Ultraconserved Elements in the Human Genome

By J. Rochford, Christian Wolfrum, Sarah L. Gray, Sven Schinner, Jenny C. Wilson, M. Soos, Peter R. Murgatroyd, Rachel M. Williams, Carlo L. Acerini, D. Dunger and 8 more. Science, 2004

1,757 citations recorded by the source corpus.

Subfields: Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/1a358a47b55c6a4f067687e97114239d57995f54

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Citations in the corpus

Highly Conserved Non-Coding Sequences Are Associated with Vertebrate Development (2004, neutral): “One approach has recently been described [ 21 ] that identifies only those sequences that are identical over at least 200 bp between human and mouse genomes (termed ultra-conserved elements) and examines their distribution in the genome.”
Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals (2005, background): “Although the largest and most conserved elements are readily identiﬁed 9 , the vast majority of non-coding functional elements remain unknown.”
Control of developmental regulators by Polycomb in human embryonic stem cells. (2006, background): “Previous studies have noted that many highly conserved noncoding elements of vertebrate genomes are associated with genes encoding developmental regulators (Bejerano et al., 2004; Siepel et al., 2005; Woolfe et al., 2005).”
A bivalent chromatin structure marks key developmental genes in embryonic stem cells. (2006, background): “Recent studies have revealed that the most highly conserved noncoding elements (HCNEs) in mammalian genomes cluster within 200 HCNE-rich genomic loci, which include all four Hox clusters (Nobrega et al., 2003; Bejerano et al., 2004; Lindblad-Toh et al., 2005; Woolfe et al., 2005).”
28-way vertebrate alignment and conservation track in the UCSC Genome Browser. (2007, background): “The decay equation (Supplemental material) predicts a substantial loss of recognizable UCEs at distances of 2.5 to 3 substitutions per site, which is consistent with the failure to detect UCEs outside vertebrates (Bejerano et al. 2004).”
The Landscape of long non-coding RNA classification (2015, positive): “Still, many ultra-conserved regions (UCRs) – sequences of DNA 100% conserved in human, rat, and mouse – map to the non-coding space of the genome [94].”
Non-coding RNAs in human disease (2011, background): “They are thought to date from a very early period in vertebrate evolution, as most of them have no orthologues in sea squirts, flies or worm”
Evolvability (2006, neutral): “Hence, the effect of the two changes is again to cancel and keep the performance unchanged. will change the value of the hypothesis from − 1 to + 1 on the points satisfying .”
Integrative Annotation of Variants from 1092 Humans: Application to Cancer Genomics (2013, background): “One may think to identify noncoding regions under strong selection purely through mammalian sequence conservation, and ultraconserved elements have been found in this fashion (21).”
MitoFinder: Efficient automated large‐scale extraction of mitogenomic data in target enrichment phylogenomics (2019, background): “The first UCEs were identified by Bejerano et al. (2004) in the human genome and have been shown to be conserved in mam - mals, birds and even ray-finned fish (Stephen, Pheasant, Makunin, & Mattick, 2008).”
The functional role of long non-coding RNA in human carcinomas (2011, neutral): “html [202]”