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Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
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SQANTI-SIM: a simulator of controlled transcript novelty for lrRNA-seq benchmark
Jorge Mestre-Tomás1, Tianyuan Liu1, Francisco Pardo-Palacios1
1Institute for Integrative Systems Biology, Spanish National Research Council, Catedràtic Agustín Escardino Benlloch, Paterna, 46980, Spain.
Biorxiv : the Preprint Server for Biology
|September 4, 2023
Summary
SQANTI-SIM is a new tool that simulates long-read RNA sequencing data. It helps researchers accurately assess transcript discovery methods by managing novel and annotated transcripts.
Area of Science:
- Genomics
- Bioinformatics
Background:
- Long-read RNA sequencing (lrRNA-seq) is crucial for discovering novel transcripts.
- Evaluating the accuracy of lrRNA-seq analysis pipelines is challenging due to transcript novelty.
Conclusions:
- SQANTI-SIM provides a robust platform for simulating lrRNA-seq data.
- Facilitates accurate benchmarking of transcript discovery tools.
- Advances the field of multi-omics data simulation for RNA sequencing.
Keywords:
SQANTIisoform discoverylong-read transcriptomicstranscript simulationtranscriptome reconstructionMore Related Videos
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