Journal article

Stemformatics: visualize and download curated stem cell data

Jarny Choi, Chris M Pacheco, Rowland Mosbergen, Othmar Korn, Tyrone Chen, Isha Nagpal, Steve Englart, Paul W Angel, Christine A Wells

NUCLEIC ACIDS RESEARCH | OXFORD UNIV PRESS | Published : 2019

Abstract

Stemformatics is an established gene expression data portal containing over 420 public gene expression datasets derived from microarray, RNA sequencing and single cell profiling technologies. Developed for the stem cell community, it has a major focus on pluripotency, tissue stem cells, and staged differentiation. Stemformatics includes curated 'collections' of data relevant to cell reprogramming, as well as hematopoiesis and leukaemia. Rather than simply rehosting datasets as they appear in public repositories, Stemformatics uses a stringent set of quality control metrics and its own pipelines to process handpicked datasets from raw files. This means that about 30% of datasets processed by ..

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Grants

Awarded by Australian Research Council special research initiative


Awarded by Future Fellowship from the Australian Research Council


Funding Acknowledgements

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. Funding for open access charge: Australian Research Council special research initiative to Stem Cells Australia.