chloroplast/plastid","peroxisome"],"organelle_pairs":["chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:peroxisome","chloroplast/plastid:vacuole/lysosome","mitochondria:nucleus","mitochondria:peroxisome","mitochondria:vacuole/lysosome","nucleus:peroxisome","nucleus:vacuole/lysosome","peroxisome:vacuole/lysosome"],"metric_families":["volume","volume_fraction","count","surface_area","distance","contacts","shape","other"],"sample_size":6,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"3L, 3D","source_study_id":"Midorikawa 2022","publication_pmid":"36712360","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/36712360/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"zechmann-2022-045","title":"Nicotiana tabacum whole-cell dataset (FIB-SEM)","paper_title":"Volumetric 3D reconstruction of plant leaf cells using SEM, ion milling, TEM, and serial sectioning.","year":2022,"source":"Planta","source_type":"paper","public_data_status":"none","species":"Nicotiana tabacum","cell_type":"Nicotiana tabacum","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":80.0,"isotropic":null,"organelles":["nucleus","mitochondria","vacuole/lysosome","chloroplast/plastid","peroxisome"],"organelle_pairs":["chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:peroxisome","chloroplast/plastid:vacuole/lysosome","mitochondria:nucleus","mitochondria:peroxisome","mitochondria:vacuole/lysosome","nucleus:peroxisome","nucleus:vacuole/lysosome","peroxisome:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Zechmann 2022","publication_pmid":"35522384","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35522384/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"zechmann-2022-046","title":"Nicotiana tabacum whole-cell dataset (ssTEM)","paper_title":"Volumetric 3D reconstruction of plant leaf cells using SEM, ion milling, TEM, and serial sectioning.","year":2022,"source":"Planta","source_type":"paper","public_data_status":"none","species":"Nicotiana tabacum","cell_type":"Nicotiana tabacum","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":80.0,"isotropic":null,"organelles":["nucleus","mitochondria","vacuole/lysosome","chloroplast/plastid","peroxisome"],"organelle_pairs":["chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:peroxisome","chloroplast/plastid:vacuole/lysosome","mitochondria:nucleus","mitochondria:peroxisome","mitochondria:vacuole/lysosome","nucleus:peroxisome","nucleus:vacuole/lysosome","peroxisome:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Zechmann 2022","publication_pmid":"35522384","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35522384/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"zechmann-2022-047","title":"Cucurbita pepo whole-cell dataset (FIB-SEM)","paper_title":"Volumetric 3D reconstruction of plant leaf cells using SEM, ion milling, TEM, and serial sectioning.","year":2022,"source":"Planta","source_type":"paper","public_data_status":"none","species":"Cucurbita pepo","cell_type":"Cucurbita pepo","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":80.0,"isotropic":null,"organelles":["nucleus","mitochondria","vacuole/lysosome","chloroplast/plastid","peroxisome"],"organelle_pairs":["chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:peroxisome","chloroplast/plastid:vacuole/lysosome","mitochondria:nucleus","mitochondria:peroxisome","mitochondria:vacuole/lysosome","nucleus:peroxisome","nucleus:vacuole/lysosome","peroxisome:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Zechmann 2022","publication_pmid":"35522384","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35522384/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"zechmann-2022-048","title":"Cucurbita pepo whole-cell dataset (ssTEM)","paper_title":"Volumetric 3D reconstruction of plant leaf cells using SEM, ion milling, TEM, and serial sectioning.","year":2022,"source":"Planta","source_type":"paper","public_data_status":"none","species":"Cucurbita pepo","cell_type":"Cucurbita pepo","tissue_or_system":null,"comparator_class":"cell type","comparator_detail":"Cell Type/Species","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":80.0,"isotropic":null,"organelles":["nucleus","mitochondria","vacuole/lysosome","chloroplast/plastid","peroxisome"],"organelle_pairs":["chloroplast/plastid:mitochondria","chloroplast/plastid:nucleus","chloroplast/plastid:peroxisome","chloroplast/plastid:vacuole/lysosome","mitochondria:nucleus","mitochondria:peroxisome","mitochondria:vacuole/lysosome","nucleus:peroxisome","nucleus:vacuole/lysosome","peroxisome:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Zechmann 2022","publication_pmid":"35522384","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/35522384/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"muller-2021-094","title":"M. musculus, beta cell whole-cell dataset (FIB-SEM)","paper_title":"3D FIB-SEM reconstruction of microtubule-organelle interaction in whole primary mouse