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...
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...
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
Long noncoding RNAs in cancer: From discovery to therapeutic targets RameshChoudhari, ...Shrikanth S.Gadad, inAdvances in Clinical Chemistry, 2020 Abstract Long noncoding RNAs(lncRNAs) have recently gained considerable attention as key players in biological regulation; however, the mechanisms by whic...
noncoding RNAs that have to be assessed and mapped with respect to existing ncRNA databases using assessment tools such as CPAT or Pfamscan. The NCBI NT and NR database is the preferred mapping database in this step since they include sequences for all species. NcRNAs extraction from RNA-...
An interesting regulatory capacity of other noncoding RNA is found from lncRNA (CCAT1), which acts as a miRNA sponge and a new type of lncRNA uses ultraconserved regions (UCRRNA, see below) of DNA sequences found in exon or intron regions.144 ...
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
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...
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...
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