Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Many cellular signaling pathways induce gene expression by activating specific transcription factor complexes. Conventional approaches to the prediction of transcription factor binding sites lead to a notoriously high number of false discoveries. To alleviate this problem,  consider only binding sites that are conserved in man-mouse genomic sequence comparisons.  employ two alternative methods for predicting binding sites: exact matches to validated binding site sequences and ight matrix scans.  then ask the question whether there is a characteristic association beten a transcription factor or set thereof to a particular group of genes. Our approach is tested on genes, which are induced in dendritic cells in response to the cells’ exposure to LPS.  chose this example because the underlying signaling pathways are ll understood.  demonstrate the benefit of conserved predicted binding sites in interpreting the LPS experiment. Additionally,  find that both methods for the prediction of conserved binding sites complement one another. Finally, our results suggest a distinct role for SRF in the context of LPS-induced gene expression. Contact: christoph.dieterich@molgen.mpg.de
['Christoph Dieterich', 'Ralf Herwig', 'Martin Vingron']
I am writing a research paper on a idea Exploring potential target genes of signaling pathways by predicting conserved transcription factor binding sites
[{"from": "human", "value": "I am writing a research paper on a idea Exploring potential target genes of signaling pathways by predicting conserved transcription factor binding sites"}, {"from": "gpt", "value": "Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Many cellular signaling pathways induce gene expression by activating specific transcription factor complexes. Conventional approaches to the prediction of transcription factor binding sites lead to a notoriously high number of false discoveries. To alleviate this problem,  consider only binding sites that are conserved in man-mouse genomic sequence comparisons.  employ two alternative methods for predicting binding sites: exact matches to validated binding site sequences and ight matrix scans.  then ask the question whether there is a characteristic association beten a transcription factor or set thereof to a particular group of genes. Our approach is tested on genes, which are induced in dendritic cells in response to the cells\u2019 exposure to LPS.  chose this example because the underlying signaling pathways are ll understood.  demonstrate the benefit of conserved predicted binding sites in interpreting the LPS experiment. Additionally,  find that both methods for the prediction of conserved binding sites complement one another. Finally, our results suggest a distinct role for SRF in the context of LPS-induced gene expression. Contact: christoph.dieterich@molgen.mpg.de"}]