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This identification process can be divided into two parts: determining the binding specificity of specific transcription factors, and then identifying TFBSs in a sequence using the binding specificity information.
We present a general approach for introducing specificity information into nonmonotonic theories.
From the specificity information intrinsic in these sets, a default theory in a target language is specified.
This approach differs from previous work in that specificity information is obtained from information intrinsic in a set of conditionals, rather than assumed to exist a priori.
The performance of the model is assessed by considering criteria of coverage and information specificity (information granularity).
For default logic the end result is a semi-normal default theory; in circumscription the end result is a set of abnormality propositions that, when circumscribed, yield a theory in which specificity information is appropriately handled.
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The current analysis provides relevant structural (sequence, primers), functional (expression patterns) and evolutionary (gene conservation and specificity) informations that can be used as applied tools in wheat breeding programs.
These genes are identified by integrating both cancer-specificity information and coexpression information and provide novel hypothesis for the development of specific subtype of lung cancer.
Utilizing tissue-specificity information from UniProt, Recon 1 was filtered to draft network reconstructions of the human hepatocyte, adipocyte, and myocyte.
Indeed, strand-specificity information is useful to correctly map reads that do not contain polyA tails or splice junctions and represent a challenge in the annotation step of RNA-seq reads.
To our knowledge, this is the first method which is able to predict interacting TFs based only on predicted TF-binding affinity to the promoter sequence and its tissue-specificity information.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com