M. musculus, alpha cell
M. musculus, alpha cell whole-cell dataset (SXT)
Deshmukh et al., 2024, Cells · PMID 38786091 · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavesicles
Curation note: 8 alpha, 7 beta
Corpus
Search the Whole-Cell Imaging Corpus.
Filter the atlas, inspect records in card view, switch to table when you want a denser scan, and build a compare set from either view.
Use This Page
scanfilteropen recordscompare
Table view is best for scanning fast. Cards give more context. Compare selection now works in both views, and the drawer follows you until you clear it or open Compare.
Commonality Snapshot
A quick reading of the active result set. Click a trait to narrow the corpus to that subset; this is a frequency snapshot, not a quality ranking.
40 results filtered by organelle: nucleus filtered by metric: surface_area
In this slice of the corpus, 40 dataset records match. FIB-SEM is the most common imaging family and nucleus is the organelle that appears most often with surface_area as the most common metric family. The most common captured organelle pair is mitochondria:nucleus.
Card Tag Legend
ResThree-dimensional voxel size is reported.
SSSample size is reported.
BoundaryWhole-cell boundary confirmation is present.
Public DataA reusable public-data locator is known to exist.
BorderlineRecord has a caveat relative to the main corpus criteria.
M. musculus, beta cell
M. musculus, beta cell whole-cell dataset (SXT)
Deshmukh et al., 2024, Cells · PMID 38786091 · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavesicles
Leishmania mexicana
Leishmania mexicana whole-cell dataset (SBF-SEM)
Hair et al., 2024, PLOS Pathogens · PMID 38416776 · SBF-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusermitochondria
Curation note: Some public data available. 41 in vitro, 10 sand fly-derived
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (Fluorescence)
Kichuk et al., 2024, Cell Reports Methods · PMID 38232737 · Fluorescence
ResSSBoundary
Key Organelles
nucleusermitochondria
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (Optical tomography (phase contrast))
Bianco et al., 2023, Small Methods · PMID 37670547 · Optical tomography (phase contrast)
SSBoundary
Key Organelles
nucleusvacuole/lysosome
Sanguina nivaloides
Sanguina nivaloides whole-cell dataset (FIB-SEM)
Ezzedine et al., 2023, Nature Communications · PMID 37980360 · FIB-SEM
ResSSBoundaryPublic Data: Complete
Key Organelles
nucleusmitochondrialipid droplets
Curation note: Public data available. 1 chemically fixed, 1 cryo-fixed
Chlorella pyrenoidosa
Chlorella pyrenoidosa whole-cell dataset (FIB-SEM)
Feng et al., 2023, Protoplasma · PMID 36416933 · FIB-SEM
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: 3+ per growth stage; 20 imaged, 15 segmented, but 3 per stage chosen for reconstruction
H446 (lung cancer)
H446 (lung cancer) whole-cell dataset (SBF-SEM)
Jadav et al., 2023, Journal of Structural Biology · PMID 37805154 · SBF-SEM
ResSSBoundary
Key Organelles
nucleusmitochondriavesicles
Toxoplasma gondii
Toxoplasma gondii whole-cell dataset (Optical tomography (diffraction))
Koutsogiannis et al., 2023, Frontiers in Cellular and Infection Microbiology · PMID 37600951 · Optical tomography (diffraction)
SSBoundary
Key Organelles
nucleus
Curation note: 1 WT, 2 cerS1 mutant
MCF10A (breast epithelia)
MCF10A (breast epithelia) whole-cell dataset (Fluorescence)
Wang et al., 2023, iScience · PMID 37519903 · Fluorescence
ResSSBoundary
Key Organelles
nucleusmitochondriaearly endosome
MDA231 (breast cancer)
MDA231 (breast cancer) whole-cell dataset (Fluorescence)
Wang et al., 2023, iScience · PMID 37519903 · Fluorescence
ResSSBoundary
Key Organelles
nucleusmitochondriaearly endosome
Curation note: 10 cells per 4 cell lines per 2 culture conditions
T47D (breast cancer)
T47D (breast cancer) whole-cell dataset (Fluorescence)
Wang et al., 2023, iScience · PMID 37519903 · Fluorescence
ResSSBoundary
Key Organelles
nucleusmitochondriaearly endosome
AU565 (breast cancer)
AU565 (breast cancer) whole-cell dataset (Fluorescence)
Wang et al., 2023, iScience · PMID 37519903 · Fluorescence
ResSSBoundary
Key Organelles
nucleusmitochondriaearly endosome
R. norvegicus, hepatocyte
R. norvegicus, hepatocyte whole-cell dataset (SBF-SEM)
Johkura et al., 2022, Microscopy · PMID 35535544 · SBF-SEM
ResSSBoundary
Key Organelles
nucleusgolgi
Curation note: 4 single-nuc, 4 binuc
Arabidopsis thaliana, mesophyll
Arabidopsis thaliana, mesophyll whole-cell dataset (FESEM)
Midorikawa et al., 2022, PNAS Nexus · PMID 36712360 · FESEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: 3L, 3D
Nicotiana tabacum
Nicotiana tabacum whole-cell dataset (FIB-SEM)
Zechmann et al., 2022, Planta · PMID 35522384 · FIB-SEM
SSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Nicotiana tabacum
Nicotiana tabacum whole-cell dataset (ssTEM)
Zechmann et al., 2022, Planta · PMID 35522384 · ssTEM
SSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Cucurbita pepo
Cucurbita pepo whole-cell dataset (FIB-SEM)
Zechmann et al., 2022, Planta · PMID 35522384 · FIB-SEM
SSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Cucurbita pepo
Cucurbita pepo whole-cell dataset (ssTEM)
Zechmann et al., 2022, Planta · PMID 35522384 · ssTEM
SSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Brandtodinium nutricula
Brandtodinium nutricula whole-cell dataset (FIB-SEM)
Decelle et al., 2021, Environmental Microbiology · PMID 34499794 · FIB-SEM
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: 3 free-living, 4 symbiotic
M. musculus, beta cell
M. musculus, beta cell whole-cell dataset (FIB-SEM)
Muller et al., 2021, Journal of Cell Biology · PMID 33326005 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriagolgi
Curation note: Some public data available. 3 low-glucose, 4 high-glucose
Micromonas
Micromonas whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available. 3 cells per species
Emiliana
Emiliana whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Symbiodinium
Symbiodinium whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Galdieria
Galdieria whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Phaeodactylum
Phaeodactylum whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Nannochloropsis
Nannochloropsis whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Pelagomonas
Pelagomonas whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, Nature Communications · PMID 33594064 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriachloroplast/plastid
Curation note: Some public data available.
