NCBI Dcode.org Comparative Genomics Developments (original) (raw)

Causal noncoding variants

Regulation of co-expressed genes

CLARE -- Prediction of regulatory motifs and motif combinations in a set of co-functional enhancers.DiRE -- Identification of proximal and Distant Regulatory Elements of co-regulated genes.SynoR -- Prediction of synonymous regulatory elements in vertebrate genomes.

Whole genome alignments

ECR Browser -- Evolutionary conservation of multiple genomes. Identification and sequence analysis of regulatory elements.Genome Alignment in ECR Browser -- Align your FASTA nucleotide sequence to a genome of choice.

Multiple and pairwise sequence alignments

Mulan -- Full multiple sequence alignment. [Interactive conservation profiles, phylogenetic trees, etc.] zPicture -- Stacked pairwise and multiple sequence alignment.

Identification of conserved transcription factor binding sites (cTFBS)

Excluding up to 95% false positive TFBS predictions using sequence conservation as a filter. multiTF -- cTFBS in multiple sequence alignments. rVista 2.0 -- cTFBS in pairwise alignments.