Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Summary:  have developed a b-based query tool, Whole-Genome rVISTA (WGRV), that determines enrichment of transcription factors (TFs) and associated target genes in sets of co-regulated genes. WGRV enables users to query databases containing pre-computed genome coordinates of evolutionarily conserved transcription factor binding sites in the proximal promoters (from 100 bp to 5 kb upstream) of human, mouse and Drosophila genomes. TF binding sites are based on position-ight matrices from the TRANSFAC Professional database. For a given set of co-regulated genes, WGRV returns statistically enriched and evolutionarily conserved binding sites, mapped by the regulatory VISTA (rVISTA) algorithm. Users can then retrieve a list of genes from the query set containing the enriched TF binding sites and their location in the query set promoters. Results are exported in a BED format for rapid visualization in the UCSC genome browser. Flat files of mapped conserved sites and their genomic coordinates are also available for analysis with stand-alone software.#R##N##R##N#Availability: http://genome.lbl.gov/cgi-bin/WGRVistaInputCommon.pl.#R##N##R##N#Contact: ude.dscu@nobmaza or vog.lbl@kahcbudli#R##N##R##N#Supplementary information: Supplementary data are available at Bioinformatics online.
['Inna Dubchak', 'Matthew Munoz', 'Alexandre Poliakov', 'Nathan Salomonis', 'Simon Minovitsky', 'Rolf Bodmer', 'Alexander C. Zambon']
I am writing a research paper on a idea Whole-Genome rVISTA: a tool to determine enrichment of transcription factor binding sites in gene promoters from transcriptomic data
[{"from": "human", "value": "I am writing a research paper on a idea Whole-Genome rVISTA: a tool to determine enrichment of transcription factor binding sites in gene promoters from transcriptomic data"}, {"from": "gpt", "value": "Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Summary:  have developed a b-based query tool, Whole-Genome rVISTA (WGRV), that determines enrichment of transcription factors (TFs) and associated target genes in sets of co-regulated genes. WGRV enables users to query databases containing pre-computed genome coordinates of evolutionarily conserved transcription factor binding sites in the proximal promoters (from 100 bp to 5 kb upstream) of human, mouse and Drosophila genomes. TF binding sites are based on position-ight matrices from the TRANSFAC Professional database. For a given set of co-regulated genes, WGRV returns statistically enriched and evolutionarily conserved binding sites, mapped by the regulatory VISTA (rVISTA) algorithm. Users can then retrieve a list of genes from the query set containing the enriched TF binding sites and their location in the query set promoters. Results are exported in a BED format for rapid visualization in the UCSC genome browser. Flat files of mapped conserved sites and their genomic coordinates are also available for analysis with stand-alone software.#R##N##R##N#Availability: http://genome.lbl.gov/cgi-bin/WGRVistaInputCommon.pl.#R##N##R##N#Contact: ude.dscu@nobmaza or vog.lbl@kahcbudli#R##N##R##N#Supplementary information: Supplementary data are available at Bioinformatics online."}]