SwissRegulon Portal

Input DATA: RNA-Seq, ChIP-Seq, microarray.
Analysis: Infers key regulators (TFs/microRNAs) and gene regulatory interactions from expression data.

Input DATA: ATAC-Seq, DNase-Seq, ChIP-Seq.
Analysis: Infers CREs genome-wide and the key TFs that regulate their chromatin state (i.e. accessibility or epigenetic marks) across a set of samples.

Input DATA: TF ChIP-Seq.
Analysis: Peak identification and comprehensive annotation of regulatory motifs and sites in peaks.

Input DATA: Genome assemblies or raw genomic sequencing reads.
Analysis: Core genome alignment and phylogenetic tree.

Input DATA: Genome assemblies or raw genomic sequencing reads.
Analysis: A range of summary statistics, such as the fraction of SNPs supporting each branch of a tree and the fraction of clonal and recombined genome between each pair of strains.

Input DATA: Multiple alignments of DNA sequences.
Analysis: De novo identification of regulatory motifs with rigorous incorporation of conservation information.

Input DATA: Collections of regulatory sites.
Analysis: Inference and visualization of DWTs.

Input DATA: None.
Analysis: Predicted kinase-regulator interactions for two-component systems across bacterial genomes.