All the tools you need to analyse your miRNAs

Overview
Tools4miRs is a first, manually curated platform gathering at the present over 170 methods for the broadly-defined miRNA analysis. All tools in Tools4miRs are classified in the four general and seven more detailed categories. In each of the aforementioned sections user can additionally filter available methods according to his research needs, capabilities and preferences. Beside basic summary seen at first glance, the user can get detailed information concerning each tool. Tools4miRs is also a web-based target prediction meta-server incorporating user-designated target prediction methods in the analysis of user-provided data. Results generated by described meta-server can be presented in basic and extended form, while user can can additionally filter them using Union, Intersection or Consensus method. Tools4miRs is free, open-access service which will be systematically updated.
miRNA Biogenesis and Function
Concept, Design, Animation: Katharina Petsche
Statistics
Tools4miRs v.1.1
Number of tools: 201
Last update: Sept. 25, 2018, midnight
Latest Literature
  • The sequence features that define efficient and specific hAGO2-dependent miRNA silencing guides.
    Yan Y, Acevedo M, Mignacca L, Desjardins P, Scott N, Imane R, Quenneville J, Robitaille J, Feghaly A, Gagnon E, Ferbeyre G, Major F
    Nucleic Acids Res. 2018 Sep 19;46(16):8181-8196 Pubmed >>
  • Crosstalk between alternative polyadenylation and miRNA in regulation of protein translational efficiency.
    Fu Y, Chen L, Chen C, Ge Y, Kang M, Song Z, Li J, Feng Y, Huo Z, He G, Hou M, Chen S, Xu A
    Genome Res. 2018 Sep 18;: Pubmed >>
  • Discovery of microRNA-like RNAs during early fruiting body development in the model mushroom Coprinopsis cinerea.
    Lau AYT, Cheng X, Cheng CK, Nong W, Cheung MK, Chan RH, Hui JHL, Kwan HS
    PLoS One. 2018;13(9):e0198234 Pubmed >>
  • Shifts in ovine cardiopulmonary microRNA expression in late gestation and the perinatal period.
    Krauss RH, Phipson B, Oshlack A, Prasad-Gupta N, Cheung MM, Smolich JJ, Pepe S
    PLoS One. 2018;13(9):e0204038 Pubmed >>
  • MicroRNA profiling associated with muscle growth in modern broilers compared to an unselected chicken breed.
    Khatri B, Seo D, Shouse S, Pan JH, Hudson NJ, Kim JK, Bottje W, Kong BC
    BMC Genomics. 2018 Sep 17;19(1):683 Pubmed >>
  • MicroRNA therapy for infected wounds.
    Hiebert P, Werner S
    EMBO Mol Med. 2018 Sep 17;: Pubmed >>
  • Correction: miRNA independent hepacivirus variants suggest a strong evolutionary pressure to maintain miR-122 dependence.
    Yu Y, Scheel TKH, Luna JM, Chung H, Nishiuchi E, Scull MA, Echeverría N, Ricardo-Lax I, Kapoor A, Lipkin WI, Divers TJ, Antczak DF, Tennant BC, Rice CM
    PLoS Pathog. 2018 Sep;14(9):e1007303 Pubmed >>
  • Differential expression of miRNA-146a and miRNA-155 in gastritis induced by Helicobacter pylori infection in paediatric patients, adults, and an animal model.
    Cortés-Márquez AC, Mendoza-Elizalde S, Arenas-Huertero F, Trillo-Tinoco J, Valencia-Mayoral P, Consuelo-Sánchez A, Zarate-Franco J, Dionicio-Avendaño AR, Herrera-Esquivel JJ, Recinos-Carrera EG, Colín-Valverde C, Rivera-Gutiérrez S, Reyes-López A, Vigueras-Galindo JC, Velázquez-Guadarrama N
    BMC Infect Dis. 2018 Sep 15;18(1):463 Pubmed >>
  • Erratum: Comprehensive multi-center assessment of small RNA-seq methods for quantitative miRNA profiling.
