메뉴 건너뛰기




Volumn 17, Issue 1, 2016, Pages

Tracing the expression of circular RNAs in human pre-implantation embryos

Author keywords

Circular RNA; Human pre implantation embryos; MRNA quantification; RNA de novo assembly; SUPeR seq

Indexed keywords

CIRCULAR RNA; MESSENGER RNA; RNA; TRANSCRIPTOME; UNCLASSIFIED DRUG; RNA, CIRCULAR;

EID: 84975453373     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/s13059-016-0991-3     Document Type: Article
Times cited : (139)

References (40)
  • 2
    • 84900322651 scopus 로고    scopus 로고
    • Detecting and characterizing circular RNAs
    • Jeck WR, Sharpless NE. Detecting and characterizing circular RNAs. Nature Biotechnology. 2014;32:453-61.
    • (2014) Nature Biotechnology. , vol.32 , pp. 453-461
    • Jeck, W.R.1    Sharpless, N.E.2
  • 4
    • 33646852092 scopus 로고    scopus 로고
    • Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing
    • Suzuki H, Zuo Y, Wang J, Zhang MQ, Malhotra A, Mayeda A. Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing. Nucleic Acids Res. 2006;34:e63.
    • (2006) Nucleic Acids Res. , vol.34 , pp. e63
    • Suzuki, H.1    Zuo, Y.2    Wang, J.3    Zhang, M.Q.4    Malhotra, A.5    Mayeda, A.6
  • 5
    • 84863045982 scopus 로고    scopus 로고
    • Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types
    • Salzman J, Gawad C, Wang PL, Lacayo N, Brown PO. Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types. PLoS One. 2012;7:e30733.
    • (2012) PLoS One. , vol.7 , pp. e30733
    • Salzman, J.1    Gawad, C.2    Wang, P.L.3    Lacayo, N.4    Brown, P.O.5
  • 11
    • 0029585914 scopus 로고
    • Inverted repeats are necessary for circularization of the mouse testis Sry transcript
    • Dubin RA, Kazmi MA, Ostrer H. Inverted repeats are necessary for circularization of the mouse testis Sry transcript. Gene. 1995;167:245-8.
    • (1995) Gene. , vol.167 , pp. 245-248
    • Dubin, R.A.1    Kazmi, M.A.2    Ostrer, H.3
  • 15
    • 79953288433 scopus 로고    scopus 로고
    • Development and applications of single-cell transcriptome analysis.
    • Tang F, Lao K, Surani MA. Development and applications of single-cell transcriptome analysis. Nat Methods. 2011;8:S6-11.
    • (2011) Nat Methods. , vol.8 , pp. S6-S11
    • Tang, F.1    Lao, K.2    Surani, M.A.3
  • 17
    • 84866953427 scopus 로고    scopus 로고
    • CEL-Seq: Single-cell RNA-Seq by multiplexed linear amplification
    • Hashimshony T, Wagner F, Sher N, Yanai I. CEL-Seq: Single-cell RNA-Seq by multiplexed linear amplification. Cell Rep. 2012;2:666-73.
    • (2012) Cell Rep. , vol.2 , pp. 666-673
    • Hashimshony, T.1    Wagner, F.2    Sher, N.3    Yanai, I.4
  • 18
    • 84937703271 scopus 로고    scopus 로고
    • Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos.
    • Fan X, Zhang X, Wu X, Guo H, Hu Y, Tang F, Huang Y. Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos. Genome Biol. 2015;16:148.
    • (2015) Genome Biol. , vol.16 , pp. 148
    • Fan, X.1    Zhang, X.2    Wu, X.3    Guo, H.4    Hu, Y.5    Tang, F.6    Huang, Y.7
  • 19
    • 84923647450 scopus 로고    scopus 로고
    • Computational and analytical challenges in single-cell transcriptomics
    • Stegle O, Teichmann S, Marioni JC. Computational and analytical challenges in single-cell transcriptomics. Nat Rev Genet. 2015;16(3):133-45.
    • (2015) Nat Rev Genet , vol.16 , Issue.3 , pp. 133-145
    • Stegle, O.1    Teichmann, S.2    Marioni, J.C.3
  • 21
    • 84861960860 scopus 로고    scopus 로고
    • Digital PCR, hits its stride
    • Baker M. Digital PCR, hits its stride. Nat Methods. 2012;9:541-4.
    • (2012) Nat Methods. , vol.9 , pp. 541-544
    • Baker, M.1
  • 23
    • 84919471287 scopus 로고    scopus 로고
    • Transcriptome-wide variability in single embryonic development cells
