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: 203
Last update: Oct. 22, 2020, midnight
Latest Literature
  • MCCMF: collaborative matrix factorization based on matrix completion for predicting miRNA-disease associations.
    Wu TR, Yin MM, Jiao CN, Gao YL, Kong XZ, Liu JX
    BMC Bioinformatics. 2020 Oct 14;21(1):454 Pubmed >>
  • A MicroRNA Linking Human Positive Selection and Metabolic Disorders.
    Wang L, Sinnott-Armstrong N, Wagschal A, Wark AR, Camporez JP, Perry RJ, Ji F, Sohn Y, Oh J, Wu S, Chery J, Moud BN, Saadat A, Dankel SN, Mellgren G, Tallapragada DSP, Strobel SM, Lee MJ, Tewhey R, Sabeti PC, Schaefer A, Petri A, Kauppinen S, Chung RT, Soukas A, Avruch J, Fried SK, Hauner H, Sadreyev RI, Shulman GI, Claussnitzer M, Näär AM
    Cell. 2020 Oct 13;: Pubmed >>
  • Biomarker exploration of microRNA-203 as a promising substrate for predicting poor survival outcome in colorectal cancer.
    Peng Q, Shen Y, Zhao P, Cai S, Feng Z, Cheng M, Wu Y, Zhu Y
    BMC Cancer. 2020 Oct 15;20(1):1003 Pubmed >>
  • A pseudo-temporal causality approach to identifying miRNA-mRNA interactions during biological processes.
    Cifuentes-Bernal AM, Pham VV, Li X, Liu L, Li J, Le TD
    Bioinformatics. 2020 Oct 18;: Pubmed >>
  • ERH facilitates microRNA maturation through the interaction with the N-terminus of DGCR8.
    Kwon SC, Jang H, Shen S, Baek SC, Kim K, Yang J, Kim J, Kim JS, Wang S, Shi Y, Li F, Kim VN
    Nucleic Acids Res. 2020 Oct 09;: Pubmed >>
  • Development of MicroRNA-Based Therapeutics for Vascular Disease.
    Jones KJ, Searles CD
    Circ Res. 2020 Oct 09;127(9):1179-1181 Pubmed >>
  • Construction of an 11-microRNA-based signature and a prognostic nomogram to predict the overall survival of head and neck squamous cell carcinoma patients.
    Huang Y, Liu Z, Zhong L, Wen Y, Ye Q, Cao D, Li P, Liu Y
    BMC Genomics. 2020 Oct 06;21(1):691 Pubmed >>
  • Identification of miRNA-eQTLs in maize mature leaf by GWAS.
    Chen SY, Su MH, Kremling KA, Lepak NK, Romay MC, Sun Q, Bradbury PJ, Buckler ES, Ku HM
    BMC Genomics. 2020 Oct 06;21(1):689 Pubmed >>
  • Correction for Wang et al., Regenerative therapy based on miRNA-302 mimics for enhancing host recovery from pneumonia caused by Streptococcus pneumoniae.

    Proc Natl Acad Sci U S A. 2020 Oct 05;: Pubmed >>
  • Integrated analysis of miRNA and mRNA expression profiles in testes of Duroc and Meishan boars.
    Ding H, Liu M, Zhou C, You X, Su T, Yang Y, Xu D
    BMC Genomics. 2020 Oct 02;21(1):686 Pubmed >>
  • NormiRazor: tool applying GPU-accelerated computing for determination of internal references in microRNA transcription studies.
    Grabia S, Smyczynska U, Pagacz K, Fendler W
    BMC Bioinformatics. 2020 Sep 29;21(1):425 Pubmed >>
  • Reconstruction of lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveals functional lncRNAs in skin cutaneous melanoma.
    Zhu J, Deng J, Zhang L, Zhao J, Zhou F, Liu N, Cai R, Wu J, Shu B, Qi S
    BMC Cancer. 2020 Sep 29;20(1):927 Pubmed >>
  • miRNASNP-v3: a comprehensive database for SNPs and disease-related variations in miRNAs and miRNA targets.
    Liu CJ, Fu X, Xia M, Zhang Q, Gu Z, Guo AY
    Nucleic Acids Res. 2020 Sep 29;: Pubmed >>
  • Quantitative and time-resolved miRNA pattern of early human T cell activation.
    Diener C, Hart M, Kehl T, Rheinheimer S, Ludwig N, Krammes L, Pawusch S, Lenhof K, Tänzer T, Schub D, Sester M, Walch-Rückheim B, Keller A, Lenhof HP, Meese E
    Nucleic Acids Res. 2020 Sep 29;: Pubmed >>
  • Fine-tuning Nanog expression heterogeneity in embryonic stem cells by regulating a Nanog transcript-specific microRNA.
    Samanta T, Kar S
    FEBS Lett. 2020 Sep 23;: Pubmed >>
  • Integrated sRNAome and RNA-Seq analysis reveals miRNA effects on betalain biosynthesis in pitaya.
    Chen C, Xie F, Hua Q, Zur NT, Zhang L, Zhang Z, Zhang R, Zhao J, Hu G, Qin Y
    BMC Plant Biol. 2020 Sep 22;20(1):437 Pubmed >>
  • In silico transcriptional analysis of mRNA and miRNA reveals unique biosignatures that characterizes different types of diabetes.
    Cubillos-Angulo JM, Vinhaes CL, Fukutani ER, Albuquerque VVS, Queiroz ATL, Andrade BB, Fukutani KF
    PLoS One. 2020;15(9):e0239061 Pubmed >>
  • Development of a serum miRNA panel for detection of early stage non-small cell lung cancer.
    Ying L, Du L, Zou R, Shi L, Zhang N, Jin J, Xu C, Zhang F, Zhu C, Wu J, Chen K, Huang M, Wu Y, Zhang Y, Zheng W, Pan X, Chen B, Lin A, Tam JKC, van Dam RM, Lai DTM, Chia KS, Zhou L, Too HP, Yu H, Mao W, Su D
    Proc Natl Acad Sci U S A. 2020 Sep 17;: Pubmed >>
  • Multi-omics profiling reveals microRNA-mediated insulin signaling networks.
    Lin YC, Huang HY, Shrestha S, Chou CH, Chen YH, Chen CR, Hong HC, Li J, Chang YA, Chiew MY, Huang YR, Tu SJ, Sun TH, Weng SL, Tseng CP, Huang HD
    BMC Bioinformatics. 2020 Sep 17;21(Suppl 13):389 Pubmed >>
  • An improvement of ComiR algorithm for microRNA target prediction by exploiting coding region sequences of mRNAs.
    Bertolazzi G, Benos PV, Tumminello M, Coronnello C
    BMC Bioinformatics. 2020 Sep 16;21(Suppl 8):201 Pubmed >>