Global landscape of mouse and human cytokine transcriptional regulation
Pro, Sebastian Carrasco
Imedio, Alvaro Dafonte
Santoso, Clarissa Stephanie
Gan, Kok Ann
Sewell, Jared Allan
Fuxman Bass, Juan Ignacio
MetadataShow full item record
Citation (published version)Sebastian Carrasco Pro, Alvaro Dafonte Imedio, Clarissa Stephanie Santoso, Kok Ann Gan, Jared Allan Sewell, Melissa Martinez, Rebecca Sereda, Shivani Mehta, Juan Ignacio Fuxman Bass. 2018. "Global landscape of mouse and human cytokine transcriptional regulation." NUCLEIC ACIDS RESEARCH, Volume 46, Issue 18, pp. 9321 - 9337 (17). https://doi.org/10.1093/nar/gky787
Cytokines are cell-to-cell signaling proteins that play a central role in immune development, pathogen responses, and diseases. Cytokines are highly regulated at the transcriptional level by combinations of transcription factors (TFs) that recruit cofactors and the transcriptional machinery. Here, we mined through three decades of studies to generate a comprehensive database, CytReg, reporting 843 and 647 interactions between TFs and cytokine genes, in human and mouse respectively. By integrating CytReg with other functional datasets, we determined general principles governing the transcriptional regulation of cytokine genes. In particular, we show a correlation between TF connectivity and immune phenotype and disease, we discuss the balance between tissue-specific and pathogen-activated TFs regulating each cytokine gene, and cooperativity and plasticity in cytokine regulation. We also illustrate the use of our database as a blueprint to predict TF–disease associations and identify potential TF–cytokine regulatory axes in autoimmune diseases. Finally, we discuss research biases in cytokine regulation studies, and use CytReg to predict novel interactions based on co-expression and motif analyses which we further validated experimentally. Overall, this resource provides a framework for the rational design of future cytokine gene regulation studies.
RightsAttribution 4.0 International
Showing items related by title, author, creator and subject.
Contribution of leaf specular reflection to canopy reflectance under black soil case using stochastic radiative transfer model Yang, Bin; Knyazikhin, Yuri; Zhao, Haimeng; Ma, Yuzhong (Elsevier Science BV, 2018-12-15)Numerous canopy radiative transfer models have been proposed based on the assumption of “ideal bi-Lambertian leaves” with the aim of simplifying the interactions between photons and vegetation canopies. This assumption may ...
Petroff, A.; Murphy, J.G.; Thomas, S.C.; Geddes, Jeffrey A. (PERGAMON-ELSEVIER SCIENCE LTD, 2018-10-01)Aerosol fluxes were measured by eddy-correlation for 8 weeks of the summer and fall of 2011 above a temperate broadleaf forest in central Ontario, Canada. These size-resolved measurements apply to particles with optical ...
Integrating archaeology and ancient DNA analysis to address invasive species colonization in the Gulf of Alaska West, Catherine; Hofman, Courtney A.; Ebbert, Steve; Martin, John; Shirazi, Sabrina; Dunning, Samantha; Maldonado, Jesus E. (WILEY, 2017-10-01)The intentional and unintentional movement of plants and animals by humans has transformed ecosystems and landscapes globally. Assessing when and how a species was introduced are central to managing these transformed ...