Genome surveyor 2.0: cis-regulatory analysis in Drosophila
نویسندگان
چکیده
منابع مشابه
Genome surveyor 2.0: cis-regulatory analysis in Drosophila
Genome Surveyor 2.0 is a web-based tool for discovery and analysis of cis-regulatory elements in Drosophila, built on top of the GBrowse genome browser for convenient visualization. Genome Surveyor was developed as a tool for predicting transcription factor (TF) binding targets and cis-regulatory modules (CRMs/enhancers), based on motifs representing experimentally determined DNA binding specif...
متن کاملDecoding cis-regulatory DNAs in the Drosophila genome.
Cis-regulatory DNAs control the timing and sites of gene expression during metazoan development. Changes in gene expression are responsible for the morphological diversification of metazoan body plans. However, traditional methods for the identification and characterization of cis-regulatory DNAs are tedious. During the past year, computational methods have been used to identify novel cis-DNAs ...
متن کاملcis-Regulatory Complexity within a Large Non-Coding Region in the Drosophila Genome
Analysis of cis-regulatory enhancers has revealed that they consist of clustered blocks of highly conserved sequences. Although most characterized enhancers reside near their target genes, a growing number of studies have shown that enhancers located over 50 kb from their minimal promoter(s) are required for appropriate gene expression and many of these 'long-range' enhancers are found in genom...
متن کاملUse of a Drosophila Genome-Wide Conserved Sequence Database to Identify Functionally Related cis-Regulatory Enhancers
BACKGROUND Phylogenetic footprinting has revealed that cis-regulatory enhancers consist of conserved DNA sequence clusters (CSCs). Currently, there is no systematic approach for enhancer discovery and analysis that takes full-advantage of the sequence information within enhancer CSCs. RESULTS We have generated a Drosophila genome-wide database of conserved DNA consisting of >100,000 CSCs deri...
متن کاملThe cis-regulatory code of Hox function in Drosophila.
Precise gene expression is a fundamental aspect of organismal function and depends on the combinatorial interplay of transcription factors (TFs) with cis-regulatory DNA elements. While much is known about TF function in general, our understanding of their cell type-specific activities is still poor. To address how widely expressed transcriptional regulators modulate downstream gene activity wit...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2011
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkr291