메뉴 건너뛰기




Volumn 15, Issue 1, 2014, Pages

MOIRAI: A compact workflow system for CAGE analysis

Author keywords

CAGE; Next generation sequencing; Pipeline

Indexed keywords

DATA PROCESSING; GENE EXPRESSION; PIPELINES;

EID: 84901352453     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-15-144     Document Type: Article
Times cited : (55)

References (19)
  • 2
    • 84861728180 scopus 로고    scopus 로고
    • 5 [prime] end-centered expression profiling using cap-analysis gene expression and next-generation sequencing
    • 10.1038/nprot.2012.005, 22362160
    • Takahashi H, Lassmann T, Murata M, Carninci P. 5 [prime] end-centered expression profiling using cap-analysis gene expression and next-generation sequencing. Nat Protoc 2012, 7(3):542-561. 10.1038/nprot.2012.005, 22362160.
    • (2012) Nat Protoc , vol.7 , Issue.3 , pp. 542-561
    • Takahashi, H.1    Lassmann, T.2    Murata, M.3    Carninci, P.4
  • 8
    • 77955801615 scopus 로고    scopus 로고
    • Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
    • Galaxy Team
    • Goecks J, Nekrutenko A, Taylor J., Galaxy Team Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol 2010, 11(8):86. Galaxy Team.
    • (2010) Genome Biol , vol.11 , Issue.8 , pp. 86
    • Goecks, J.1    Nekrutenko, A.2    Taylor, J.3
  • 9
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence Alignment/Map format and SAMtools
    • 10.1093/bioinformatics/btp352, 2723002, 19505943, 1000 Genome Project Data Processing Subgroup
    • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R., 1000 Genome Project Data Processing Subgroup The Sequence Alignment/Map format and SAMtools. Bioinformatics 2009, 25(16):2078-2079. 10.1093/bioinformatics/btp352, 2723002, 19505943, 1000 Genome Project Data Processing Subgroup.
    • (2009) Bioinformatics , vol.25 , Issue.16 , pp. 2078-2079
    • Li, H.1    Handsaker, B.2    Wysoker, A.3    Fennell, T.4    Ruan, J.5    Homer, N.6    Marth, G.7    Abecasis, G.8    Durbin, R.9
  • 10
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • 10.1093/bioinformatics/btp324, 2705234, 19451168
    • Li H, Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25(14):1754-1760. 10.1093/bioinformatics/btp324, 2705234, 19451168.
    • (2009) Bioinformatics , vol.25 , Issue.14 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 11
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: a flexible suite of utilities for comparing genomic features
    • 10.1093/bioinformatics/btq033, 2832824, 20110278
    • Quinlan AR, Hall IM. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 2010, 26(6):841-842. 10.1093/bioinformatics/btq033, 2832824, 20110278.
    • (2010) Bioinformatics , vol.26 , Issue.6 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 13
    • 70350669879 scopus 로고    scopus 로고
    • TagDust-a program to eliminate artifacts from next generation sequencing data
    • 10.1093/bioinformatics/btp527, 2781754, 19737799
    • Lassmann T, Hayashizaki Y, Daub CO. TagDust-a program to eliminate artifacts from next generation sequencing data. Bioinformatics 2009, 25(21):2839-2840. 10.1093/bioinformatics/btp527, 2781754, 19737799.
    • (2009) Bioinformatics , vol.25 , Issue.21 , pp. 2839-2840
    • Lassmann, T.1    Hayashizaki, Y.2    Daub, C.O.3
  • 14
    • 78650568308 scopus 로고    scopus 로고
    • SAMStat: monitoring biases in next generation sequencing data
    • 10.1093/bioinformatics/btq614, 3008642, 21088025
    • Lassmann T, Hayashizaki Y, Daub CO. SAMStat: monitoring biases in next generation sequencing data. Bioinformatics 2011, 27(1):130-131. 10.1093/bioinformatics/btq614, 3008642, 21088025.
    • (2011) Bioinformatics , vol.27 , Issue.1 , pp. 130-131
    • Lassmann, T.1    Hayashizaki, Y.2    Daub, C.O.3
  • 15
    • 70350023532 scopus 로고    scopus 로고
    • Improved base calling for the Illumina Genome Analyzer using machine learning strategies
    • Kircher M, Stenzel U, Kelso J. Improved base calling for the Illumina Genome Analyzer using machine learning strategies. Genome Biol 2009, 10(8):83.
    • (2009) Genome Biol , vol.10 , Issue.8 , pp. 83
    • Kircher, M.1    Stenzel, U.2    Kelso, J.3
  • 18
    • 33745612095 scopus 로고    scopus 로고
    • Pvclust: an R package for assessing the uncertainty in hierarchical clustering
    • 10.1093/bioinformatics/btl117, 16595560
    • Suzuki R, Shimodaira H. Pvclust: an R package for assessing the uncertainty in hierarchical clustering. Bioinformatics 2006, 22(12):1540-1542. 10.1093/bioinformatics/btl117, 16595560.
    • (2006) Bioinformatics , vol.22 , Issue.12 , pp. 1540-1542
    • Suzuki, R.1    Shimodaira, H.2
  • 19
    • 84865226981 scopus 로고    scopus 로고
    • Next-generation sequencing data interpretation: enhancing reproducibility and accessibility
    • 10.1038/nrg3305, 22898652
    • Nekrutenko A, Taylor J. Next-generation sequencing data interpretation: enhancing reproducibility and accessibility. Nat Rev Genet 2012, 13(9):667-672. 10.1038/nrg3305, 22898652.
    • (2012) Nat Rev Genet , vol.13 , Issue.9 , pp. 667-672
    • Nekrutenko, A.1    Taylor, J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.