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Discovery/validation of CRMs
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•Scanning of CRMs in selected regions in the genome-Overlapping, non-overlapping or nested fragments can be tested simultaneously in multiple time points.•Authentication of a large number of predicted CRMs based on sequence conservation, protein binding profiles, epigenetic signatures, or other computational analyses•Test of artificially designed DNA sequences for cis-regulatory activities-Different arrangements of transcription factor binding sites can be compared to study cis-regulatory grammar.-Different combinations/arrangements of multiple CRMs can be compared simultaneously. |
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Characterization of CRMs
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•Test of CRM responses to gene perturbations-Systematic, integrated analysis of genes and CRMs is possible for fast mapping of GRNs.-Testing predicted trans-regulatory inputs based on computational or experimental analyses is possible.-Elucidate early regulation of genes with maternal transcripts that obscure gene expression changes.•Systematic mutational analysis of a large number of CRMs |
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Internally controlled comparative
cis
-regulatory analyses
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•Cis-regulatory divergence/conservation of duplicated genes•Inter-species comparison of cis-regulatory controls•Allelic divergence of cis-regulation |
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Post-transcriptional regulations
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•All the above mentioned uses of the Nanotags are also applicable to cis-regulatory elements for post-transcriptional regulations |
