Context-Specific Signaling Networks Reconstructed Using a
Cross-species Conservation of context-specific networks
... predictions using PWMs to infer TF-TF regulations on a genome-wide scale for 475 transcription factors at once, in order to investigate the cell-specificity of transcription factors and well-studied regulatory ...
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Context specificity in causal signaling networks revealed by phosphoprotein profiling
... reconstruct context-specific networks intended to capture causal interplay between all measured phosphoproteins (and not just interplay related to inhibited ...causal signaling networks ...
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Context-Specific Protein Network Miner – An Online System for Exploring Context-Specific Protein Interaction Networks from the Literature
... sentence. Using the features employed in the PI extraction module (refer to [27], [56]), feature vectors are extracted for each query triplet (two proteins+interaction word) in the sentence and parsed to the BN ...
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Molecular Heat Response Signaling Networks in the Context of the Plant Circadian Clock.
... regulatory networks in the transcriptional response to heat shock. Moreover, using time as a perturbagen is a strategy that can be applied to other stresses to understand the underlying wiring of the ...
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Evaluating uncertainty in signaling networks using logical modeling
... systems using mathematical ...data using statistical methods but mostly neglect valuable known information from former ...uncertainty using logical modeling and subsequently filter for those models ...
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Context-specific subcellular localization prediction: Leveraging protein interaction networks and scientific texts
... 4.2 Experimental setup 51 lular space, Golgi apparatus, Mitochondrion, Nucleus, Peroxisome and Plasma membrane are used for evaluation. The dataset was created from UniProtKB and HPA. The corresponding protein sequences ...
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Context-specific independence in graphical models
... learned using the available training ...ture using Bayesian networks did not improve the performance of the classifier compared to naive Bayes classifiers which considers the variables as indepen- ...
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SignaFish: A zebrafish-specific signaling pathway resource
... the signaling networks that drive cellular homeostasis, regulate intercellular communication and contribute to cell fates during ...multi-layered signaling resource containing information for human ...
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Qualitative networks: A symbolic approach to analyze biological signaling networks
... by using discrete domains to represent the state of a component and by allowing a rich set of interaction between ...by using the minimum of the level of these proteins as a target ...a specific ...
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Erect Wing facilitates context dependent Wnt/Wingless signaling by recruiting the cell specific Armadillo TCF adaptor Earthbound to chromatin
... Ewg and human NRF1 share chromatin association sites in vivo NRF1, the human homolog of Ewg, contains a basic leucine zipper DNA-binding domain near its N terminus (Virbasius et al., 1993) (Fig. 5A). The NRF1 DNA-binding ...
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Context specific requirements for Fgfr1 signaling through Frs2 and Frs3 during mouse development
... Fgfr1 signaling during development It has long been presumed that Fgfrs signal primarily through the MAPK pathway, and previous biochemical studies implicated Frs adaptors as important mediators of MAPK activation ...
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A Context-Specific Study
... Government and foreign affiliated firms have been eliminated, in accordance with Fisman and Khanna (2004), as they are expected to follow significantly different internationalization patterns. In order to investigate the ...
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Discovering context-specific relationships from biological literature by using multi-level context terms
... the context vector is very large and sparse because we used all bio-medical entities which were tagged by ...the context vector, we will be able to improve the ...with specific condi- tions ...
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Generation of Context-Specific Electronic Patient Care Reports (epcr) using Domain-Specific Modeling
... 3.1 Context-Specific ePCRs Current ePCRs are designed using “a one size fits all ...this context, system components such as user interfaces and business models are developed without taking ...
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Signaling in Context: Parsing the Adhesion Dependence of Growth Factor Signaling
... magnitude and dynamics of Erk signaling. The experimental system avoids potentially confounding contributions from serum by conducting each step of the protocol in completely serum-free medium. We find that serum ...
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Mining Context Specific Similarity Relationships Using The World Wide Web
... Harper, 1979) or its more recent variation called Local Context Analysis (Xu & Croft, 2000) is to assume that the top rank retrieved documents are relevant and use certain terms from them for the query expansion. ...
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Using Context Awareness to Improve Domain-Specific Named Entity Disambiguation
... Our method improves the baseline, which is based only on string matching. We also showed that co-occurrence probability of entities extracted from the annotated data can lead to a substantial further improvement of the ...
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Political discourse classification in social networks using context sensitive convolutional neural networks
... social networks has also been an important research field in political social network ...two networks constructed after gathering more than 250,000 tweets about 2010 ...
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Context Embedding Networks
... 4.6. Image Grid Synthesis Being able to synthesize image grids that highlight spe- cific attributes may useful in active learning where the data collector seeks to obtain similarity estimates along particu- lar visual ...
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Diameter Signaling Controller in next-generation signaling networks
... The DEA provides an entry point that hides the topology of the network behind it and advertises itself to roam- ing partners as a Diameter relay serv- ing all Diameter applications in the network. As such, the DSC should ...
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