RNA homology search

It is well known that the search for homologous RNAs is more effective if both sequence and structure information is incorporated into the search. The presented methods achieve considerable speedups compared to the best previous method.

24p viwyoming2711 16-12-2020 21 0   Download

Evolutionary variations let us define a set of similar nucleic acid sequences as a family if these different molecules execute a common function. Capturing their sequence variation by using e. g. position specific scoring matrices significantly improves sensitivity of detection tools.

17p vikentucky2711 24-11-2020 9 1   Download

In this paper, we study the problem of RNA motif search in long genomic sequences. This approach uses a combination of sequence and structure constraints to uncover new distant homologs of known functional RNAs. The problem is NP-hard and is traditionally solved by backtracking algorithms.

10p vioklahoma2711 19-11-2020 16 2   Download

MicroRNAs (miRNAs) are highly conserved class of short endogenous non-coding small RNA molecules of about 18–22 nucleotide in length. MicroRNAs negatively regulate the gene expression by degrading target mRNA. In the present study, comparative genomic based approach was used to identify and characterize new conserved microRNAs in “orphan legume crop” pigeon pea (Cajanus cajan L.) using expressed sequence tags (ESTs) by in silico method. A total of 4,621 unique previously reported microRNAs were used for homology search in 25,576 ESTs of pigeon pea for identifying conserved miRNAs.

11p nguaconbaynhay6 24-06-2020 12 2   Download

MicroRNAs (miRNAs) are important noncoding regulatory RNAs. They are expressed endogenously and are 18–26 nucleotides in length. These small molecules are conserved evolutionarily within the same kingdom and their conserved nature becomes an important logical tool for the quest of conserved miRNAs in other species by homology search using bioinformatics tools.

19p caplock2711 21-02-2019 24 1   Download