Research article
Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes
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* Corresponding authors: Johan Ericson johan.ericson@cmb.ki.se - Boris Lenhard Boris.Lenhard@cgb.ki.se
- † Equal contributors
1 Center for Genomics and Bioinformatics, Karolinska Institutet, Stockholm, Sweden
2 Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden
3 Department of Biosciences at Novum, Karolinska Institutet, Stockholm, Sweden
4 Centre for Molecular Medicine, Department of Medical Genetics, University of British Columbia, Vancouver, Canada
BMC Genomics 2004, 5:99 doi:10.1186/1471-2164-5-99
Published: 21 December 2004Additional files
Additional File 1:
Genescape around 50 randomly selected UCRs. Selected UCRs are shown as yellow triangles, other UCRs as light yellow triangles. Genes are colored after domain (red = Homeobox, green = C2H2 Zink fingers in green, pink = Nuclear receptors, Blue = forkhead).
Format: PNG Size: 40KB Download file
Additional File 2:
Genescape around 50 randomly selected genes. UCRs are shown as as light yellow triangles. Color coding of genes as above.
Format: PNG Size: 38KB Download file
Additional File 3:
Complete list of protein domains in genes flanking UCRs. Each tested domain is listed along with corrected and uncorrected P-value as in Table 1.
Format: HTML Size: 161KB Download file
Additional File 4:
Complete list of protein domains in genes with UCR(s) in intron(s) Each tested domain is listed along with corrected and uncorrected P-value as in Table 1.
Format: HTM Size: 107KB Download file
Additional File 5:
UCR distribution in the human genome UCR density (pink) and gene density (blue) is shown for each chromosome. Densities are calculated as described in Methods.
Format: PNG Size: 92KB Download file
Additional File 6:
Genes associated with enumerated UCR clusters from Figure 3. UCRs were counted by sliding a 500 kb window along the chromosomes. Overlapping UCR-containing windows were merged into a single cluster span. The cluster span coordinates correspond to the human genome NCBI build 33 (UCSC hg15, April 2003). A more exhaustive list is found in [7]
Format: HTM Size: 185KB Download file
Additional File 7:
Extended list of UCR clusters An extended, but less annotated, version of in [6]
Format: HTM Size: 421KB Download file