Towards a complete map of the human long non-coding RNA transcriptome

By Barbara Uszczynska-Ratajczak, Julien Lagarde, Adam Frankish, Roderic Guigó, Rory Johnson. Nature reviews genetics, 2018

535 citations recorded by the source corpus.

Gene maps, or annotations, enable us to navigate the functional landscape of our genome. They are a resource upon which virtually all studies depend, from single-gene to genome-wide scales and from basic molecular biology to medical genetics. Yet present-day annotations suffer from trade-offs between quality and size, with serious but often unappreciated consequences for downstream studies. This is particularly true for long non-coding RNAs (lncRNAs), which are poorly characterized compared to protein-coding genes. Long-read sequencing technologies promise to improve current annotations, paving the way towards a complete annotation of lncRNAs expressed throughout a human lifetime. Virtually all studies depend on annotations, maps of the genome that catalogue gene loci and the sequences of their transcripts. This Review discusses the state of currently available long non-coding RNA annotations and the impact of emerging technologies such as long-read sequencing.

Subfields: Cancer Research, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/20aaf87420e3c87d7f6842a02d34cfda3db941e3

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Citations in the corpus

GENCODE reference annotation for the human and mouse genomes (2018, methodology): “Libraries were then sequenced using long-read sequencing technologies (31,32).”
Non-coding RNAs in disease: from mechanisms to therapeutics (2023, unknown): “Over the years, high-throughput sequencing and other technologies have led to the identification of a wide range of ncRNAs of different types and sizes 13,14 .”
Long Non-Coding RNA in the Pathogenesis of Cancers (2019, background): “So far, the functions of only a very few number of lncRNAs have been annotated [14,15], and various methodologies have been developed to explore the expression, distribution, and function of lncRNAs (Table 1).”
RNA Sequencing Data: Hitchhiker's Guide to Expression Analysis (2018, background): “Among others, further applications include spatial transcriptomics, where cellular positional information is maintained in the preparation of cDNA fragments [38] , hostpathogen interactions via “dual RNAseq”, where the transcriptomes of both host and pathogen are simultaneously assayed [39] , th”