The TEAD family of transcription factors is necessary for developmental processes. The family members contain a TEA domain for the binding with DNA elements and a transactivation domain for the interaction with transcription coactivators. TEAD proteins are required for the participation of coactivators to transmit the signal of pathways for the downstream signaling processes. TEADs also play an...

Zinc has been considered as a vital constituent of proteins, including enzymes. Mobile reactive zinc (Zn(2+)) is the key form of zinc involved in signal transductions, which are mainly driven by its binding to proteins or the release of zinc from proteins, possibly via a redox switch. There has been growing evidence of zinc's critical role in cell signaling, due to its flexible coordination geo...

Membrane-type 1 matrix metalloproteinase (MT1-MMP) is essential for tumor invasion and growth. We show here that MT1-MMP induces extracellular signal-regulated kinase (ERK) activation in cancer cells cultured in collagen gel, which is indispensable for their proliferation. Inhibition of MT1-MMP by MMP inhibitor or small interfering RNA suppressed activation of focal adhesion kinase (FAK) and ER...

Hypertension increases mechanical force on the arterial wall by as much as 30%, resulting in marked alterations in signal transductions and gene expression in vascular smooth muscle cells (VSMCs) that contribute to matrix protein synthesis, cell proliferation, and differentiation. How the mechanical stimuli are converted into a biological signal in cells has yet to be studied. We investigated t...

Dormancy is an adaptive mechanism that allows temperate deciduous plants to survive unfavorable winter conditions. In the present work, we investigated the possible function of abscisic acid (ABA) on the endodormancy process in pear. The ABA content increased during pear flower bud endodormancy establishment and decreased towards endodormancy release. In total, 39 putative genes related to ABA ...

We consider pairs of context-free tree grammars combined through synchronous rewriting. The resulting formalism is at least as powerful as synchronous tree adjoining grammars and linear, nondeleting macro tree transducers, while the parsing complexity remains polynomial. Its power is subsumed by context-free hypergraph grammars. The new formalism has an alternative characterization in terms of ...

In this paper we introduce an efficient approach to Recursive Neural Networks (RecNNs) modeling, the Tree Echo State Network (TreeESN), extending the Echo State Network (ESN) model from sequential to tree structured domains processing. For structure-to-element transductions, the state mapping (i.e. the way in which the state values for the whole structure are selected/collected) turns out to ha...

The classic algorithm of Bodlaender and Kloks [J. Algorithms, 1996] solves the following problem in linear fixed-parameter time: given a tree decomposition graph (possibly suboptimal) width k, compute an optimum-width graph. In this work, we prove that can also be solved mso sense: for every positive integer there is transduction from decompositions k to optimum width. Together with our recent ...

BACKGROUND Because cell signaling and cell metabolic pathways are executed through proteins, protein signatures in primary tumors are useful for identifying key nodes in signaling networks whose alteration is associated with malignancy and/or clinical outcomes. This study aimed to determine protein signatures in primary lung cancer tissues. METHODOLOGY/ PRINCIPAL FINDINGS We analyzed 126 prot...

Context-free tree grammars, originally introduced by Rounds ((Rounds, 1970)), are powerful grammar devices for the definition of tree languages. In the present paper, we consider a subclass of the class of context-free tree languages, namely the class of monadic simple context-free tree languages. For this class of context-free tree languages, a faithful rendering of extended TAGs, we show that...