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An important tool for predicting mammalian TF binding sites is motif scanning, i.e. searching DNA sequence for matches within a library of sequence motifs reported to be bound by specific TFs (Lähdesmäki et al., 2008).
A promoter analysis of differentially expressed genes identified an enrichment of several motifs that can be bound by specific transcription factors, for example GAMYB, ARF1, or Dof-type zinc fingers.
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We expect that if regulatory sequence elements are bound by specific proteins, these may themselves show changes in expression.
In the initial attempts to identify RNAs that are bound by specific RBPs, RNA immunoprecipitation was combined with microarray analysis (RIP-ChIP) [1,2].
Such cis-regulatory modules (CRMs) act as genetic switches and are bound by specific TFs to drive distinct patterns of expression.
Complex oligosaccharides on cell surfaces and glycoproteins in blood and other biological fluids often serve as recognition signals that are bound by specific glycan-binding receptors known as lectins [ 1].
Unlike a conventional broker, the administrator would just transact trades, not offer advice, and be bound by a specific set of instructions to maintain the portfolio.
Accordingly, we found that their promoters appears to be bound by lineage specific TFs.
One additional expectation for developmentally regulated promoters is that they should be bound by tissue specific transcription factors.
In particular, enhancers would be expected to be bound by a specific class of TFs called activators, which increase gene transcription.
Different consensus sequences might be bound by tissue-specific isoforms of CstF-RNA binding subunits [ 21] or competitor proteins [ 22].
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