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CRSP: Comparative RNA-seq pipeline for species lacking both of sequenced genomes and reference transcripts

ABSTRACT: CRSP: Comparative RNA-seq pipeline for species lacking both of sequenced genomes and reference transcripts

PROVIDER: PRJNA799778 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17713529_1.fastq.gz	Fastqsanger.gz
	SRR17713529_2.fastq.gz	Fastqsanger.gz

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CRSP: Comparative RNA-seq pipeline for species lacking both of sequenced genomes and reference transcripts

Project description:RNA sequencing (RNA-seq) has been a widely used high-throughput method to characterize transcriptomic dynamics spatiotemporally. However, typical RNA-seq data analysis pipelines depend on either a sequenced genome or reference transcripts. This constriction makes the use of RNA-seq for species lacking both of sequenced genomes and reference transcripts challenging. To solve this problem, we developed CRSP, an RNA-seq pipeline integrating multiple comparative species strategy but not depending on a specific sequenced genome or reference transcripts. Benchmarking suggests the CRSP tool can achieve high accuracy to quantify gene expression levels.

2023-08-10 | GSE194237 | GEO