β cells.","year":2021,"source":"Journal of Cell Biology","source_type":"paper","public_data_status":"partial","species":"M. musculus","cell_type":"M. musculus, beta cell","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State; Other: High glucose v low glucose","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":4.0,"axial_resolution_nm":4.0,"isotropic":true,"organelles":["nucleus","mitochondria","golgi","centrosome/basal body","flagella","centriole","axomene"],"organelle_pairs":["axomene:centriole","axomene:centrosome/basal body","axomene:flagella","axomene:golgi","axomene:mitochondria","axomene:nucleus","centriole:centrosome/basal body","centriole:flagella","centriole:golgi","centriole:mitochondria","centriole:nucleus","centrosome/basal body:flagella","centrosome/basal body:golgi","centrosome/basal body:mitochondria","centrosome/basal body:nucleus","flagella:golgi","flagella:mitochondria","flagella:nucleus","golgi:mitochondria","golgi:nucleus","mitochondria:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","contacts"],"sample_size":7,"sample_size_bucket":"2-10","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available. 3 low-glucose, 4 high-glucose","source_study_id":"Muller 2021","publication_pmid":"33326005","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/33326005/","public_locator_urls":["https://betaseg.github.io/","https://cloud.mpi-cbg.de/index.php/s/UJopHTRuh6f4wR8","https://sites.imagej.net/"],"included_status":"included"},{"dataset_id":"pollreisz-2020-104","title":"RPE (retinal epithelia) whole-cell dataset (SBF-SEM)","paper_title":"Atlas of Human Retinal Pigment Epithelium Organelles Significant for Clinical Imaging.","year":2020,"source":"Invest Ophthalmol Vis Sci.","source_type":"paper","public_data_status":"none","species":"Human","cell_type":"RPE (retinal epithelia)","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":5.0,"axial_resolution_nm":70.0,"isotropic":false,"organelles":["nucleus"],"organelle_pairs":[],"metric_families":["volume","volume_fraction","dimensions","count","distance"],"sample_size":17,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Pollreisz 2020","publication_pmid":"32648890","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/32648890/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"rudlaff-2020-023","title":"Plasmodium falciparum whole-cell dataset (FIB-SEM)","paper_title":"Three-dimensional ultrastructure of Plasmodium falciparum throughout cytokinesis.","year":2020,"source":"PLOS Pathogens","source_type":"paper","public_data_status":"partial","species":"Plasmodium falciparum","cell_type":"Plasmodium falciparum","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle; Stressors; Other: stressor - E64 protease inhibitor treatment","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":5.0,"axial_resolution_nm":20.0,"isotropic":false,"organelles":["nucleus","vacuole/lysosome","centrosome/basal body"],"organelle_pairs":["centrosome/basal body:nucleus","centrosome/basal body:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["count","contacts","other"],"sample_size":11,"sample_size_bucket":"11-50","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available.","source_study_id":"Rudlaff 2020","publication_pmid":"32511279","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/32511279/","public_locator_urls":["https://www.ebi.ac.uk/pdbe/","https://www.ebi.ac.uk/empiar/EMPIAR-10392/"],"included_status":"included"},{"dataset_id":"white-2020-089","title":"INS-1E (R. norvegicus) whole-cell dataset (SXT)","paper_title":"Visualizing subcellular rearrangements in intact β cells using soft x-ray tomography.","year":2020,"source":"Science Advances","source_type":"paper","public_data_status":"none","species":"Rodent","cell_type":"INS-1E (R. norvegicus)","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":60.0,"axial_resolution_nm":60.0,"isotropic":true,"organelles":["nucleus","mitochondria","lipid droplets","vesicles"],"organelle_pairs":["lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vesicles","mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","volume_fraction","dimensions","count","distance","density"],"sample_size":40,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"8 x 5 conditions","source_study_id":"White 2020","publication_pmid":"33298443","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/33298443/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"decelle-2019-028","title":"Phaeocystis cordata whole-cell dataset (FIB-SEM)","paper_title":"Algal Remodeling in a Ubiquitous Planktonic Photosymbiosis.","year":2019,"source":"Current Biology","source_type":"paper","public_data_status":"none","species":"Phaeocystis cordata","cell_type":"Phaeocystis cordata","tissue_or_system":null,"comparator_class":"metabolic condition","comparator_detail":"Metabolic