Phaeocystis cordata
Phaeocystis cordata whole-cell dataset (FIB-SEM)
Uwizeye et al., 2021, PNAS · PMID 34215695 · FIB-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: Some public data available. 20 free-living + 7 symbiotic (w/ Â and w/o host Acantharia (radiolarian protozoa, marine microplankton))
Phaeocystis cordata
Phaeocystis cordata whole-cell dataset (FIB-SEM)
Decelle et al., 2019, Current Biology · PMID 30827917 · FIB-SEM
ResSSBoundary
Key Organelles
nucleuschloroplast/plastid
Curation note: 8 symbiotic, 10 free-living; 2 representative cells shown
Oryza sativa, mesophyll
Oryza sativa, mesophyll whole-cell dataset (FIB-SEM)
Oi et al., 2017, Annals of Botany · PMID 28444369 · FIB-SEM
ResSSBoundary
Key Organelles
nucleuschloroplast/plastid
Curation note: 1 visible 3D reconstruction, 2 addtl in supp movies (chloroplast counts)
Plasmodium falciparum
Plasmodium falciparum whole-cell dataset (SBF-SEM)
Sakaguchi et al., 2016, Journal of Structural Biology · PMID 26772147 · SBF-SEM
ResSSBoundaryPublic Data: Partial
Key Organelles
nucleusmitochondriavacuole/lysosome
Curation note: Some public data available. 22 iRBCs, as well as 10 non-iRBCs which don't count becase they don't have organelles
hESC (embryonic)
hESC (embryonic) whole-cell dataset (SXT)
Niclis et al., 2015, J Royal Society Interface · PMID 26063819 · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
hASC (adipose-derived)
hASC (adipose-derived) whole-cell dataset (SXT)
Niclis et al., 2015, J Royal Society Interface · PMID 26063819 · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
Plasmodium chaubadi
Plasmodium chaubadi whole-cell dataset (FIB-SEM)
Medeiros et al., 2012, PLoS One · PMID 22432024 · FIB-SEM
ResSSBoundary
Key Organelles
nucleusvacuole/lysosome
Curation note: 10 quantified (Table 1); 1 or 2 whole cell images
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (SXT)
Uchida et al., 2011, Yeast · PMID 21360734 · SXT
ResSSBoundary
Key Organelles
nucleusmitochondriavacuole/lysosome
MNT-1 (melanoma)
MNT-1 (melanoma) whole-cell dataset (FIB-SEM (IA-SEM))
Heymann et al., 2009, Journal of Structural Biology · PMID 19116171 · FIB-SEM (IA-SEM)
ResSSBoundary
Key Organelles
nucleusermitochondria
M. musculus, beta cell
M. musculus, beta cell whole-cell dataset (ET (Cryo))
Noske et al., 2008, Journal of Structural Biology · PMID 18069000 · ET (Cryo)
ResSSBoundary
Key Organelles
nucleusmitochondriagolgi
Ostreococcus tauri
Ostreococcus tauri whole-cell dataset (ET (cryo))
Henderson et al., 2007, PLoS One · PMID 17710148 · ET (cryo)
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: 10 (6 best cells used for quantitation) (52 imaged total); 23 dark-to-light transition; 29 light-to-dark transition;
Saccharomyces cerevisiae
Saccharomyces cerevisiae whole-cell dataset (ssTEM)
Perktold et al., 2007, FEMS Yeast Res · PMID 17419771 · ssTEM
ResSSBoundary
Key Organelles
nucleusermitochondria
Curation note: at least one chemically fixed and one cryofixed
Compare Mode Preview
Comparison Summary
Moderate comparability; useful for targeted comparison with technical caveats.
This selection includes multiple dataset records from the same paper: Deshmukh 2024. Treat the result as an within-study alignment check, not independent cross-study validation.
Shared Fields
Cell Type: noneSpecies: M. musculusOrganelles: mitochondria, nucleus, vesiclesDerived Organelle Pairs: mitochondria:nucleus, mitochondria:vesicles, nucleus:vesiclesMetric Families: count, density, dimensions, surface_area, volume, volume_fractionComparator / Condition: cell typeModality Family: X-ray
Key Differences
Modality: SXTSample Size Band: 2-10Public Data Status: noneBoundary Confirmation: yes
Comparability Score:70 / 100
How It's Derived