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Stemformatics specifications


Unique identifier OMICS_19883
Name Stemformatics
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Version 7.0.1
Maintained Yes


  • person_outline Christine Wells

Additional information

Publications for Stemformatics

Stemformatics citations


Cells in experimental life sciences challenges and solution to the rapid evolution of knowledge

BMC Bioinformatics
PMCID: 5763506
PMID: 29322916
DOI: 10.1186/s12859-017-1976-2

[…] at inevitably exist on both sides of research which asks the same question. We have identified the area where the use of biomedical ontologies can aid effective data annotation for the scMap tool and Stemformatics database to extend the analysis/content of the resources to other domain knowledge beyond their defined project scopes. It is agreed that the outreach activity like the one exemplified a […]


Human CD141+ Dendritic Cell and CD1c+ Dendritic Cell Undergo Concordant Early Genetic Programming after Activation in Humanized Mice In Vivo

Front Immunol
PMCID: 5670352
PMID: 29163495
DOI: 10.3389/fimmu.2017.01419
call_split See protocol

[…] Illumina BeadArray Reader (Illumina). Quality control, normalization, and log 2 transformation of the raw expression data were performed using the Lumi Bioconductor package () and integrated into the Stemformatics platform () for visualization. Transcripts differentially expressed by CD141+ DC and CD1c+ DC were identified using ANOVA analysis with p value cut-off threshold of […]


Involvement of WNT Signaling in the Regulation of Gestational Age Dependent Umbilical Cord Derived Mesenchymal Stem Cell Proliferation

PMCID: 5613457
PMID: 29138639
DOI: 10.1155/2017/8749751
call_split See protocol

[…] WikiPathways (413 pathways) and KEGG (10 pathways). A gene-set list associated with human WNT signaling pathway (150 genes, 04310 from KEGG pathways) was obtained from a public database ( […]


An atypical role for the myeloid receptor Mincle in central nervous system injury

PMCID: 5444551
PMID: 27492949
DOI: 10.1177/0271678X16661201

[…] ne Array WT pico assay (902463, Affymetrix) by the Ramaciotti Centre for Genomics, University of New South Wales. The expression data (RMA background corrected, quantile normalized) are hosted by (dataset S4M-6731) and is available from GEO (Accession GSE77986). The expression threshold was calculated as the median expression of all antigenomic probesets on the microarray (lo […]


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Stemformatics institution(s)
Centre for Stem Cell Systems, Anatomy and Neuroscience, The University of Melbourne, Melbourne, VIC, Australia; Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD, Australia; Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia
Stemformatics funding source(s)
Supported by Australian Research Council special research initiative to Stem Cells Australia [SRI110001002]; Future Fellowship from the Australian Research Council [FT150100330]; JEM Research Foundation to the Stem Cell Atlas.

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