ArticleRNA (New York, N.Y.)2014
Identification of expressed and conserved human noncoding RNAs.
Article in RNA (New York, N.Y.), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
31 citing papers in PubMed, 52 citations in OpenAlex.
- Detecting and quantifying circular RNAs in terabyte-scale RNA-seq datasets with CIRI3.Nature biotechnology · 2026Article
- Multidimensional conservation analysis decodes the expression of conserved long noncoding RNAs.Life science alliance · 2023Article
- Down-regulation of human long non-coding RNA LINC01187 is associated with nephropathies.Journal of cellular and molecular medicine · 2023Article
- Genome-wide identification and characterization of tissue specific long non-coding RNAs and circular RNAs in common carp (Frontiers in genetics · 2023Article
- Article
- Hypoxia upregulates the expression of lncRNA H19 in non-small cell lung cancer cells and induces drug resistance.Translational cancer research · 2022Article
- Bioinformatics Approaches for Determining the Functional Impact of Repetitive Elements on Non-coding RNAs.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Article
- A short ORF-encoded transcriptional regulator.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- The lncRNA Toolkit: Databases and In Silico Tools for lncRNA Analysis.Non-coding RNA · 2020Review
- Mitochondrial RNA Expression and Single Nucleotide Variants in Association with Clinical Parameters in Primary Breast Cancers.Cancers · 2018Article
- Short and Long Noncoding RNAs Regulate the Epigenetic Status of Cells.Antioxidants & redox signaling · 2018Review
- Genome-wide characterization of lncRNAs in acute myeloid leukemia.Briefings in bioinformatics · 2018Article
- Analysis of human ES cell differentiation establishes that the dominant isoforms of the lncRNAs RMST and FIRRE are circular.BMC genomics · 2018Article
- Article
- Long Non-coding RNAs in Endothelial Biology.Frontiers in physiology · 2018Review
- Genome-wide association study identifies distinct genetic contributions to prognosis and susceptibility in Crohn's disease.Nature genetics · 2017Article
- Emerging roles for long noncoding RNAs in skeletal biology and disease.Connective tissue research · 2017Review
- SNHG5 promotes colorectal cancer cell survival by counteracting STAU1-mediated mRNA destabilization.Nature communications · 2016Article
- SNHG16 is regulated by the Wnt pathway in colorectal cancer and affects genes involved in lipid metabolism.Molecular oncology · 2016Article
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The past decade has shown mammalian genomes to be pervasively transcribed and identified thousands of noncoding (nc) transcripts. It is currently unclear to what extent these transcripts are of functional importance, as experimental functional evidence exists for only a small fraction. Here, we characterize the expression and evolutionary conservation properties of 12,115 known and novel nc transcripts, including structural RNAs, long nc RNAs (lncRNAs), antisense RNAs, EvoFold predictions, ultraconserved elements, and expressed nc regions. Expression levels are evaluated across 12 human tissues using a custom-designed microarray, supplemented with RNAseq. Conservation levels are evaluated at both the base level and at the syntenic level. We combine these measures with epigenetic mark annotations to identify subsets of novel nc transcripts that show characteristics similar to known functional ncRNAs. Few novel nc transcripts show both high expression and conservation levels. However, overall, we observe a positive correlation between expression and both conservation and epigenetic annotations, suggesting that a subset of the expressed transcripts are under purifying selection and likely functional. The identified subsets of expressed and conserved novel nc transcripts may form the basis for further functional characterization.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.