State","modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":8.0,"axial_resolution_nm":8.0,"isotropic":true,"organelles":["nucleus","chloroplast/plastid"],"organelle_pairs":["chloroplast/plastid:nucleus"],"metric_families":["volume","count","surface_area"],"sample_size":18,"sample_size_bucket":"11-50","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"8 symbiotic, 10 free-living; 2 representative cells shown","source_study_id":"Decelle 2019","publication_pmid":"30827917","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/30827917/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"laundon-2019-072","title":"Salpingoeca rosetta whole-cell dataset (ssTEM)","paper_title":"The architecture of cell differentiation in choanoflagellates and sponge choanocytes.","year":2019,"source":"PLOS Biology","source_type":"paper","public_data_status":"partial","species":"Salpingoeca rosetta","cell_type":"Salpingoeca rosetta","tissue_or_system":null,"comparator_class":"developmental stage","comparator_detail":"Cell Type/Species; Other: Differentiation","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":110.0,"isotropic":null,"organelles":["nucleus","er","mitochondria","vacuole/lysosome","golgi","flagella/cilia","centrosome/basal body","vesicles"],"organelle_pairs":["centrosome/basal body:er","centrosome/basal body:flagella/cilia","centrosome/basal body:golgi","centrosome/basal body:mitochondria","centrosome/basal body:nucleus","centrosome/basal body:vacuole/lysosome","centrosome/basal body:vesicles","er:flagella/cilia","er:golgi","er:mitochondria","er:nucleus","er:vacuole/lysosome","er:vesicles","flagella/cilia:golgi","flagella/cilia:mitochondria","flagella/cilia:nucleus","flagella/cilia:vacuole/lysosome","flagella/cilia:vesicles","golgi:mitochondria","golgi:nucleus","golgi:vacuole/lysosome","golgi:vesicles","mitochondria:nucleus","mitochondria:vacuole/lysosome","mitochondria:vesicles","nucleus:vacuole/lysosome","nucleus:vesicles","vacuole/lysosome:vesicles"],"metric_families":["volume","volume_fraction","dimensions","count","distance","contacts","shape"],"sample_size":6,"sample_size_bucket":"2-10","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available. 3 colonial, 3 single","source_study_id":"Laundon 2019","publication_pmid":"30978201","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/30978201/","public_locator_urls":["https://doi.org/10.6084/m9.figshare.7346750.v2"],"included_status":"included"},{"dataset_id":"laundon-2019-073","title":"Oscarella carmela, choanocytes whole-cell dataset (ssTEM)","paper_title":"The architecture of cell differentiation in choanoflagellates and sponge choanocytes.","year":2019,"source":"PLOS Biology","source_type":"paper","public_data_status":"partial","species":"Oscarella carmela","cell_type":"Oscarella carmela, choanocytes","tissue_or_system":null,"comparator_class":"developmental stage","comparator_detail":"Cell Type/Species; Other: Differentiation","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":110.0,"isotropic":null,"organelles":["nucleus","er","mitochondria","vacuole/lysosome","golgi","flagella/cilia","centrosome/basal body"],"organelle_pairs":["centrosome/basal body:er","centrosome/basal body:flagella/cilia","centrosome/basal body:golgi","centrosome/basal body:mitochondria","centrosome/basal body:nucleus","centrosome/basal body:vacuole/lysosome","er:flagella/cilia","er:golgi","er:mitochondria","er:nucleus","er:vacuole/lysosome","flagella/cilia:golgi","flagella/cilia:mitochondria","flagella/cilia:nucleus","flagella/cilia:vacuole/lysosome","golgi:mitochondria","golgi:nucleus","golgi:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count","distance","contacts","shape"],"sample_size":5,"sample_size_bucket":"2-10","metadata_completeness_score":1.0,"whole_cell_boundary_confirmed":"yes","notes":"Some public data available.","source_study_id":"Laundon 2019","publication_pmid":"30978201","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/30978201/","public_locator_urls":["https://doi.org/10.6084/m9.figshare.7346750.v2"],"included_status":"included"},{"dataset_id":"hughes-2017-009","title":"Trypanosoma brucei whole-cell dataset (SBF-SEM)","paper_title":"Patterns of organelle ontogeny through a cell cycle revealed by whole-cell reconstructions using 3D electron microscopy.","year":2017,"source":"Journal of Cell Science","source_type":"paper","public_data_status":"none","species":"Trypanosoma brucei","cell_type":"Trypanosoma brucei","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle","modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":6.1,"axial_resolution_nm":100.0,"isotropic":false,"organelles":["nucleus","mitochondria","golgi","flagella/cilia","centrosome/basal body"],"organelle_pairs":["centrosome/basal body:flagella/cilia","centrosome/basal body:golgi","centrosome/basal body:mitochondria","centrosome/basal