TY - JOUR T1 - Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq) JF - Nature Communications Y1 - 2016 A1 - Lagarde, Julien A1 - Uszczynska-Ratajczak, Barbara A1 - Santoyo-López, Javier A1 - Gonzalez, Jose Manuel A1 - Tapanari, Electra A1 - Mudge, Jonathan M. A1 - Steward, Charles A. A1 - Wilming, Laurens A1 - Tanzer, Andrea A1 - Howald, Cédric A1 - Chrast, Jacqueline A1 - Vela-Boza, Alicia A1 - Rueda, Antonio A1 - Lopez-Domingo, Francisco J. A1 - Dopazo, Joaquin A1 - Reymond, Alexandre A1 - Guigó, Roderic A1 - Harrow, Jennifer VL - 7 UR - http://www.nature.com/articles/ncomms12339http://www.nature.com/articles/ncomms12339.pdfhttp://www.nature.com/articles/ncomms12339.pdfhttp://www.nature.com/articles/ncomms12339 IS - 1 JO - Nat Commun ER - TY - JOUR T1 - Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq). JF - Nature communications Y1 - 2016 A1 - Lagarde, Julien A1 - Uszczynska-Ratajczak, Barbara A1 - Santoyo-López, Javier A1 - Gonzalez, Jose Manuel A1 - Tapanari, Electra A1 - Mudge, Jonathan M A1 - Steward, Charles A A1 - Wilming, Laurens A1 - Tanzer, Andrea A1 - Howald, Cédric A1 - Chrast, Jacqueline A1 - Vela-Boza, Alicia A1 - Antonio Rueda A1 - López-Domingo, Francisco J A1 - Dopazo, Joaquin A1 - Reymond, Alexandre A1 - Guigó, Roderic A1 - Harrow, Jennifer AB - Long non-coding RNAs (lncRNAs) constitute a large, yet mostly uncharacterized fraction of the mammalian transcriptome. Such characterization requires a comprehensive, high-quality annotation of their gene structure and boundaries, which is currently lacking. Here we describe RACE-Seq, an experimental workflow designed to address this based on RACE (rapid amplification of cDNA ends) and long-read RNA sequencing. We apply RACE-Seq to 398 human lncRNA genes in seven tissues, leading to the discovery of 2,556 on-target, novel transcripts. About 60% of the targeted loci are extended in either 5’ or 3’, often reaching genomic hallmarks of gene boundaries. Analysis of the novel transcripts suggests that lncRNAs are as long, have as many exons and undergo as much alternative splicing as protein-coding genes, contrary to current assumptions. Overall, we show that RACE-Seq is an effective tool to annotate an organism’s deep transcriptome, and compares favourably to other targeted sequencing techniques. VL - 7 UR - http://www.nature.com/articles/ncomms12339 ER -