Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

J. Pardo-Palacios, Francisco; Wang, Dingjie; Reese, Fairlie; Diekhans, Mark; Carbonell Sala, Sílvia; A. Williams, Brian; Loveland, Jane; De María, Maite; S. Adams, Matthew; Balderrama-Gutierrez, Gabriela; K. Behera, Amit; M. González, José; Hunt, Toby; Lagarde, Julien; Liang, Cindy; Li, Haoran; J. Meade, Marcus; A. Moraga Amador, David; D. Prjibelski, Andrey; Birol, İnanç; Bostan, Hamed; M. Brooks, Ashley; M. Brooks, Ashley; Hasan Çelik, Muhammed; Chen, Ying; R. M. Du, Mei; Felton, Colette; Göke, Jonathan; Hafezqorani, Saber; Herwig, Ralf; Kawaji, Hideya; Li, Jian‐Liang; Lienhard, Matthias; Lienhard, Matthias; Mikheenko, Alla; Mulligan, Dennis; Ming Nip, Ka; Pertea, Mihaela; E. Ritchie, Matthew; Sim, Andre; D. Tang, Alison; Wang, Changqing; Wang, Changqing; Wong, Brandon; Yang, Chen; Barnes, If; Berry, Andrew; Capella-Gutiérrez, Salvador; Cousineau, Alyssa; Dhillon, Namrita; M. Fernández, José; Ferrández-Peral, Luis; Garcia-Reyero, Natàlia; Götz, Stefan; Hernandéz-Ferrer, Carles; Kondratova, Liudmyla; Liu, Tianyuan; Martinez-Martin, Alessandra; Menor, Carlos; Mestre‐Tomás, Jorge; M. Mudge, Jonathan; G. Panayotova, Nedka; Paniagua, Alejandro; Repchevsky, Dmitry; Ren, Xingjie; C. Rouchka, Eric; Saint-John, Brandon; Sapena, Enrique; Sheynkman, Leon; Smith, Melissa; Suner, Marie‐Marthe; Takahashi, Hazuki; Youngworth, Ingrid; Carninci, Piero; D. Denslow, Nancy; Guigó, Roderic; E. Hunter, Margaret; Maehr, René; Shen, Yin; Tilgner, Hagen; Wold, B; Vollmers, Christopher; Frankish, Adam; Fai Au, Kin; Sheynkman, Gloria; Mortazavi, A; Conesa, Ana; N. Brooks, Angela; N. Brooks, Angela

doi:10.1038/s41592-024-02298-3

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Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

Published in Nature Methods • Jun 7, 2024

Authors:

Francisco J. Pardo-Palacios

Dingjie Wang

Fairlie Reese

Abstract

The Long-read RNA-Seq Genome Annotation Assessment Project Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. Using different protocols and sequencing platforms, the consortium generated over 427 million long-read sequences from complementary DNA ...

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Computational biology

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