Reference : Gene-pair expression signatures reveal lineage control
Scientific journals : Article
Life sciences : Multidisciplinary, general & others
http://hdl.handle.net/10993/383
Gene-pair expression signatures reveal lineage control
English
Heinäniemi, Merja [University of Luxembourg > Faculty of Science, Technology and Communication (FSTC) > Life Science Research Unit >]
Nykter, Matti [Tampere University of Technology > Department of Signal Processing]
Kramer, Roger [Institute for Systems Biology]
Wienecke, Anke mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Sinkkonen, Lasse mailto [University of Luxembourg > Faculty of Science, Technology and Communication (FSTC) > Life Science Research Unit >]
Zhou, J. X. [University of Calgary - U of C. > Institute for Biocomplexity and Informatics]
Kreisberg, Richard [Institute for Systems Biology]
Kauffman, Stuart A. [Institute for Systems Biology]
Huang, Sui [Institute for Systems Biology]
Shmulevich, Ilya [Institute for Systems Biology]
21-Apr-2013
Nature Methods
Nature
Yes (verified by ORBilu)
1548-7091
1548-7105
[en] The distinct cell types of multicellular organisms arise due to constraints imposed by gene regulatory networks on the collective change of gene expression across the genome, creating self-stabilizing expression states, or attractors. We compiled a resource of curated human expression data comprising 166 cell types and 2,602 transcription regulating genes and developed a data driven method built around the concept of expression reversal defined at the level of gene pairs, such as those participating in toggle switch circuits. This approach allows us to organize the cell types into their ontogenetic lineage-relationships and to reflect regulatory relationships among genes that explain their ability to function as determinants of cell fate. We show that this method identifies genes belonging to regulatory circuits that control neuronal fate, pluripotency and blood cell differentiation, thus offering a novel large-scale perspective on lineage specification.
Luxembourg Centre for Systems Biomedicine (LCSB): Experimental Neurobiology (Balling Group) ; LSRU
http://hdl.handle.net/10993/383
10.1038/nmeth.2445
http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.2445.html

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