miRNEST | Tool name | miRNEST |
|---|
| URL | http://mirnest.amu.edu.pl |
|---|
| Important features | Comprehensive database on animal, plant and virus microRNA including details on species that are of importance in medical and agricultural research. |
|---|
| Citations | Szczesniak MW, Deorowicz S, Gapski J, Kaczynski L, Makalowska I. miRNEST database: an integrative approach in microRNA search and annotation. Nucleic Acids Res. 2012 Jan;40(Database issue):D198-204. Epub 2011 Dec 1. PubMed PMID: 22135287; PubMed Central PMCID: PMC3245016. |
|---|
| Year of publication | 2012 |
|---|
| Rank by usage frequency | 100 |
|---|
| Comments | |
|---|
| Function | 1.1 FIND microRNA: precursor, FIND microRNA: mature form, FIND microRNA: based on conservation, FIND microRNA: integrated tools, FIND TARGET: integrated tools, SPECIES: human, SPECIES: rat, SPECIES: mouse, SPECIES: zebrafish, SPECIES: chicken, SPECIES: worm, SPECIES: fly, SPECIES: virus, SPECIES: plant, SPECIES: miscellaneous, http://mirnest.amu.edu.pl , Comprehensive database on animal- plant and virus microRNA including details on species that are of importance in medical and agricultural research., Szczesniak MW- Deorowicz S- Gapski J- Kaczynski L- Makalowska I. miRNEST database: an integrative approach in microRNA search and annotation. Nucleic Acids Res. 2012 Jan;40(Database issue):D198-204. Epub 2011 Dec 1. PubMed PMID: 22135287; PubMed Central PMCID: PMC3245016. , 2012, 100, Online/ downloadable , I. TAXA OR SPECIES SUPPORTED INCLUDE: animal- plant- virus II. QUERY OR INPUT DATA: 1. Choose from the options provided: plant- animal- virus- taxonomic tree- databases (miRNEST predictions- miRBase- PMRD- microPC- Huang et al- Hao et al). 2. Find and filter miRNAs: choose from the given options 3. BLASTN: paste sequence of interest in raw format and select database 4. Find targets: Input mature miRNA sequence and select species to see the corresponding target information 5. Browse unclassified information on plant or animal candidates such as animal candidates with pre-miRNA length exceeding 215 bases. 6. Taxonomy 7. RNA-seq: mapping of reads from small RNA deep seq libraries. III. OUTPUT DATA: depending on the type of analysis chosen the output could be: list of microRNAs- their sequence- structure- target- analysis- family- most similar mature microRNA- additional data gives link to data from external resources such as miRBase- dPORE-miRNA- PhenomiR- Patrocles- dbDEMC- CoGemiR- PMRD- and ncRNA- |
|---|
| Category | |
|---|
| |