    Giraldez MD, Spengler RM, Etheridge A, Godoy PM, Barczak AJ, Srinivasan S, Hoff PL, Tanriverdi K, Courtright A, Lu S, Khoory J, Rubio R, Baxter D, Driedonks TAP, Buermans HPJ, Hoen ENMN, Jiang H, Wang K, Ghiran I, Wang YE, Keuren-Jensen KV, Freedman JE, Woodruff PG, Laurent LC, Erle DJ, Galas DJ, Tewari M
    Nat Biotechnol. 2018 Sep 06;36(9):899 Pubmed >>
  • Decreasing miRNA sequencing bias using a single adapter and circularization approach.
    Barberán-Soler S, Vo JM, Hogans RE, Dallas A, Johnston BH, Kazakov SA
    Genome Biol. 2018 Sep 03;19(1):105 Pubmed >>
  • Systemic control of legume susceptibility to rhizobial infection by a mobile microRNA.
    Tsikou D, Yan Z, Holt DB, Abel NB, Reid DE, Madsen LH, Bhasin H, Sexauer M, Stougaard J, Markmann K
    Science. 2018 Aug 30;: Pubmed >>
  • Predictive modeling of miRNA-mediated predisposition to alcohol-related phenotypes in mouse.
    Rudra P, Shi WJ, Russell P, Vestal B, Tabakoff B, Hoffman P, Kechris K, Saba L
    BMC Genomics. 2018 Aug 29;19(1):639 Pubmed >>
  • Correction: Expansion of Capsicum annum fruit is linked to dynamic tissue-specific differential expression of miRNA and siRNA profiles.
    Taller D, Bálint J, Gyula P, Nagy T, Barta E, Baksa I, Szittya G, Taller J, Havelda Z
    PLoS One. 2018;13(8):e0203582 Pubmed >>
  • miRge 2.0 for comprehensive analysis of microRNA sequencing data.
    Lu Y, Baras AS, Halushka MK
    BMC Bioinformatics. 2018 Jul 23;19(1):275 Pubmed >>
  • Argonaute-miRNA Complexes Silence Target mRNAs in the Nucleus of Mammalian Stem Cells.
    Sarshad AA, Juan AH, Muler AIC, Anastasakis DG, Wang X, Genzor P, Feng X, Tsai PF, Sun HW, Haase AD, Sartorelli V, Hafner M
    Mol Cell. 2018 Aug 14;: Pubmed >>
  • MDHGI: Matrix Decomposition and Heterogeneous Graph Inference for miRNA-disease association prediction.
    Chen X, Yin J, Qu J, Huang L
    PLoS Comput Biol. 2018 Aug 24;14(8):e1006418 Pubmed >>
  • Genome-wide identification of clusters of predicted microRNA binding sites as microRNA sponge candidates.
    Pan X, Wenzel A, Jensen LJ, Gorodkin J
    PLoS One. 2018;13(8):e0202369 Pubmed >>
  • Construction and analysis of mRNA, miRNA, lncRNA, and TF regulatory networks reveal the key genes associated with prostate cancer.
    Ye Y, Li SL, Wang SY
    PLoS One. 2018;13(8):e0198055 Pubmed >>
  • Malignant canine mammary epithelial cells shed exosomes containing differentially expressed microRNA that regulate oncogenic networks.
    Fish EJ, Irizarry KJ, DeInnocentes P, Ellis CJ, Prasad N, Moss AG, Curt Bird R
    BMC Cancer. 2018 Aug 20;18(1):832 Pubmed >>
  • The methyltransferase HEN1 is required in Nematostella vectensis for microRNA and piRNA stability as well as larval metamorphosis.
    Modepalli V, Fridrich A, Agron M, Moran Y
    PLoS Genet. 2018 Aug 17;14(8):e1007590 Pubmed >>