Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (Optical tomography (phase contrast))
Bianco et al., 2023, Small Methods · Optical tomography (phase contrast)
SSBoundary
Key Organelles
nucleusvacuole/lysosome
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28 results filtered by organelle: nucleus filtered by metric: other
In this slice of the corpus, 28 dataset records match. FIB-SEM is the most common imaging family and nucleus is the organelle that appears most often with other as the most common metric family. The most common captured organelle pair is mitochondria:nucleus.
Card Tag Legend
ResResolution values are reported.
SSSample size is reported.
BoundaryWhole-cell boundary is confirmed.
Public DataReusable public data is known to exist.
BorderlineRecord has a caveat relative to the main corpus criteria.
HeLa
HeLa whole-cell dataset (Optical tomography (diffraction))
Cho et al., 2023, Analytical Chemistry · Optical tomography (diffraction)
ResSSBoundary
Key Organelles
nucleusautophagosome
Curation note: (nucleus + autophagosome, Fig 5C, originally thought we'd include Fig 7 but cells appear to be cut off)
Toxoplasma gondii
Toxoplasma gondii whole-cell dataset (Optical tomography (diffraction))
Koutsogiannis et al., 2023, Frontiers in Cellular and Infection Microbiology · Optical tomography (diffraction)
SSBoundary
Key Organelles
nucleus
Curation note: 1 WT, 2 cerS1 mutant
B lymphocyte
B lymphocyte whole-cell dataset (SXT)
Chen et al., 2022, Viruses · SXT
ResSSBoundary
Key Organelles
nucleusmitochondrialipid droplets
Curation note: true whole-cell reconstruction
INS-1E (R. norvegicus)
INS-1E (R. norvegicus) whole-cell dataset (SXT)
Loconte et al., 2022, Structure · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavesicles
Arabidopsis thaliana, mesophyll
Arabidopsis thaliana, mesophyll whole-cell dataset (FESEM)
Midorikawa et al., 2022, PNAS Nexus · FESEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: 3L, 3D
Brandtodinium nutricula
Brandtodinium nutricula whole-cell dataset (FIB-SEM)
Decelle et al., 2021, Environmental Microbiology · FIB-SEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: 3 free-living, 4 symbiotic
Plasmodium falciparum
Plasmodium falciparum whole-cell dataset (FIB-SEM)
Rudlaff et al., 2020, PLOS Pathogens · FIB-SEM
ResSSBoundaryData: Partial
Key Organelles
nucleusvacuole/lysosomecentrosome/basal body
Curation note: Some public data available.
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (FIB-SEM)
Wu et al., 2020, Structure · FIB-SEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: comparing 3 modalities on 1 cell, FIB-SEM produces the only "whole cell"
Arabidopsis thaliana, cortical root
Arabidopsis thaliana, cortical root whole-cell dataset (ET (cryo))
Cui et al., 2019, Nature Plants · ET (cryo)
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: 1 whole cell w multiple organelles; 3 whole-cell vacuole only
Candida utilis
Candida utilis whole-cell dataset (SXT)
Liu et al., 2018, Journal of Microscopy · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: 1 G1 and 1 budding
Danio rerio, neural progenitor cell
Danio rerio, neural progenitor cell whole-cell dataset (Fluorescence (AO-LLSM))
Liu et al., 2018, Journal of Microscopy · Fluorescence (AO-LLSM)
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: 1 of each cell type (see below); 3 time points for zebrafish neural progenitor
Danio rerio, lens cell
Danio rerio, lens cell whole-cell dataset (Fluorescence (AO-LLSM))
Liu et al., 2018, Journal of Microscopy · Fluorescence (AO-LLSM)
ResSSBoundary
Key Organelles