    • Piras V, Tomita M, Selvarajoo K. Transcriptome-wide variability in single embryonic development cells. Sci Rep. 2014;4:7137.
    • (2014) Sci Rep. , vol.4 , pp. 7137
    • Piras, V.1    Tomita, M.2    Selvarajoo, K.3
  • 24
    • 80051493701 scopus 로고    scopus 로고
    • Waves of early transcriptional activation and pluripotency program initiation during human preimplantation development.
    • Vassena R, Boué S, González-Roca E, Aran B, Auer H, Veiga A, Izpisua Belmonte JC. Waves of early transcriptional activation and pluripotency program initiation during human preimplantation development. Development. 2011;138:3699-709.
    • (2011) Development. , vol.138 , pp. 3699-3709
    • Vassena, R.1    Boué, S.2    González-Roca, E.3    Aran, B.4    Auer, H.5    Veiga, A.6    Izpisua Belmonte, J.C.7
  • 28
    • 84911491114 scopus 로고    scopus 로고
    • Circular RNAs: diversity of form and function
    • Lasda E, Parker R. Circular RNAs: diversity of form and function. RNA. 2014;20:1829-42.
    • (2014) RNA. , vol.20 , pp. 1829-1842
    • Lasda, E.1    Parker, R.2
  • 29
    • 84941067776 scopus 로고    scopus 로고
    • RNA circularization strategies in vivo and in vitro
    • Petkovic S, Muller S. RNA circularization strategies in vivo and in vitro. Nucleic Acids Res. 2015;43:2454-65.
    • (2015) Nucleic Acids Res. , vol.43 , pp. 2454-2465
    • Petkovic, S.1    Muller, S.2
  • 31
    • 84929322923 scopus 로고    scopus 로고
    • Regulation of circRNA biogenesis
    • Chen L-L, Yang L. Regulation of circRNA biogenesis. RNA Biol. 2015;12:381-8.
    • (2015) RNA Biol. , vol.12 , pp. 381-388
    • Chen, L.-L.1    Yang, L.2
  • 34
    • 66349086264 scopus 로고    scopus 로고
    • Identifying novel constrained elements by exploiting biased substitution patterns
    • Garber M, Guttman M, Clamp M, Zody MC, Friedman N, Xie X. Identifying novel constrained elements by exploiting biased substitution patterns. Bioinformatics. 2009;25:54-62.
    • (2009) Bioinformatics. , vol.25 , pp. 54-62
    • Garber, M.1    Guttman, M.2    Clamp, M.3    Zody, M.C.4    Friedman, N.5    Xie, X.6
  • 35
    • 34547582418 scopus 로고    scopus 로고
    • CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine
    • Kong L, Zhang Y, Ye Z, Liu X, Zhao S, Wei L. CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res. 2007;35:345-9.
    • (2007) Nucleic Acids Res. , vol.35 , pp. 345-349
    • Kong, L.1    Zhang, Y.2    Ye, Z.3    Liu, X.4    Zhao, S.5    Wei, L.6
  • 37
    • 84928987900 scopus 로고    scopus 로고
    • HTSeq--a Python framework to work with high-throughput sequencing data
    • Anders S, Pyl PT, Huber W. HTSeq--a Python framework to work with high-throughput sequencing data. Bioinformatics. 2015;31:166-9.
    • (2015) Bioinformatics. , vol.31 , pp. 166-169
    • Anders, S.1    Pyl, P.T.2    Huber, W.3
  • 38
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splice junctions with RNA-Seq
    • Trapnell C, Pachter L, Salzberg SL. TopHat: Discovering splice junctions with RNA-Seq. Bioinformatics. 2009;25:1105-11.
    • (2009) Bioinformatics. , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 39
    • 84924629414 scopus 로고    scopus 로고
    • Moderated estimation of fold change and dispersion for RNA-Seq data with DESeq2
    • Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-Seq data with DESeq2. Genome Biol. 2014;15:550.
    • (2014) Genome Biol. , vol.15 , pp. 550
    • Love, M.I.1    Huber, W.2    Anders, S.3
  • 40
    • 3142665525 scopus 로고    scopus 로고
    • GOstat: Find statistically overrepresented Gene Ontologies with a group of genes
    • Beißbarth T, Speed TP. GOstat: Find statistically overrepresented Gene Ontologies with a group of genes. Bioinformatics. 2004;20:1464-5.
    • (2004) Bioinformatics. , vol.20 , pp. 1464-1465
    • Beißbarth, T.1    Speed, T.P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.