IsomiR_Find

IsomiR_Find is a software tool that identifies disease or phenotype-related SNPs and isomiRs in individuals. The tool uses an approach that combines SNP information from the 1000 Genomes Project with individual miRNA sequencing data. The process involves the following steps:

1. Extracting SNP information from the 1000 Genomes Project.
2. Mapping SNPs to pre-miRNAs based on whole-genome coordinates.

3. Constructing SNP-pre-miRNA sequences.

4. Matpred2, another software tool developed by the authors, is used to identify the four splicing sites of mature miRNAs.

5. Identifying isomiRs based on the splicing sites.

6. Verifying the identified isomiRs by searching within individual miRNA sequencing data.

Topic

Functional, regulatory and non-coding RNA;DNA polymorphism;Personalised medicine

Detail

  • Operation: Variant effect prediction;miRNA target prediction;SNP detection

  • Software interface: Command-line interface

  • Language: Perl

  • License: Not stated

  • Cost: Free of charge

  • Version name: -

  • Credit: The Youth Science Fund of Heilongjiang Province of China, the Fundamental Research Funds in Heilongjiang Provincial Universities, the Science and Technology Project of Qiqihar.

  • Input: -

  • Output: -

  • Contact: Jidong Ru rujidong@126.com

  • Collection: -

  • Maturity: -

Publications

  • An Approach to Identify Individual Functional Single Nucleotide Polymorphisms and Isoform MicroRNAs.
  • Wang Y, et al. An Approach to Identify Individual Functional Single Nucleotide Polymorphisms and Isoform MicroRNAs. An Approach to Identify Individual Functional Single Nucleotide Polymorphisms and Isoform MicroRNAs. 2019; 2019:6193673. doi: 10.1155/2019/6193673
  • https://doi.org/10.1155/2019/6193673
  • PMID: 31467902
  • PMC: PMC6699389

Download and documentation

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