nucleusermitochondria
Danio rerio, skin cell
Danio rerio, skin cell whole-cell dataset (Fluorescence (AO-LLSM))
Liu et al., 2018, Journal of Microscopy · Fluorescence (AO-LLSM)
ResSSBoundary
Key Organelles
nucleusermitochondria
Danio rerio, retinal neuroepithelial cell
Danio rerio, retinal neuroepithelial cell whole-cell dataset (Fluorescence (AO-LLSM))
Liu et al., 2018, Journal of Microscopy · Fluorescence (AO-LLSM)
ResSSBoundary
Key Organelles
nucleusermitochondria
Trypanosoma brucei
Trypanosoma brucei whole-cell dataset (SBF-SEM)
Gluenz et al., 2015, Methods in Cell Biology · SBF-SEM
ResSSBoundary
Key Organelles
nucleusmitochondriavesicles
Curation note: Fig 9. original data
Danio rerio, "long process" cell
Danio rerio, "long process" cell whole-cell dataset (SEM-AT)
Wacker et al., 2015, Journal of Microscopy · SEM-AT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Danio rerio, "cogwheel" cell
Danio rerio, "cogwheel" cell whole-cell dataset (SEM-AT)
Wacker et al., 2015, Journal of Microscopy · SEM-AT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Danio rerio, thymus
Danio rerio, thymus whole-cell dataset (SEM-AT)
Wacker et al., 2015, Journal of Microscopy · SEM-AT
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: 1 thymus, 1 cytotoxic t cell, 1 adrenal medulla neutrophil, 1 ea of unknown cell types (cogwheel and longer process)
Danio rerio, cytotoxic T cell
Danio rerio, cytotoxic T cell whole-cell dataset (SEM-AT)
Wacker et al., 2015, Journal of Microscopy · SEM-AT
ResSSBoundary
Key Organelles
nucleusermitochondria
Danio rerio, adrenal medulla neutrophil
Danio rerio, adrenal medulla neutrophil whole-cell dataset (SEM-AT)
Wacker et al., 2015, Journal of Microscopy · SEM-AT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (STEM)
Murata et al., 2014, Ultramicroscopy · STEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
T cell
T cell whole-cell dataset (FIB-SEM)
Murphy et al., 2011, Journal of Structural Biology · FIB-SEM
ResSSBoundary
Key Organelles
nucleusmitochondria
Plasmodium falciparum
Plasmodium falciparum whole-cell dataset (ET (cryo))
Hanssen et al., 2010, Methods in Cell Biology · ET (cryo)
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Crithidia deanei
Crithidia deanei whole-cell dataset (FIB-SEM)
Motta et al., 2010, PLoS ONE · FIB-SEM
SSBoundary
Key Organelles
nucleusflagella/cilia
Curation note: "The description of events and timings in the C. deanei cell cycle were based on counts of 1000 cells."
Plasmodium falciparum
Plasmodium falciparum whole-cell dataset (STEM)
Hohmann-Marriott et al., 2009, Nature Methods · STEM
ResSSBoundary
Key Organelles
nucleusvacuole/lysosomelipid droplets
Trypanosoma cruzi
Trypanosoma cruzi whole-cell dataset (ssTEM)
Ferreira et al., 2008, Annals of the Brazilian Academy of Sciences · ssTEM
SSBoundary
Key Organelles
nucleusflagella/cilia
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (SXT)
Larabell et al., 2004, MBoC · SXT
ResSSBoundary
Key Organelles
vacuolelipid dropletnucleus
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Example Compare Summary
Moderate comparability; useful for targeted comparison with technical caveats.
Shared Fields
cell_types: Saccharomyces cerevisiaespecies: Saccharomyces cerevisiaeorganelles: nucleus, vacuole/lysosomeorganelle_pairs: nucleus:vacuole/lysosomemetric_families: othercomparator_classes: nonemodality_families: none
Key Differences
modalities: FIB-SEM, Optical tomography (phase contrast)sample_size_buckets: 1, 2-10public_data_statuses: noneboundary_confirmation: yes
Comparability Score:53 / 100
How It's Derived