body:nucleus","flagella/cilia:golgi","flagella/cilia:mitochondria","flagella/cilia:nucleus","golgi:mitochondria","golgi:nucleus","mitochondria:nucleus"],"metric_families":["volume","dimensions","count","distance"],"sample_size":79,"sample_size_bucket":"51+","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"(different n's for each quant)","source_study_id":"Hughes 2017","publication_pmid":"28049718","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/28049718/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"oi-2017-044","title":"Oryza sativa, mesophyll whole-cell dataset (FIB-SEM)","paper_title":"Three-dimensional intracellular structure of a whole rice mesophyll cell observed with FIB-SEM.","year":2017,"source":"Annals of Botany","source_type":"paper","public_data_status":"none","species":"Oryza sativa","cell_type":"Oryza sativa, mesophyll","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":25.0,"axial_resolution_nm":50.0,"isotropic":false,"organelles":["nucleus","chloroplast/plastid"],"organelle_pairs":["chloroplast/plastid:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area"],"sample_size":3,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"1 visible 3D reconstruction, 2 addtl in supp movies (chloroplast counts)","source_study_id":"Oi 2017","publication_pmid":"28444369","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/28444369/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"feng-2016-074","title":"Penaeus monodon whole-cell dataset (SBF-SEM)","paper_title":"Three-dimensional reconstruction of black tiger prawn (Penaeus monodon) spermatozoa using serial block-face scanning electron microscopy.","year":2016,"source":"Journal of Morphology","source_type":"paper","public_data_status":"none","species":"Penaeus monodon","cell_type":"Penaeus monodon","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"SBF-SEM","modality_family":"EM","lateral_resolution_nm":8.7,"axial_resolution_nm":50.0,"isotropic":false,"organelles":["nucleus","mitochondria"],"organelle_pairs":["mitochondria:nucleus"],"metric_families":["volume","dimensions","count"],"sample_size":9,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"Randomly selected spermatozoa","source_study_id":"Feng 2016","publication_pmid":"26877112","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/26877112/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"girard-dias-2012-006","title":"Trypanosoma cruzi whole-cell dataset (ET (cryo))","paper_title":"On the ultrastructural organization of Trypanosoma cruzi using cryopreparation methods and electron tomography.","year":2012,"source":"Histochemistry and Cell Biology","source_type":"paper","public_data_status":"none","species":"Trypanosoma cruzi","cell_type":"Trypanosoma cruzi","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"ET (cryo)","modality_family":"EM","lateral_resolution_nm":null,"axial_resolution_nm":135.0,"isotropic":null,"organelles":["nucleus","vacuole/lysosome","flagella/cilia"],"organelle_pairs":["flagella/cilia:nucleus","flagella/cilia:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["count"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"(M&M mentions \"35 tomograms (appox. 25 from epimastigotes and 10 from amastigotes and epimastigotes)\"","source_study_id":"Girard-Dias 2012","publication_pmid":"22872316","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/22872316/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"medeiros-2012-011","title":"Plasmodium chaubadi whole-cell dataset (FIB-SEM)","paper_title":"Visualizing the 3D architecture of multiple erythrocytes infected with Plasmodium at nanoscale by focused ion beam-scanning electron microscopy.","year":2012,"source":"PLoS One","source_type":"paper","public_data_status":"none","species":"Plasmodium chaubadi","cell_type":"Plasmodium chaubadi","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"FIB-SEM","modality_family":"EM","lateral_resolution_nm":4.785,"axial_resolution_nm":4.785,"isotropic":true,"organelles":["nucleus","vacuole/lysosome"],"organelle_pairs":["nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","count","surface_area"],"sample_size":10,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"10 quantified (Table 1); 1 or 2 whole cell images","source_study_id":"Medeiros 2012","publication_pmid":"22432024","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/22432024/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"ramos-2011-007","title":"Trypanosoma cruzi whole-cell dataset (ssTEM)","paper_title":"Three-dimensional reconstruction of Trypanosoma cruzi epimastigotes and organelle distribution along the cell division cycle.","year":2011,"source":"Cytometry A","source_type":"paper","public_data_status":"none","species":"Trypanosoma cruzi","cell_type":"Trypanosoma cruzi","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":200.0,"axial_resolution_nm":200.0,"isotropic":true,"organelles":["nucleus","mitochondria","vesicles","flagella/cilia"],"organelle_pairs":["flagella/cilia:mitochondria","flagella/cilia:nucleus","flagella/cilia:vesicles","mitochondria:nucleus","mitochondria:vesicles","nucleus:vesicles"],"metric_families":["volume","count"],"sample_size":1,"sample_size_bucket":"1","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Ramos 