UNIGE document Scientific Article
previous document  unige:1281  next document
add to browser collection

Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells

Humbert, Richard
Kuehn, Michael S.
Neph, Shane
Sabo, Peter J.
Goldy, Jeff
show hidden authors show all authors [1 - 15]
Published in GenomeBiology.com. 2008, vol. 9, no. 12, R168
Abstract BACKGROUND: Conserved non-coding sequences in the human genome are approximately tenfold more abundant than known genes, and have been hypothesized to mark the locations of cis-regulatory elements. However, the global contribution of conserved non-coding sequences to the transcriptional regulation of human genes is currently unknown. Deeply conserved elements shared between humans and teleost fish predominantly flank genes active during morphogenesis and are enriched for positive transcriptional regulatory elements. However, such deeply conserved elements account for <1% of the conserved non-coding sequences in the human genome, which are predominantly mammalian. RESULTS: We explored the regulatory potential of a large sample of these 'common' conserved non-coding sequences using a variety of classic assays, including chromatin remodeling, and enhancer/repressor and promoter activity. When tested across diverse human model cell types, we find that the fraction of experimentally active conserved non-coding sequences within any given cell type is low (approximately 5%), and that this proportion increases only modestly when considered collectively across cell types. CONCLUSIONS: The results suggest that classic assays of cis-regulatory potential are unlikely to expose the functional potential of the substantial majority of mammalian conserved non-coding sequences in the human genome.
Keywords AnimalsCell LineConserved Sequence/geneticsEvolution, MolecularGenomeGenome, HumanHumansMiceRegulatory Sequences, Nucleic Acid
PMID: 19055709
Full text
Research groups Pathologie Moléculaire de la Trisomie 21 et le Génome Humain (248)
Population Genomics and Genetics of Complex Traits (892)
(ISO format)
ATTANASIO, Catia et al. Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells. In: GenomeBiology.com, 2008, vol. 9, n° 12, p. R168. doi: 10.1186/gb-2008-9-12-r168 https://archive-ouverte.unige.ch/unige:1281

523 hits



Deposited on : 2009-04-01

Export document
Format :
Citation style :