SPELL - Nematode

Citation	Grove CA, De Masi F, Barrasa MI, Newburger DE, Alkema MJ, Bulyk ML, Walhout AJ. A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factors. Cell, 2009.
PubMed ID	19632181
Short Description	A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factors. GEO Record: GSE15762 Platform: GPL200 Download gene-centric, log2 transformed data: WBPaper00034761.ce.mr.csv
# of Conditions	6
Full Description	Differences in expression, protein interactions, and DNA binding of paralogous transcription factors ("TF parameters") are thought to be important determinants of regulatory and biological specificity. However, both the extent of TF divergence and the relative contribution of individual TF parameters remain undetermined. We comprehensively identify dimerization partners, spatiotemporal expression patterns, and DNA-binding specificities for the C. elegans bHLH family of TFs, and model these data into an integrated network. This network displays both specificity and promiscuity, as some bHLH proteins, DNA sequences, and tissues are highly connected, whereas others are not. By comparing all bHLH TFs, we find extensive divergence and that all three parameters contribute equally to bHLH divergence. Our approach provides a framework for examining divergence for other protein families in C. elegans and in other complex multicellular organisms, including humans. Cross-species comparisons of integrated networks may provide further insights into molecular features underlying protein family evolution. For a video summary of this article, see the PaperFlick file available with the online Supplemental Data. Experimental Details: WBPaper00034761:N2_1 WBPaper00034761:N2_2 WBPaper00034761:N2_3 WBPaper00034761:hlh-30(tm1978)_1 WBPaper00034761:hlh-30(tm1978)_2 WBPaper00034761:hlh-30(tm1978)_3.
Tags	Method: microarray, Species: Caenorhabditis elegans, Topic: WT vs. mutant