Supporting data for "Spatially transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis".

Dataset type: Imaging
Data released on November 24, 2015

Angel CE; Crampin EJ; Cursons J; Dunbar PR; Hurley DG; Jacobs MD; Print CG (2015): Supporting data for "Spatially transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis". GigaScience Database. http://dx.doi.org/10.5524/100168

DOI10.5524/100168

Human epidermis from three patients underwent single-target immunofluorescence labelling against: calmodulin, β1 integrin, β4 integrin, keratin-10, keratin-14, 14-3-3σ (stratifin), Raf-1, phospho-Raf-1 (pS338), MEK-1/2, phospho-MEK-1/2 (pS218/pS222), ERK-1/2, phospho-ERK-1/2 (pT183/pY185), JunB, c-Jun, c-Fos and Fra2.
Confocal microscopy was used to collect image data over a tissue volume, at or near the diffraction limited imaging (x-y) resolution, providing a unique data set that examines signalling proteins in the context of a homeostatic human tissue.
We have recently used bulk changes in the abundance of proteins and phospho-proteins (a subset of these data) for a model of in situ ERK-MAPK activity, driven by Ca2+ signalling inputs. There may be scope in extending such analyses to include a greater range of the data within a model of epidermal keratinocyte differentiation. Furthermore, we believe that researchers who study intercellular heterogeneity of signalling components may find these data useful.
Together with our sampled protein abundance data, we provide some preliminary cellular segmentations. On via our GitHub page, we also provide a collection of MATLAB scripts and segmented data files that allow quantitative analysis of these image data. The intermediate processed files are provided in formats that should allow advanced users to develop their own analyses using open source tools such as python.

Additional details

Read the peer-reviewed publication(s):

Cursons, J., Angel, C. E., Hurley, D. G., Print, C. G., Dunbar, P. R., Jacobs, M. D., & Crampin, E. J. (2015). Spatially transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis. GigaScience, 4(1). doi:10.1186/s13742-015-0102-5

Additional information:

http://www.github.com/uomsystemsbiology/epidermal_data





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Pat_19606HumanhumanHomo sapiens Description:Human skin samples were obtained with ...
Tissue:skin
Cell type:epidermis
...
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Pat_39606HumanhumanHomo sapiens Description:Human skin samples were obtained with ...
Tissue:skin
Cell type:epidermis
...
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Pat_29606HumanhumanHomo sapiens Description:Human skin samples were obtained with ...
Tissue:skin
Cell type:epidermis
...
+
Displaying 1-3 of 3 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
Pat_1DirectoryUNKNOWN363.08 KB2015-11-05
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Pat_2DirectoryUNKNOWN8.55 MB2015-11-05
Pat_2DirectoryUNKNOWN472.94 KB2015-11-05
Pat_2DirectoryUNKNOWN402 KB2015-11-05
Pat_3DirectoryUNKNOWN5.53 MB2015-11-05
Pat_3DirectoryUNKNOWN342.34 KB2015-11-05
Pat_3DirectoryUNKNOWN291.89 KB2015-11-05
Pat_1DirectoryUNKNOWN8.28 MB2015-11-05
Pat_1DirectoryUNKNOWN669.55 KB2015-11-05
Displaying 101-110 of 235 File(s).
Funding body Awardee Award ID Comments
Treasury, New Zealand C08X0801 Marc D Jacobs
Australian Research Council CE140100036 Edmund J Crampin
Tertiary Education Commission Top Achiever Doctoral Scholarship Joseph Cursons
Date Action
November 24, 2015 Dataset publish
December 8, 2015 Title updated from : Supporting data for "Spatially-transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis".
December 29, 2015 Manuscript Link added : 10.1186/s13742-015-0102-5