Functional RNAs

This section contains information on various functional RNAs. Included are tRNAs, non-coding RNAs, rRNAs and snoRNAs.

Found 42 links

Displaying 15 links

corRnaTool Content

http://corrna.cs.mcgill.ca

corRna is a web server for predicting the multiple point deleterious mutations in structural RNAs. Users can apply search heuristics to improve the quality of the predictions.

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CrossLinkTool Content

http://www-ab.informatik.uni-tuebingen.de/software/crosslink/webstart/welcome.ht...

Crosslink is a tool for visualizing pairwise sequence similiarity relationships determined using BLAST, Vmatch, and RNAhybrid. The nucleotide sequences and their relationships are displayed as nodes and links of a network, respectively. CrossLink can be useful for investigating potential interactions between microRNAs and their targets.

DARIOTool Content

http://dario.bioinf.uni-leipzig.de/

DARIO is a web service for the study of short read data from small RNA-seq experiments. It provides a wide range of analysis features including qulity control, read normalization, ncRNA quantification and prediction of putative ncRNA candidates.

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DIANA-microTTool Content

http://www.microrna.gr/microT

The DIANA-microT web server predicts targets for miRNAs and provides functional information on the predicted miRNA:target gene interaction from various online biological resources. Updates enable the association of miRNAs to diseases through bibliographic analysis and connection to the UCSC genome browser.

DSAPTool Content

http://dsap.cgu.edu.tw

Deep-Sequencing Small RNA Analysis Pipeline (DSAP) is an automated web service designed to provide analysis of deep sequencing small RNA datasets from the Solexa sequencing platform. Non-coding RNA and miRNA matching are output based on homology mapping to Rfam and miRBase databases.

Freiburg RNA ToolsTool Content

http://rna.informatik.uni-freiburg.de

The Freiburg RNA Tools web server contains tools for the advanced analysis of RNA. The tools IntaRNA, ExpaRNA and LocARNA support the prediction of RNA-RNA interaction, exact RNA matching and alignment of RNA, respectively.

MAGIATool Content

http://gencomp.bio.unipd.it/magia

miRNA and Genes Integrated Analysis (MAGIA) is a web tool for the integrative analysis of target predictions, miRNA and gene expression data

MAGNOLIATool Content

http://bioinfo.lifl.fr/magnolia

MAGNOLIA is software for multiple alignment of protein coding and structural RNA sequences making use of the putative functions of these sequences. Magnolia extracts information from the similarities and differences in the data, and searches for a specific evolutionary pattern.

MicroInspectorTool Content

http://bioinfo.uni-plovdiv.bg/microinspector/

MicroInspector is a tool that detects miRNA (microRNA) binding sites in your input sequence by searching against databases of known miRNA binding sites.

mirActTool Content

http://sysbio.ustc.edu.cn/software/mirAct

mirACT web server is a tool designed to investigate miRNA activity in gene expression data. It uses the negative regulation relationship between miRNAs and their target genes.

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miRanalyzerTool Content

http://web.bioinformatics.cicbiogune.es/microRNA/

miRanalyzer is a web server tool for the analysis of high throughput sequencing experiments for microRNAs. Users input a list of unique reads and copy number. The tool detects all known microRNA sequences annotated in miRBase, finds perfect matches in other libraries of transcribed sequences and predicts new microRNAs. Alignments are based on Bowtie and differences between plant and animal microRNAs are accounted for in prediction.

mirToolsTool Content

http://centre.bioinformatics.zj.cn/mirtools/

mirTools allows users to comprehensively characterize the small RNA transcriptome from high-throughput sequencing data. Users can filter quality reads, align short reads to the reference genome, classify small RNA candidates into known miRNAs, non-coding RNA, genomic repeats, etc. among other analysis tools.

Tags associated with subcategory 'RNA/Functional RNAs'

rna sequence analysis micrornas messenger rna humans algorithms animals nucleic acid conformation sequence alignment genomics untranslated rna computational biology rna statistical models nucleic acid databases binding sites bacterial rna genome mice base sequence rna precursors viral genome genetic vectors genetic transcription body patterning introns genetic variation ribonuclease iii caenorhabditis elegans systems integration ribonucleic acid regulatory sequences nucleic acid sequence homology rna stability trans-activators untranslated regions conserved sequence multigene family rats markov chains human chromosomes dna sequence analysis hela cells drosophila caenorhabditis elegans proteins pseudouridine phylogeny molecular sequence data fungal rna guide rna ribosomal rna saccharomyces cerevisiae proteins evaluation studies as topic factual databases small nucleolar rna gene expression regulation fungal genome plant rna post-transcriptional rna processing programming languages insect genes reproducibility of results homeodomain proteins rna interference thermodynamics transcription factors plant genes oligonucleotide array sequence analysis genetic promoter regions protein biosynthesis genetic databases plasmids transfer rna biomolecular nuclear magnetic resonance forecasting gene regulatory networks gene expression profiling base pair mismatch high-throughput screening assays structure-activity relationship x-ray crystallography cell nucleolus genetic models prokaryotic cells eukaryotic cells archaea archaeal rna bacteria cluster analysis 3' untranslated regions neoplasm drug resistance next-generation sequencing fluorouracil colorectal neoplasms encyclopedias as topic alternative splicing antineoplastic antimetabolites protein isoforms reverse transcriptase polymerase chain reaction genes adenosine triphosphatases gene expression