Juskeviciute, Egle, Vadigepalli, Rajanikanth, Hoek, Jan B
Abstract Background The goal of these studies was to characterize the transcriptional network regulating changes in gene expression in the remnant liver of the rat after 70% partial hepatectomy (PHx)...
Markevich, Nick I., Tsyganov, Mikhail A., Hoek, Jan B, Kholodenko, Boris N.
A hallmark of protein kinase/phosphatase cascades, including mitogen-activated protein kinase (MAPK) pathways, is the spatial separation of their components within cells. The top-level kinase, MAP3K,...
Borisov, Nikolay M., Markevitch, Nick I., Hoek, Jan B., Kholodenko, Boris N.
Membrane receptors and proteins involved in signal transduction display numerous binding domains and operate as molecular scaffolds generating a variety of parallel reactions and protein complexes....
Davies, Adrian M., Hershman, Stuart, Stabley, Gabriel J., Hoek, Jan B., Peterson, Jason, Cahill, Alan
Endonuclease G, a protein historically thought to be involved in mitochondrial DNA (mtDNA) replication, repair, recombination and degradation, has recently been reported to be involved in nuclear DNA...
ALCOHOL AND MEMBRANE-ASSOCIATED SIGNAL TRANSDUCTION (1990)
In recent years, ethanol has been shown to interact with membrane-associated signal transduction mechanisms which rely on the reaction of phospholipases with their phospholipid substrates in the...
Untangling the wires: A strategy to trace functional interactions in signaling and gene networks
Kholodenko, Boris N., Kiyatkin, Anatoly, Bruggeman, Frank J., Sontag, Eduardo, Westerhoff, Hans V., Hoek, Jan B.
Emerging technologies have enabled the acquisition of large genomics and proteomics data sets. However, current methodologies for analysis do not permit interpretation of the data in ways that...
Davies, Adrian M., Hershman, Stuart, Stabley, Gabriel J., Hoek, Jan B., Peterson, Jason, Cahill, Alan
Endonuclease G, a protein historically thought to be involved in mitochondrial DNA (mtDNA) replication, repair, recombination and degradation, has recently been reported to be involved in nuclear DNA...
Signaling through Receptors and Scaffolds: Independent Interactions Reduce Combinatorial Complexity
Borisov, Nikolay M., Markevich, Nick I., Hoek, Jan B., Kholodenko, Boris N.
After activation, many receptors and their adaptor proteins act as scaffolds displaying numerous docking sites and engaging multiple targets. The consequent assemblage of a variety of protein...
Untangling the wires: A strategy to trace functional interactions in signaling and gene networks
Kholodenko, Boris N., Kiyatkin, Anatoly, Bruggeman, Frank J., Sontag, Eduardo, Westerhoff, Hans V., Hoek, Jan B.
Emerging technologies have enabled the acquisition of large genomics and proteomics data sets. However, current methodologies for analysis do not permit interpretation of the data in ways that...
Davies, Adrian M., Hershman, Stuart, Stabley, Gabriel J., Hoek, Jan B., Peterson, Jason, Cahill, Alan
Endonuclease G, a protein historically thought to be involved in mitochondrial DNA (mtDNA) replication, repair, recombination and degradation, has recently been reported to be involved in nuclear DNA...
Signaling through Receptors and Scaffolds: Independent Interactions Reduce Combinatorial Complexity
Borisov, Nikolay M., Markevich, Nick I., Hoek, Jan B., Kholodenko, Boris N.
After activation, many receptors and their adaptor proteins act as scaffolds displaying numerous docking sites and engaging multiple targets. The consequent assemblage of a variety of protein...
Long-range signaling by phosphoprotein waves arising from bistability in protein kinase cascades
Markevich, Nick I, Tsyganov, Mikhail A, Hoek, Jan B, Kholodenko, Boris N
A hallmark of protein kinase/phosphatase cascades, including mitogen-activated protein kinase (MAPK) pathways, is the spatial separation of their components within cells. The top-level kinase, MAP3K,...
Ligand-dependent responses of the ErbB signaling network: experimental and modeling analyses
Birtwistle, Marc R, Hatakeyama, Mariko, Yumoto, Noriko, Ogunnaike, Babatunde A, Hoek, Jan B, Kholodenko, Boris N
Deregulation of ErbB signaling plays a key role in the progression of multiple human cancers. To help understand ErbB signaling quantitatively, in this work we combine traditional experiments with...
Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades
Markevich, Nick I., Hoek, Jan B., Kholodenko, Boris N.
Mitogen-activated protein kinase (MAPK) cascades can operate as bistable switches residing in either of two different stable states. MAPK cascades are often embedded in positive feedback loops, which...
Systems-level interactions between insulin–EGF networks amplify mitogenic signaling
Borisov, Nikolay, Aksamitiene, Edita, Kiyatkin, Anatoly, Legewie, Stefan, Berkhout, Jan, Maiwald, Thomas, ...
Crosstalk mechanisms have not been studied as thoroughly as individual signaling pathways. We exploit experimental and computational approaches to reveal how a concordant interplay between the...