Profile Gene Expression Itself

Goodbye, profiling relative difference (fold-change) of gene expression.

Gene Expression Commons provides absolute common reference by global-scale meta analysis of publicly available microarray data. It enables profiling of gene expression itself (how it works).

Open Platform

Gene Expression Commons is designed as an open platform. You can upload your microarray data, design your model, and control access level.


Many models, representing biological relationship of populations, are open to public. Just type your gene of interest. You'll see gene expression activity of any gene in those models.

Mouse Hematopoiesis
From Weissman Lab
Comprehensive collection of 39 hematopoietic stem and progenitor populations in adult mouse bone marrow, spleen, and thymus.
The transcriptional landscape of hematopoietic stem cell ontogeny
From Daley Lab
Transcriptome analysis of adult hematopoietic stem cells (HSC) and their progeny has informed our understanding of blood differentiation and leukem...
Human Normal & Neoplastic Hematopoiesis
From Weissman/Majeti Lab
Normal HSC and downstream progenitors from cold blood and adult bone marrow, and LSC, LPC, and Blast populations from AML patients.
Mouse iPS cells
From Meissner lab
Dissecting direct reprogramming through integrative genomic analysis

Accelerate Discovery with Confidence

Gene Expression Commons has been used/cited in publications such as...

  • p38α Activates Purine Metabolism to Initiate Hematopoietic Stem/Progenitor Cell Cycling in Response to Stress. Karigane D, Kobayashi H, Morikawa T, Ootomo Y, Sakai M, Nagamatsu G, Kubota Y, Goda N, Matsumoto M, Nishimura EK, Soga T, Otsu K, Suematsu M, Okamoto S, Suda T, Takubo K. Cell Stem Cell. 2016 Jun 21. PMID: 27345838
  • Hoxb5 marks long-term haematopoietic stem cells and reveals a homogenous perivascular niche. Chen JY, Miyanishi M, Wang SK, Yamazaki S, Sinha R, Kao KS, Seita J, Sahoo D, Nakauchi H, Weissman IL. Nature. 2016 Feb 11;530(7589):223-7. PMID: 26863982
  • Identification and specification of the mouse skeletal stem cell. Chan CK, Seo EY, Chen JY, Lo D, McArdle A, Sinha R, Tevlin R, Seita J, Vincent-Tompkins J, Wearda T, Lu WJ, Senarath-Yapa K, Chung MT, Marecic O, Tran M, Yan KS, Upton R, Walmsley GG, Lee AS, Sahoo D, Kuo CJ, Weissman IL, Longaker MT. Cell. 2015 Jan 15;160(1-2):285-98. PMID: 25594184
  • Proliferation-dependent alterations of the DNA methylation landscape underlie hematopoietic stem cell aging. Beerman I, Bock C, Garrison BS, Smith ZD, Gu H, Meissner A, Rossi DJ. Cell Stem Cell. 2013 Apr 4;12(4):413-25. doi: 10.1016/j.stem.2013.01.017. Epub 2013 Feb 14. PMID: 23415915
  • The genome sequence of the colonial chordate, Botryllus schlosseri. Voskoboynik A, Neff NF, Sahoo D, Newman AM, Pushkarev D, Koh W, Passarelli B, Fan HC, Mantalas GL, Palmeri KJ, Ishizuka KJ, Gissi C, Griggio F, Ben-Shlomo R, Corey DM, Penland L, White RA, Weissman IL, Quake SR. Elife. 2013;2:e00569. doi: 10.7554/eLife.00569. Epub 2013 Jul 2. PMID: 23840927
  • Alveolar progenitor and stem cells in lung development, renewal and cancer. Desai TJ, Brownfield DG, Krasnow MA. Nature. 2014 Feb 5. doi: 10.1038/nature12930. PMID: 24499815
  • The bone marrow niche for haematopoietic stem cells. Morrison SJ, Scadden DT. Nature. 2014 Jan 16;505(7483):327-34. doi: 10.1038/nature12984. PMID: 24429631

Hope Gene Expression Commons will accelerate your project, too.