reactIDR: evaluation of the statistical reproducibility of high-throughput structural analyses towards a robust RNA structure prediction

被引:0
作者
Risa Kawaguchi
Hisanori Kiryu
Junichi Iwakiri
Jun Sese
机构
[1] Artificial Intelligence Research Center,
[2] National Institute of Advanced Industrial Science and Technology,undefined
[3] Department of Computational Biology and Medical Sciences,undefined
[4] Graduate School of Frontier Sciences,undefined
[5] the University of Tokyo,undefined
[6] AIST- Tokyo Tech Real World Big-Data Computation Open Innovation Laboratory,undefined
[7] Humanome Lab Inc.,undefined
来源
BMC Bioinformatics | / 20卷
关键词
RNA secondary structure; High-throughput structural analysis; Reproducibility;
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  • [1] Borujeni AE(2014)Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites Nucleic Acids Res 42 2646-2659
  • [2] Channarasappa AS(2015)Rfam 12.0: updates to the RNA families database Nucleic Acids Res 43 D130-7
  • [3] Salis HM(2011)ViennaRNA Package 2.0 Algoritm Mol Biol 6 26-7
  • [4] Nawrocki EP(2016)Parallel computation of genome-scale RNA secondary structure to detect structural constraints on human genome BMC Bioinformatics 17 1-90
  • [5] Burge SW(2010)Genome-wide measurement of RNA secondary structure in yeast Nature 467 103-1001
  • [6] Bateman A(2015)Structural imprints in vivo decode RNA regulatory mechanisms Nature 519 486-74
  • [7] Daub J(2010)FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing Nat Methods 7 995-8
  • [8] Eberhardt RY(2011)Modeling and automation of sequencing-based characterization of RNA structure Proc Natl Acad Sci 108 11069-102
  • [9] Eddy SR(2011)Multiplexed RNA structure characterization with selective 2 Proc Natl Acad Sci 108 11063-634
  • [10] Lorenz R(2009)-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq) Proc Natl Acad Sci 106 97-40