2D+Time Datasets

Mouse hematopoietic stem cells in hydrogel microwells

Dr. H. Blau, Baxter Laboratory for Stem Cell Biology, Stanford University, USA

Training dataset: http://data.celltrackingchallenge.net/training-datasets/BF-C2DL-HSC.zip✱ (1.6 GB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/BF-C2DL-HSC.zip (1.6 GB)

Microscope: Zeiss PALM/AxioObserver Z1

Objective lens: EC Plan-Neofluar 10x/0.30 Ph1

Pixel size (microns): 0.645 x 0.645

Time step (min): 5

Mouse muscle stem cells in hydrogel microwells

Dr. H. Blau, Baxter Laboratory for Stem Cell Biology, Stanford University, USA

Training dataset: http://data.celltrackingchallenge.net/training-datasets/BF-C2DL-MuSC.zip✱ (1.2 GB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/BF-C2DL-MuSC.zip (1.3 GB)

Microscope: Zeiss PALM/AxioObserver Z1

Objective lens: EC Plan-Neofluar 10x/0.30 Ph1

Pixel size (microns): 0.645 x 0.645

Time step (min): 5

HeLa cells on a flat glass

Dr. G. van Cappellen. Erasmus Medical Center, Rotterdam, The Netherlands

Training dataset: http://data.celltrackingchallenge.net/training-datasets/DIC-C2DH-HeLa.zip✱ (37 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/DIC-C2DH-HeLa.zip (41 MB)

Microscope: Zeiss LSM 510 Meta

Objective lens: Plan-Apochromat 63x/1.4 (oil)

Pixel size (microns): 0.19 x 0.19

Time step (min): 10

Human hepatocarcinoma-derived cells expressing the fusion protein YFP-TIA-1

Dr. Alessia Ruggieri and Philipp Klein, Centre for Integrative Infectious Disease Research (CIID), University Hospital Heidelberg, Germany

Training dataset: http://data.celltrackingchallenge.net/training-datasets/Fluo-C2DL-Huh7.zip (36 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/Fluo-C2DL-Huh7.zip (36 MB)

Microscope: Nikon Eclipse Ti2

Objective lens: CFI Plan Apo Lambda 20x/0.75

Pixel size (microns): 0.65 x 0.65

Time step (min): 15

Additional information: Cell Host & Microbe, 2012

Rat mesenchymal stem cells on a flat polyacrylamide substrate

Dr. F. Prósper. Cell Therapy laboratory, Center for Applied Medical Research (CIMA), Pamplona, Spain

Training dataset: http://data.celltrackingchallenge.net/training-datasets/Fluo-C2DL-MSC.zip✱ (72 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/Fluo-C2DL-MSC.zip (71 MB)

Microscope: PerkinElmer UltraVIEW ERS

Objective lens: Plan-Neofluar 10x/0.3 (Plan-Apo 20x/0.75)

Pixel size (microns): 0.3 x 0.3 (0.3977 x 0.3977)

Time step (min): 20 (30)

GFP-GOWT1 mouse stem cells

Dr. E. Bártová. Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno, Czech Republic

Training dataset: http://data.celltrackingchallenge.net/training-datasets/Fluo-N2DH-GOWT1.zip✱ (53 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/Fluo-N2DH-GOWT1.zip (46 MB)

Microscope: Leica TCS SP5

Objective lens: Plan-Apochromat 63x/1.4 (oil)

Pixel size (microns): 0.240 x 0.240

Time step (min): 5

Additional information: PLoS ONE, 2011

HeLa cells stably expressing H2b-GFP

Mitocheck Consortium

Training dataset: http://data.celltrackingchallenge.net/training-datasets/Fluo-N2DL-HeLa.zip✱ (182 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/Fluo-N2DL-HeLa.zip (168 MB)

Microscope: Olympus IX81

Objective lens: Plan 10x/0.4

Pixel size (microns): 0.645 x 0.645

Time step (min): 30

Additional information: Nature, 2010

Glioblastoma-astrocytoma U373 cells on a polyacrylamide substrate

Dr. S. Kumar. Department of Bioengineering, University of California at Berkeley, Berkeley CA (USA)

Training dataset: http://data.celltrackingchallenge.net/training-datasets/PhC-C2DH-U373.zip✱ (40 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/PhC-C2DH-U373.zip (38 MB)

Microscope: Nikon

Objective lens: Plan Fluor DLL 20x/0.5

Pixel size (microns): 0.65 x 0.65

Time step (min): 15

Pancreatic stem cells on a polystyrene substrate

Dr. T. Becker and Dr. D. Rapoport. Fraunhofer Institution for Marine Biotechnology, Lübeck, Germany

Training dataset: http://data.celltrackingchallenge.net/training-datasets/PhC-C2DL-PSC.zip✱ (124 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/PhC-C2DL-PSC.zip (106 MB)

Microscope: Olympus ix-81

Objective lens: UPLFLN 4XPH

Pixel size (microns): 1.6 x 1.6

Time step (min): 10

Additional information: PLoS ONE, 2011

Simulated nuclei of HL60 cells stained with Hoescht

Dr. V. Ulman and Dr. D. Svoboda. Centre for Biomedical Image Analysis (CBIA),

Masaryk University, Brno, Czech Republic (Created using MitoGen, part of Cytopacq)

Training dataset: http://data.celltrackingchallenge.net/training-datasets/Fluo-N2DH-SIM+.zip (91 MB)

Challenge dataset: http://data.celltrackingchallenge.net/challenge-datasets/Fluo-N2DH-SIM+.zip (96 MB)

Microscope: Zeiss Axiovert 100S with a Micromax 1300-YHS camera

Objective lens: Plan-Apochromat 40x/1.3 (oil)

Pixel size (microns): 0.125 x 0.125

Time step (min): 29

Additional information: IEEE Transactions on Medical Imaging, 2016

✱ The silver reference segmentation annotations available for a particular training dataset. Such a dataset is included in the primary track of the sixth challenge edition hosted by ISBI 2021.