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mirMachine: A One-Stop Shop for Plant miRNA Annotation
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JoVE Journal Biology
mirMachine: A One-Stop Shop for Plant miRNA Annotation

mirMachine: A One-Stop Shop for Plant miRNA Annotation

DOI:
10.3791/62430-v

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06:16 min

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May 01, 2021

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, ,
1U.S. Department of Agriculture – Agricultural Research Service, Western Regional Research Center,Crop Improvement and Genetics Research Unit, CA, USA, 2Montana BioAgriculture Inc., Missoula, MT, USA

Chapters

  • 00:04Introduction
  • 01:05The miRNA Machine (mirMachine) Setup and Testing
  • 02:23Homology-Based and Novel miRNA Identification
  • 03:42Advance Parameters
  • 04:35Results: Performance Evaluation of the mirMachine
  • 05:34Conclusion

Summary

Automatic Translation

Automatic Translation

Herein, we present a new and fully automated miRNA pipeline, mirMachine that 1) can identify known and novel miRNAs more accurately and 2) is fully automated and freely available. Users can now execute a short submission script to run the fully automated mirMachine pipeline.

Tags

Keywords: MirMachinePlant MiRNA AnnotationComputational IdentificationHigh SensitivityHigh SpecificityAutomatedFreely AvailableGenome-wide DistributionPreliminary DataSoftware DependenciesTest DataHairpinsMature MiRNAPre-miRNAMiRNA Star SequencesChromosomesHomology-based IdentificationSRNA-seqFASTQFASTAAdapter TrimmingAbundance Table

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