The DOI matches its Crossref record; 12 of the 12 references it cites were found in a registry or an index.
Genomic and Transcriptional Co-Localization of Protein-Coding and Long Non-Coding RNA Pairs in the Developing Brain
Open accessAbstract
Besides protein-coding mRNAs, eukaryotic transcriptomes include many long non-protein-coding RNAs (ncRNAs) of unknown function that are transcribed away from protein-coding loci. Here, we have identified 659 intergenic long ncRNAs whose genomic sequences individually exhibit evolutionary constraint, a hallmark of functionality. Of this set, those expressed in the brain are more frequently conserved and are significantly enriched with predicted RNA secondary structures. Furthermore, brain-expressed long ncRNAs are preferentially located adjacent to protein-coding genes that are (1) also expressed in the brain and (2) involved in transcriptional regulation or in nervous system development. This led us to the hypothesis that spatiotemporal co-expression of ncRNAs and nearby protein-coding genes represents a general phenomenon, a prediction that was confirmed subsequently by in situ hybridisation in developing and adult mouse brain. We provide the full set of constrained long ncRNAs as an important experimental resource and present, for the first time, substantive and predictive criteria for prioritising long ncRNA and mRNA transcript pairs when investigating their biological functions and contributions to development and disease.
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Gene Ontology: tool for the unification of biology
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Genome-wide atlas of gene expression in the adult mouse brain
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Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
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MethodA gene atlas of the mouse and human protein-encoding transcriptomes
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Genome-wide analysis of mammalian promoter architecture and evolution
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Self-citationSpecific expression of long noncoding RNAs in the mouse brain
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Highly Conserved Non-Coding Sequences Are Associated with Vertebrate Development
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Integrated lncRNA function upon genomic and epigenomic regulation
Herman, A. B., Tsitsipatis, D., & Gorospe, M. (2022) · Molecular Cell · doi:10.1016/j.molcel.2022.05.027 · Cited by 747
Neural tissue engineering options for peripheral nerve regeneration
Gu, X., Ding, F., & Williams, D. F. (2014) · Biomaterials · doi:10.1016/j.biomaterials.2014.04.064 · Cited by 630
Ng, S., Johnson, R., & Stanton, L. W. (2012) · The EMBO Journal · doi:10.1038/emboj.2011.459 · Cited by 514
Divergent lncRNAs Regulate Gene Expression and Lineage Differentiation in Pluripotent Cells
Luo, S., Lu, J. Y., Liu, L., Yin, Y., Chen, C., Han, X., Wu, B., Xu, R., Liu, W., Yan, P., et al. (2016) · Cell Stem Cell · doi:10.1016/j.stem.2016.01.024 · Cited by 409
Metadata
- Authors
- Ponjavic, J., Oliver, P. L., Lunter, G., & Ponting, C. P.
- Venue
- PLoS Genetics
- Publisher
- Public Library of Science (PLoS)
- Published
- 2009-08-21
- Volume
- 5
- Issue
- 8
- Pages
- e1000617
- ISSN
- 1553-7390 (ISSN-L)
- 1553-7404
- OpenAlex
- W2038968682
- Cited by
- 371
- References
- 12
- FWCI
- 6.80
- Type
- journal article
- Language
- en
- Open access
- gold
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- Ponjavic, J., Oliver, P. L., Lunter, G., & Ponting, C. P. (2009). Genomic and Transcriptional Co-Localization of Protein-Coding and Long Non-Coding RNA Pairs in the Developing Brain. PLoS Genetics. https://doi.org/10.1371/journal.pgen.1000617
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Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
