Genome-wide computational identification and manual annotation of human long noncoding RNA genes.

By Hui Jia, Maureen Osak, G. Bogu, L. Stanton, Rory Johnson, L. Lipovich. RNA: A publication of the RNA Society, 2010

381 citations recorded by the source corpus.

Subfields: Cancer Research, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/33c409c74a93c81be5d3b3c642ad1fd3c1cc7a52

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Cancer Research

In Molecular Biology

Citations in the corpus

Non-coding RNA: what is functional and what is junk? (2015, neutral): “…ncRNAs 9277 0.29** Median of 0.6*** Derrien et al. (2012) LncRNAs – Gencode v21 (as of 2014 November) 15877 0.50** NA www.gencodegenes.org/ stats.html Jia et al. (2010) 5446 0.17** NA Jia et al. (2010) Cabili – low confidence 8195 0.26 1 Cabili et al. (2011) Cabili – high confidence 4273 0.26 1…”
The Landscape of long non-coding RNA classification (2015, positive): “As mentioned previously, research has focussed on ncRNAs with a spliced structure, conserved sequence, and a polyA tail [18, 19, 34, 35, 71] (Figure 1).”
Roles, Functions, and Mechanisms of Long Non-coding RNAs in Cancer (2016, background): “Additionally, while there are long intergenic RNAs (lincRNAs) [39] including eRNAs from gene-distal enhancers [40], the majority of lncRNA genes are located within 10 kb of protein-coding genes [41] and many lncRNAs are antisense to coding genes or intronic [42].”
Large-scale prediction of long non-coding RNA functions in a coding–non-coding gene co-expression network (2011, background): “(52) has recently shown that most lncRNAs located within 10 kb of protein-coding genes are independent transcriptional units.”
GENCODE: The reference human genome annotation for The ENCODE Project (2012, methodology): “We are addressing this weakness and re-examining single exons lincRNAs based on annotation from Jia et al. (2010) in collaboration with the Lipovich group, and the data will be incorporated into GENCODE 10.”
Non-coding RNAs in Development and Disease: Background, Mechanisms, and Therapeutic Approaches. (2016, background): “Furthermore, unlike miRNAs, lncRNAs are relatively poorly conserved in terms of nucleotide sequence, even though they can be found in a broad range of species (96, 125, 220), including plants (256), yeast (111), prokaryotes (20), and viruses (227).”
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression (2012, methodology): “We checked the same-strand overlap against recent lncRNA catalogs: GENCODE v7 lncRNAs contain 30% of Jia et al. (2010) lncRNAs, 33% of Cabili et al. (2011) (stringent) lincRNAs, 39% of Cabili et al. (2011) (all) lincRNAs, and 12% of vlincs (Supplemental Fig.”
lincRNAs: Genomics, Evolution, and Mechanisms (2013, positive): “…2013), and other lincRNAs. lincRNA genes are preferentially found within 10 kb of proteincoding genes (Bertone et al., 2004; Ponjavic et al., 2009; Jia et al., 2010; van Bakel et al., 2010; Cabili et al., 2011; Sigova et al., 2013), which has led to the suggestion that many lincRNAs are…”