The DOI matches its Crossref record; 12 of the 12 references it cites were found in a registry or an index.
Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos
Open accessAbstract
Circular RNAs (circRNAs) are a new class of non-polyadenylated non-coding RNAs that may play important roles in many biological processes. Here we develop a single-cell universal poly(A)-independent RNA sequencing (SUPeR-seq) method to sequence both polyadenylated and non-polyadenylated RNAs from individual cells. This method exhibits robust sensitivity, precision and accuracy. We discover 2891 circRNAs and 913 novel linear transcripts in mouse preimplantation embryos and further analyze the abundance of circRNAs along development, the function of enriched genes, and sequence features of circRNAs. Our work is key to deciphering regulation mechanisms of circRNAs during mammalian early embryonic development.
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Kim, D., Pertea, G., Trapnell, C., Pimentel, H., Kelley, R., & Salzberg, S. L. (2013) · Genome Biology · doi:10.1186/gb-2013-14-4-r36 · Cited by 12,668
<tt>BLAT</tt> —The <tt>BLAST</tt> -Like Alignment Tool
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Circular RNAs are a large class of animal RNAs with regulatory potency
Memczak, S., Jens, M., Elefsinioti, A., Torti, F., Krueger, J., Rybak, A., Maier, L., Mackowiak, S. D., Gregersen, L. H., Munschauer, M., et al. (2013) · Nature · doi:10.1038/nature11928 · Cited by 7,990
Natural RNA circles function as efficient microRNA sponges
Hansen, T. B., Jensen, T. I., Clausen, B. H., Bramsen, J. B., Finsen, B., Damgaard, C. K., & Kjems, J. (2013) · Nature · doi:10.1038/nature11993 · Cited by 7,985
Circular RNAs are abundant, conserved, and associated with ALU repeats
Jeck, W. R., Sorrentino, J. A., Wang, K., Slevin, M. K., Burd, C. E., Liu, J., Marzluff, W. F., & Sharpless, N. E. (2013) · RNA · doi:10.1261/rna.035667.112 · Cited by 4,388
The ground state of embryonic stem cell self-renewal
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Smart-seq2 for sensitive full-length transcriptome profiling in single cells
Picelli, S., Björklund, Å. K., Faridani, O. R., Sagasser, S., Winberg, G., & Sandberg, R. (2013) · Nature Methods · doi:10.1038/nmeth.2639 · Cited by 2,358 · cited 6×
“The mean Pearson correlation coefficient (r) for the four technical replicates of 10 pg total RNAs was 0.95, suggesting high reproducibility of SUPeR-seq, comparable to that of Smart-Seq2 [4] (Fig.”
BackgroundMethodInfluentialCircular intronic long noncoding RNAs
Zhang, Y., Zhang, X.-O., Chen, T., Xiang, J.-F., Yin, Q.-F., Xing, Y.-H., Zhu, S., Yang, L., & Chen, L.-L. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.08.017 · Cited by 2,221
Self-citationComplementary Sequence-Mediated Exon Circularization
Zhang, X.-O., Wang, H.-B., Zhang, Y., Lu, X., Chen, L.-L., & Yang, L. (2014) · Cell · doi:10.1016/j.cell.2014.09.001 · Cited by 1,999 · cited 2×
“These results agree well with previous findings in cultured cell lines [26, 27], indicating the same mechanism of circRNA formation occurs in both cell lines in vitro and mouse preimplantation embryos in vivo.”
BackgroundResultSelf-citationSingle-Cell RNA-Seq Reveals Dynamic, Random Monoallelic Gene Expression in Mammalian Cells
Deng, Q., Ramsköld, D., Reinius, B., & Sandberg, R. (2014) · Science · doi:10.1126/science.1245316 · Cited by 1,345
Cited by
The biogenesis, biology and characterization of circular RNAs
Kristensen, L. S., Andersen, M. S., Stagsted, L. V. W., Ebbesen, K. K., Hansen, T. B., & Kjems, J. (2019) · Nature Reviews Genetics · doi:10.1038/s41576-019-0158-7 · Cited by 4,823
The Biogenesis, Functions, and Challenges of Circular RNAs
Li, X., Yang, L., & Chen, L.-L. (2018) · Molecular Cell · doi:10.1016/j.molcel.2018.06.034 · Cited by 2,062
The biogenesis and emerging roles of circular RNAs
Chen, L.-L. (2016) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2015.32 · Cited by 1,743
Challenges in unsupervised clustering of single-cell RNA-seq data
Kiselev, V. Y., Andrews, T. S., & Hemberg, M. (2019) · Nature Reviews Genetics · doi:10.1038/s41576-018-0088-9 · Cited by 1,160
A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications
Haque, A., Engel, J., Teichmann, S. A., & Lönnberg, T. (2017) · Genome Medicine · doi:10.1186/s13073-017-0467-4 · Cited by 1,071
Metadata
- Authors
- Fan, X., Zhang, X., Wu, X., Guo, H., Hu, Y., Tang, F., & Huang, Y.
- Venue
- Genome Biology
- Published
- 2015-07-23
- Volume
- 16
- Issue
- 1
- Pages
- 148-148
- ISSN
- 1465-6906 (ISSN-L)
- OpenAlex
- W2153655918
- Cited by
- 413
- References
- 12
- FWCI
- 11.84
- Type
- journal article
- Language
- en
- Open access
- gold
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- Fan, X., Zhang, X., Wu, X., Guo, H., Hu, Y., Tang, F., & Huang, Y. (2015). Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos. Genome Biology. https://doi.org/10.1186/s13059-015-0706-1
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