conclusions this information provides an explanation for the previously valuable literature on the functions of lncrnas and suggest for the novel therapeutic targeting. results the lncrnas hottip, h19, hotair, malat1, antisense igf2r (air), hoxa13, gtl2 (also called meg3) and uc002mb have been reported in association with hcc. besides, this study predicted that eif4aiii, ptb and fus were the mo...

Ribosomal RNA precursors and mature 28S ribosomal RNA from HeLa cells display a highly reproducible secondary structure of hairpin loops after they are spread and examined in an electron microscope. This structure was used to map the linear arrangement of these molecules. Partial digestion with 3'-exonuclease from ascites cell nuclei established that the 28S RNA region is located at the 5'-end ...

RNA polymerase pausing represents an important mechanism of transcriptional regulation. In this study, we use a single-molecule transcription assay to investigate the effect of template base-pair composition on pausing by RNA polymerase II and the evolutionarily distinct mitochondrial polymerase Rpo41. For both enzymes, pauses are shorter and less frequent on GC-rich templates. Significantly, i...

RNA-RNA interactions are essential for genomic RNA dimerization, mRNA splicing, and many RNA-related gene expression and regulation processes. The prediction of the structure and folding stability of RNA-RNA complexes is a problem of significant biological importance and receives substantial interest in the biological community. The VfoldCPX server provides a new web interface to predict the tw...

RADAR is a web server that provides a multitude of functionality for RNA data analysis and research. It can align structure-annotated RNA sequences so that both sequence and structure information are taken into consideration during the alignment process. This server is capable of performing pairwise structure alignment, multiple structure alignment, database search and clustering. In addition, ...

We present an integrative approach, SeqFold, that combines high-throughput RNA structure profiling data with computational prediction for genome-scale reconstruction of RNA secondary structures. SeqFold transforms experimental RNA structure information into a structure preference profile (SPP) and uses it to select stable RNA structure candidates representing the structure ensemble. Under a hig...