In contrast, when inserted upstream of CR2, ThymoD, as well as Bcl11b transcript abundance, significantly declined (Figure S1D). Thus, the insertion of a poly(A) site upstream of CR2, but not CR1, interfered wit
in development and in cancer.59LincRNAX-inactive specific transcript(Xist), which is responsible for X chromosome inactivation and gene dosage compensation, was discovered in the early 90s and is the first long non-coding RNA to be ever studied.60Fifteen years later,...
biology remains largely unknown. Another class of regulatory non-coding RNAs, miRNAs, have gained significant importance in the past decades as master regulators of gene expression7. MiRNAs bind to the 3’UTR of target genes inhibiting their translation or inducing mRNA degradation. MiRNA biogenesis ...
However, the function of long noncoding RNA (lncRNA)-mediated ECM remodeling during the pathogenesis of keloids is still unclear. Herein, we identified a long noncoding transcript, namely, lymphocyte-specific protein 1 pseudogene 5 (LSP1P5), that modulates ECM component deposition in keloids. ...
Among the most abundant non-coding transcripts, there is a group called natural antisense transcripts (NATs) that carries regions of perfect complementarity to protein coding (sense) RNAs [4–7]. In silico studies of available transcript sequence data have found that up to 24% of human protein...
We applied PLEK to human protein-coding transcripts with simulated indel sequencing errors to evaluate its robustness and compare its performance with that of CPC and CNCI. CPC is widely used to assess the protein-coding potential of a transcript based on alignment with a protein database [14,45...
J. et al. Improving theArabidopsisgenome annotation using maximal transcript alignment assemblies.Nucleic Acids Res.31, 5654–5666 (2003). 50 Ramsay, L. et al. Conserved expression of transposon-derived non-coding transcripts in primate stem cells.BMC Genomics18, 214 (2017). 51 Ranzani, V. ...
(Additional file2: Tables S5 and S6). mencRNA transcript lengths ranged from 143 to 35,678 bp with a median length of 1550 bp (Fig.1c). The Coding Potential Calculator [14] predicted a high proportion of the transcripts (94.03%) as “non-coding,” significantly more than GENCODE ...
-c CODING_REF, --coding_ref=CODING_REF (Required.) The path of coding reference gtf file. Two mandatory attributes (gene_id "value"; transcript_id "value") should be provided in the file. Some files which has been prepared could be download athttp://www.bioinfo.org/np/ ...
The long noncoding RNA HOXA transcript at the distal tip promotes colorectal cancer growth partially via silencing of p21 expression. Tumour Biol. 2015;37(6):7431. Article PubMed CAS Google Scholar Ren YK, Xiao Y, Wan XB, Zhao YZ, Li J, Li Y, et al. Association of long non-coding...