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Volumn 1, Issue , 2014, Pages

Transcriptomic profiling of rat liver samples in a comprehensive study design by RNA-Seq

Author keywords

[No Author keywords available]

Indexed keywords

RNA; TRANSCRIPTOME;

EID: 84960928843     PISSN: None     EISSN: 20524463     Source Type: Journal    
DOI: 10.1038/sdata.2014.21     Document Type: Article
Times cited : (26)

References (20)
  • 2
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: A revolutionary tool for transcriptomics
    • Wang, Z., Gerstein, M. & Snyder, M. RNA-Seq: a revolutionary tool for transcriptomics. Nat. Rev. Genet. 10, 57-63 (2009).
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 3
    • 84865790047 scopus 로고    scopus 로고
    • An integrated encyclopedia of DNA elements in the human genome
    • The ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57-74 (2012).
    • (2012) Nature , vol.489 , pp. 57-74
    • The ENCODE Project Consortium1
  • 4
    • 33748491517 scopus 로고    scopus 로고
    • The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements
    • Shi, L. et al. The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements. Nat. Biotechnol. 24, 1151-1161 (2006).
    • (2006) Nat. Biotechnol. , vol.24 , pp. 1151-1161
    • Shi, L.1
  • 5
    • 78650735473 scopus 로고    scopus 로고
    • The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models
    • Shi, L. et al. The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nat. Biotechnol. 28, 827-838 (2010).
    • (2010) Nat. Biotechnol. , vol.28 , pp. 827-838
    • Shi, L.1
  • 6
    • 84920550975 scopus 로고    scopus 로고
    • A comprehensive assessment of RNA-Seq accuracy, reproducibility and information content by the SEquencing Quality Control consortium
    • Su, Z. et al. A comprehensive assessment of RNA-Seq accuracy, reproducibility and information content by the SEquencing Quality Control consortium. Nat. Biotechnol. 32, http://dx.doi.org/10.1038/nbt.2957 (2014).
    • (2014) Nat. Biotechnol. , vol.32
    • Su, Z.1
  • 8
    • 84912527013 scopus 로고    scopus 로고
    • The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance
    • Wang, C. et al. The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance. Nat. Biotechnol. 32, http://dx.doi.org/10.1038/nbt.3001 (2014).
    • (2014) Nat. Biotechnol. , vol.32
    • Wang, C.1
  • 9
    • 20944433525 scopus 로고    scopus 로고
    • Development of a large-scale chemogenomics database to improve drug candidate selection and to understand mechanisms of chemical toxicity and action
    • Ganter, B. et al. Development of a large-scale chemogenomics database to improve drug candidate selection and to understand mechanisms of chemical toxicity and action. J. Biotech. 119, 219-244 (2005).
    • (2005) J. Biotech. , vol.119 , pp. 219-244
    • Ganter, B.1
  • 10
    • 27144548491 scopus 로고    scopus 로고
    • The External RNA Controls Consortium: A progress report
    • Baker, S. C. et al. The External RNA Controls Consortium: a progress report. Nat. Methods 2, 731-734 (2005).
    • (2005) Nat. Methods , vol.2 , pp. 731-734
    • Baker, S.C.1
  • 11
    • 79952709611 scopus 로고    scopus 로고
    • Improving RNA-Seq expression estimates by correcting for fragment bias
    • Roberts, A., Trapnell, C., Donaghey, J., Rinn, J. L. & Pachter, L. Improving RNA-Seq expression estimates by correcting for fragment bias. Genome Biol. 12, R22 (2011).
    • (2011) Genome Biol. , vol.12 , pp. R22
    • Roberts, A.1    Trapnell, C.2    Donaghey, J.3    Rinn, J.L.4    Pachter, L.5
  • 12
    • 50649089207 scopus 로고    scopus 로고
    • RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
    • Marioni, J. C., Mason, C. E., Mane, S. M., Stephens, M. & Gilad, Y. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome Res. 18, 1509-1517 (2008).
    • (2008) Genome Res. , vol.18 , pp. 1509-1517
    • Marioni, J.C.1    Mason, C.E.2    Mane, S.M.3    Stephens, M.4    Gilad, Y.5
  • 13
    • 79957665988 scopus 로고    scopus 로고
    • Microarrays, deep sequencing and the true measure of the transcriptome
    • Malone, J. H. & Oliver, B. Microarrays, deep sequencing and the true measure of the transcriptome. BMC Biol. 9, 34 (2011).
    • (2011) BMC Biol. , vol.9 , pp. 34
    • Malone, J.H.1    Oliver, B.2
  • 14
    • 80053046353 scopus 로고    scopus 로고
    • Comparing next-generation sequencing and microarray technologies in a toxicological study of the effects of aristolochic acid on rat kidneys
    • Su, Z. et al. Comparing next-generation sequencing and microarray technologies in a toxicological study of the effects of aristolochic acid on rat kidneys. Chem. Res. Toxicol. 24, 1486-1493 (2011).
    • (2011) Chem. Res. Toxicol. , vol.24 , pp. 1486-1493
    • Su, Z.1
  • 15
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M. & Salzberg, S. L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009).
    • (2009) Genome Biol. , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 16
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splice junctions with RNA-Seq
    • Trapnell, C., Pachter, L. & Salzberg, S. L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 17
    • 77952123055 scopus 로고    scopus 로고
    • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
    • Trapnell, C. et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat. Biotechnol. 28, 511-515 (2010).
    • (2010) Nat. Biotechnol. , vol.28 , pp. 511-515
    • Trapnell, C.1
  • 19
    • 75249087100 scopus 로고    scopus 로고
    • EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
    • Robinson, M. D., McCarthy, D. J. & Smyth, G. K. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139-140 (2010).
    • (2010) Bioinformatics , vol.26 , pp. 139-140
    • Robinson, M.D.1    McCarthy, D.J.2    Smyth, G.K.3
  • 20
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders, S. & Huber, W. Differential expression analysis for sequence count data. Genome Biol. 11, R106 (2010).
    • (2010) Genome Biol. , vol.11 , pp. R106
    • Anders, S.1    Huber, W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.