Reference-free assembly of long-read transcriptome sequencing data with RNA-Bloom2.

Ka Ming Nip, Saber Hafezqorani, Kristina K Gagalova, Readman Chiu, Chen Yang, René L Warren, Inanc Birol

May 2023 Nat Commun

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Posts referencing the article

Efficient Reference-free Long-read Transcriptome Assembly with RNA-Bloom2

Efficient Reference-free Long-read Transcriptome Assembly with RNA-Bloom2

RNA-Bloom2 is a new method for assembling long-read transcriptome data without a reference genome, enabling studies in species lacking high-quality genomes. It offers comparable quality with reduced memory and runtime, demonstrated in Sitka spruce.

STEM RTCL TV

August 20, 2023

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Abstract Synopsis

  • RNABloom2 is a new referencefree method for assembling longread transcriptome sequencing data, which can reconstruct transcripts without needing a reference genome, making it useful for studying species without high-quality genomes.
  • The method performs comparably to existing referencebased tools in terms of assembly quality, while also using significantly less memory (270-806%) of the peak memory and less runtime (36-108%) than other referencefree methods, making it more efficient.
  • RNABloom2 was successfully used to assemble the transcriptome of Picea sitchensis (Sitka spruce), demonstrating its potential for large-scale comparative transcriptomics in species lacking readily available genome references.]