2011","publication_pmid":"21567937","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/21567937/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"uchida-2011-062","title":"Saccharomyces cerevisiae whole-cell dataset (SXT)","paper_title":"Quantitative analysis of yeast internal architecture using soft X-ray tomography.","year":2011,"source":"Yeast","source_type":"paper","public_data_status":"none","species":"Saccharomyces cerevisiae","cell_type":"Saccharomyces cerevisiae","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle; Cell Type/Species; Other: haploid/diploid, cell cycle stages, daughter/mother, WT strains (supp)","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":50.0,"axial_resolution_nm":50.0,"isotropic":true,"organelles":["nucleus","mitochondria","vacuole/lysosome","lipid droplets"],"organelle_pairs":["lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","count","surface_area","density"],"sample_size":200,"sample_size_bucket":"51+","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Uchida 2011","publication_pmid":"21360734","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/21360734/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"noske-2008-095","title":"M. musculus, beta cell whole-cell dataset (ET (Cryo))","paper_title":"Expedited approaches to whole cell electron tomography and organelle mark-up in situ in high-pressure frozen pancreatic islets.","year":2008,"source":"Journal of Structural Biology","source_type":"paper","public_data_status":"none","species":"M. musculus","cell_type":"M. musculus, beta cell","tissue_or_system":null,"comparator_class":null,"comparator_detail":null,"modality":"ET (Cryo)","modality_family":"EM","lateral_resolution_nm":17.5,"axial_resolution_nm":17.5,"isotropic":true,"organelles":["nucleus","mitochondria","golgi","mvb"],"organelle_pairs":["golgi:mitochondria","golgi:mvb","golgi:nucleus","mitochondria:mvb","mitochondria:nucleus","mvb:nucleus"],"metric_families":["volume","volume_fraction","dimensions","count","surface_area","distance","contacts"],"sample_size":2,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":null,"source_study_id":"Noske 2008","publication_pmid":"18069000","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/18069000/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"parkinson-2008-053","title":"Schizosaccharomyces pombe whole-cell dataset (SXT)","paper_title":"Quantitative 3-D imaging of eukaryotic cells using soft X-ray tomography.","year":2008,"source":"Journal of Structural Biology","source_type":"paper","public_data_status":"none","species":"Schizosaccharomyces pombe","cell_type":"Schizosaccharomyces pombe","tissue_or_system":null,"comparator_class":"cell cycle","comparator_detail":"Cell Cycle","modality":"SXT","modality_family":"X-ray","lateral_resolution_nm":20.0,"axial_resolution_nm":20.0,"isotropic":true,"organelles":["nucleus","mitochondria","vacuole/lysosome"],"organelle_pairs":["mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","volume_fraction","dimensions","count"],"sample_size":4,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"1 early cc, 1 pre-division, 1 mother & 1 daughter (attached)","source_study_id":"Parkinson 2008","publication_pmid":"18387313","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/18387313/","public_locator_urls":[],"included_status":"included"},{"dataset_id":"perktold-2007-061","title":"Saccharomyces cerevisiae whole-cell dataset (ssTEM)","paper_title":"Organelle association visualized by three-dimensional ultrastructural imaging of the yeast cell","year":2007,"source":"FEMS Yeast Res","source_type":"paper","public_data_status":"none","species":"Saccharomyces cerevisiae","cell_type":"Saccharomyces cerevisiae","tissue_or_system":null,"comparator_class":"methodology","comparator_detail":"Methodology","modality":"ssTEM","modality_family":"EM","lateral_resolution_nm":30.0,"axial_resolution_nm":80.0,"isotropic":false,"organelles":["nucleus","er","mitochondria","vacuole/lysosome","lipid droplets"],"organelle_pairs":["er:lipid droplets","er:mitochondria","er:nucleus","er:vacuole/lysosome","lipid droplets:mitochondria","lipid droplets:nucleus","lipid droplets:vacuole/lysosome","mitochondria:nucleus","mitochondria:vacuole/lysosome","nucleus:vacuole/lysosome"],"metric_families":["volume","count","surface_area","distance","contacts"],"sample_size":2,"sample_size_bucket":"2-10","metadata_completeness_score":0.95,"whole_cell_boundary_confirmed":"yes","notes":"at least one chemically fixed and one cryofixed","source_study_id":"Perktold 2007","publication_pmid":"17419771","source_publication_url":"https://pubmed.ncbi.nlm.nih.gov/17419771/","public_locator_urls":[],"included_status":"included"}]