Title | Functional annotation of human long noncoding RNAs via molecular phenotyping. |
Publication Type | Journal Article |
Year of Publication | 2020 |
Authors | Ramilowski JA, Yip CWai, Agrawal S, Chang J-C, Ciani Y, Kulakovskiy IV, Mendez M, Ooi JLi Ching, Ouyang JF, Parkinson N et al. |
Journal | Genome Res |
Volume | 30 |
Issue | 7 |
Pagination | 1060-1072 |
Date Published | 2020 07 |
ISSN | 1549-5469 |
Abstract | Long noncoding RNAs (lncRNAs) constitute the majority of transcripts in the mammalian genomes, and yet, their functions remain largely unknown. As part of the FANTOM6 project, we systematically knocked down the expression of 285 lncRNAs in human dermal fibroblasts and quantified cellular growth, morphological changes, and transcriptomic responses using Capped Analysis of Gene Expression (CAGE). Antisense oligonucleotides targeting the same lncRNAs exhibited global concordance, and the molecular phenotype, measured by CAGE, recapitulated the observed cellular phenotypes while providing additional insights on the affected genes and pathways. Here, we disseminate the largest-to-date lncRNA knockdown data set with molecular phenotyping (over 1000 CAGE deep-sequencing libraries) for further exploration and highlight functional roles for and . |
DOI | 10.1101/gr.254219.119 |
Alternate Journal | Genome Res |
PubMed ID | 32718982 |
PubMed Central ID | PMC7397864 |
Grant List | P30 CA006973 / CA / NCI NIH HHS / United States MC_UU_00007/16 / MRC_ / Medical Research Council / United Kingdom MC_UU_00007/11 / MRC_ / Medical Research Council / United Kingdom R01 CA200859 / CA / NCI NIH HHS / United States MC_UP_1102/1 / MRC_ / Medical Research Council / United Kingdom |
Related Faculty:
Luigi Marchionni, M.D., Ph.D.