smalldisco, a pipeline for siRNA discovery and 3′ tail identification

Ian V. Caldas, Leanne H. Kelley, Yasir H. Ahmed-Braimah, Eleanor M. Maine

Research output: Contribution to journalArticlepeer-review


Capturing and sequencing small RNAs is standard practice; however, identification of a group of these small RNAs—small interfering RNAs (siRNAs)—has been more difficult. We present smalldisco, a command-line tool for small interfering RNA discovery and annotation from small RNA-seq datasets. smalldisco can distinguish short reads that map antisense to an annotated genomic feature (e.g. exons or mRNAs), annotate these siRNAs, and quantify their abundance. smalldisco also uses the program Tailor to quantify 3′ nontemplated nucleotides of siRNAs or any small RNA species. smalldisco and supporting documentation are available for download from GitHub (

Original languageEnglish (US)
Article numberjkad092
JournalG3: Genes, Genomes, Genetics
Issue number6
StatePublished - Jun 2023


  • nontemplated nucleotide addition
  • siRNA identification
  • small RNA
  • small RNA 3′ tailing modification

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Genetics(clinical)


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