which is much lower than the 100% conservation over 200 bp used to define mammalian ultraconserved elements4. Nonetheless, the set of 2,012 most highly conserved noncoding sequences (with, at most, 0.5 substitutions per site over at least 50 bp;Supplementary...
Long noncoding RNAs (lncRNAs) are linked to cancer via pathogenic changes in their expression levels. Yet, it remains unclear whether lncRNAs can also impact tumour cell fitness via function-altering somatic “driver” mutations. To search for such drive
Therefore, accurate sequence-based prediction of chromatin features requires a flexible quantitative model capable of modeling such complex dependencies—and those predictions may then be used to estimate functional effects of noncoding variants.基于序列的,可以考虑到更多复杂的情况,这比单纯的依赖现有的motif...
Non-coding sequences, once thought to be transcriptionally inert, have been shown to be actively transcribed into a large variety of non-coding RNAs. They are now the object of intensive research due to their ability to participate in the regulation of nuclear structure and gene expression (Bon...
The years following publication of the draft human genome sequence brought about a dramatic change in our understanding of the organization and expression of genetic information. Discoveries of new classes of RNA without protein coding potential and larg
Introns also qualify as noncoding DNA. Introns are the sequences between the exons and the intron messages are spliced out by the spliceosome in the formation of the coding RNAs (mRNA, rRNA and tRNA). Although they may be considered as noncoding, some introns enhance the expression of the ...
Alterations in the nucleotide sequence of key TFBS or deviations in transcription of noncoding RNA genes likely have adverse effects on normal vascular cell phenotype and function. Here, the subject of noncoding sequences that influence smooth muscle cell or endothelial cell phenotype will be ...
coding sequences were removed. Moreover, we excluded lowly expressed genes (maximum FPKM across all libraries < 0.5) and isoforms with very low expression (maximum FPKM across all libraries < 0.01). The identified mencRNAs were assessed for coding potential by Coding Potential Calculator [14...
Comparative genomics approaches have identified numerous conserved cis-regulatory sequences near genes in plant genomes. Despite the identification of these conserved noncoding sequences (CNSs), our knowledge of their functional importance and selection
are short and contribute to regulating the translation of the longer coding sequences (CDSs) located downstream.94,95,96,97,98 With this mindboggling complexity in mind, in this review we aim to provide an overview of cases in which the categorization of “coding gene” vs “non-coding gene...