Global analysis of protein phosphorylation in yeast

By J. Ptacek, G. Devgan, G. Michaud, Hengying Zhu, Xiaowei Zhu, Joseph Fasolo, Hong Guo, G. Jona, Ashton Breitkreutz, Richelle Sopko and 15 more. Nature, 2005

1,020 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/b8fe86dbf26fbf65cd12a04b8fdc5c11f1044830

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Citations in the corpus

Direct induction of autophagy by Atg1 inhibits cell growth and induces apoptotic cell death. (2007, background): “autophagic machinery, respectively, as well as general factors involved in vesicle transport and vacuolar function [21].”
The Importance of Bottlenecks in Protein Networks: Correlation with Gene Essentiality and Expression Dynamics (2007, background): “…kinds of protein networks, namely the metabolic network (where links connect enzymes that share a metabolite) [23], the genetic network (where links connect proteins that have genetic interactions) [30], and the phosphorylation network (where links connect a kinase with its substrates) [31].”
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (2006, methodology): “*Contact: bab@bmb.sdu.dk (B.B.), mmann@biochem.mpg.de (M.M.) DOI 10.1016/j.cell.2006.09.026”
Systematic discovery of in vivo phosphorylation networks. (2007, background): “…there is an ever-widening gap in our understanding of in vivo phosphorylation networks, which is difﬁcult to close in a systematic way by current experimental methods, despite advances in high-throughput in vitro assays (Ptacek et al., 2005) and selective kinase inhibitors (Bain et al., 2003).”
Mechanisms of specificity in protein phosphorylation (2007, background): “Systematic in vitro proteomic studies in Saccharomyces cerevisiae support this proposal: in one study, kinases phosphorylated between 1 and 256 substrates, and in a second study, cyclin-dependent kinase-1 ( Cdk1 ) from yeast phosphorylated hundreds of substrate”
Identification of functional modules using network topology and high-throughput data (2007, methodology): “We generated a comprehensive S. cerevisiae protein-protein and protein-DNA interaction network by combining information from the interaction databases SGD, BioG-RID and BIND and recent high-throughput studies (e.g., [25], see our website for a complete list).”
Nutritional Control of Growth and Development in Yeast (2012, background): “However, more nuanced studies suggest that these proteins have somewhat different activities and functional specificities (Robertson and Fink 1998; Ptacek et al. 2005).”
Architecture of the human regulatory network derived from ENCODE data (2012, background): “Moreover, more complex networks that integrate disparate forms of genomic and proteomic data, such as protein–protein interactions and phosphorylation, have related gene regulation to other biological processes 14–16 .”
Mapping pathways and phenotypes by systematic gene overexpression. (2006, background): “Our pho85D SDL screen identified several known targets of Pho85 as well as an additional substrate, Crz1p, which was also identified in a protein chip screen for kinase targets (Ptacek et al., 2005).”