SQANTI3: curation of long-read transcriptomes for accurate identification of known and novel isoforms

被引：44

作者：

Pardo-Palacios, Francisco J. ^{[1
,2
]}

Arzalluz-Luque, Angeles ^{[1
,2
]}

Kondratova, Liudmyla ^{[3
,4
]}

Salguero, Pedro ^{[2
]}

Mestre-Tomas, Jorge ^{[1
]}

Amorin, Rocio ^{[4
,5
]}

Estevan-Morio, Eva ^{[1
]}

Liu, Tianyuan ^{[1
]}

Nanni, Adalena ^{[6
]}

Mcintyre, Lauren ^{[4
,6
]}

Tseng, Elizabeth ^{[7
]}

Conesa, Ana ^{[1
]}

机构：

[1] Spanish Natl Res Council, Inst Integrat Syst Biol, Paterna, Valencia, Spain

[2] Univ Politecn Valencia, Dept Appl Stat & Operat Res & Qual, Valencia, Spain

[3] Univ Florida, Hort Sci Dept, Gainesville, FL USA

[4] Univ Florida, Genet Inst, Gainesville, FL USA

[5] Univ Florida, Dept Microbiol & Cell Sci, Gainesville, FL 32611 USA

[6] Univ Florida, Dept Mol Genet & Microbiol, Gainesville, FL USA

[7] Pacific Biosci, Menlo Pk, CA USA

来源：

NATURE METHODS | 2024年 / 21卷 / 05期

关键词：

D O I：

10.1038/s41592-024-02229-2

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

SQANTI3 is a tool designed for the quality control, curation and annotation of long-read transcript models obtained with third-generation sequencing technologies. Leveraging its annotation framework, SQANTI3 calculates quality descriptors of transcript models, junctions and transcript ends. With this information, potential artifacts can be identified and replaced with reliable sequences. Furthermore, the integrated functional annotation feature enables subsequent functional iso-transcriptomics analyses. SQANTI3 offers a flexible tool for quality control, curation and annotation of long-read RNA sequencing data.

引用

页码：793 / 797

页数：20

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