A major microRNA repository comprising of microRNA sequences and annotation obtained from published literature wherein both precursor and mature sequences can be retrieved from the database.
Kozomara A, Griffiths-Jones S. miRBase: integrating microRNA annotation and
deep-sequencing data. Nucleic Acids Res. 2011 Jan;39(Database issue):D152-7. Epub
2010 Oct 30. PubMed PMID: 21037258
Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ. miRBase: tools for
microRNA genomics. Nucleic Acids Res. 2008 Jan;36(Database issue):D154-8. Epub
2007 Nov 8. PubMed PMID: 17991681
Tool for microRNA target prediction and enrichment and depletion analysis in Gene Ontology terms.
Gaidatzis D, van Nimwegen E, Gaidatzis D, van Nimwegen E, Hausser J, Zavolan M. Inference of miRNA targets
using evolutionary conservation and pathway analysis. BMC Bioinformatics. 2007
Mar 1;8:69. Erratum in: BMC Bioinformatics. 2007 Jul 12;8(1):248. PubMed PMID:
17331257
In silico tool for prediction of microRNA targets in Drosophila by the process of targeting a specific gene or by conducting a genome-wide search.
Burgler C, Macdonald PM. Prediction and verification of microRNA targets by
MovingTargets, a highly adaptable prediction method. BMC Genomics. 2005 Jun
8;6:88. PubMed PMID: 15943864; PubMed Central PMCID: PMC1180435.
2005
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The MovingTargets software is available on DVD by request The MovingTargets software is available on DVD by request
The RNA-Binding Protein DataBase (RBPDB) predominantly contains experimentally derived information on RNA-binding sites, obtained by manual curation from primary literature sources.
Cook KB, Kazan H, Zuberi K, Morris Q, Hughes TR. RBPDB: a database of
RNA-binding specificities. Nucleic Acids Res. 2011 Jan;39(Database issue):D301-8.
Epub 2010 Oct 29. PubMed PMID: 21036867
RBPmap enables the users to select motifs from a large database of experimentally defined motifs. RBPmap incorporates a position-specific background model, designed uniquely for different genomic regions, such as splice sites, 592 and 392 UTRs, non-coding RNA and intergenic regions.
Inbal Paz, 1 Idit Kosti, 1 Manuel Ares, Jr, 2 Melissa Cline, 3 and Yael Mandel-Gutfreund.RBPmap: A web server for mapping binding sites of RNA-binding proteins. Nucleic Acids Res. 2014 Jul 1; 42(Web Server issue): W36196W367. PMCID: PMC4086114
Online resource for expression information on small RNAs (mostly miRNAs) for human, mouse, rat, zebrafish, worm and fruitfly.
Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice
A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S,
Fo\E0 R, Schliwka J, Fuchs U, Novosel A, MFCller RU, Schermer B, Bissels U, Inman J,
Phan Q, Chien M, Weir DB, Choksi R, De Vita G, Frezzetti D, Trompeter HI, Hornung
V, Teng G, Hartmann G, Palkovits M, Di Lauro R, Wernet P, Macino G, Rogler CE,
Nagle JW, Ju J, Papavasiliou FN, Benzing T, Lichter P, Tam W, Brownstein MJ,
Bosio A, Borkhardt A, Russo JJ, Sander C, Zavolan M, Tuschl T. A mammalian
microRNA expression atlas based on small RNA library sequencing. Cell. 2007 Jun
29;129(7):1401-14. PubMed PMID: 17604727; PubMed Central PMCID: PMC2681231.
2007
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Datasets downloadable Datasets downloadable
Please use the following to cite: "Abinaya S and Acharya KK* (*Correspondence: kshitish@ibab.ac.in), A comparative account of primer designing resources, feature-validations and application-based categorizations : Junction primers; In: Startbioinfo; 10 Nov 2010, www.startbioinfo.com/junction-primers/"
