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[1] Human Genome Sequencing Consortium I. Finishing the euchromatic sequence of the human genome. Nature, 2004, 431(7011): 931-945.
[2] Mercer Tr D M M J. Long non-coding RNAs: insights into functions. Nature Reviews Genetics, 2009, 10(3): 155-159.
[3] Wang K C, Chang H Y. Molecular mechanisms of long noncoding RNAs. Molecular Cell, 2011, 43(6): 904-914.
[4] Heo J B, Lee Y, Sung S. Epigenetic regulation by long noncoding RNAs in plants. Chromosome Rese
[1] Human Genome Sequencing Consortium I. Finishing the euchromatic sequence of the human genome. Nature, 2004, 431(7011): 931-945.
[2] Mercer Tr D M M J. Long non-coding RNAs: insights into functions. Nature Reviews Genetics, 2009, 10(3): 155-159.
[3] Wang K C, Chang H Y. Molecular mechanisms of long noncoding RNAs. Molecular Cell, 2011, 43(6): 904-914.
[4] Heo J B, Lee Y, Sung S. Epigenetic regulation by long noncoding RNAs in plants. Chromosome Research, 2013, 21(6-7): 685-693.
[5] Akua T, Shaul O. The Arabidopsis thaliana MHX gene includes an intronic element that boosts translation when localized in a 5' UTR intron. Journal of Experimental Botany, 2013, 64(14): 4255-4270.
[6] Christie M, Croft L J, Carroll B J. Intron splicing suppresses RNA silencing in Arabidopsis. The Plant Journal, 2011, 68(1): 159-167.
[7] Chung B Y W, Simons C, Firth A E, et al. Effect of 5' UTR introns on gene expression in Arabidopsis thaliana. BMC Genomics, 2006, 7(1): 120.
[8] Batista PJ, Chang H Y. Long noncoding RNAs: cellular address codes in development and disease. Cell, 2013, 152(6): 1298-1307.
[9] Khalil A M, Guttman M, Huarte M, et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci USA, 2009, 106(28): 11667-11672.
[10] Kung J T Y, Colognori D, Lee J T. Long noncoding RNAs: past, present, and future. Genetics, 2013, 193(3): 651-669.
[11] Lee J T. The X as model for RNA's niche in epigenomic regulation. Cold Spring Harbor Perspectives in Biology, 2010, 2(9): a3749.
[12] Yang L, Froberg J E, Lee J T. Long noncoding RNAs: fresh perspectives into the RNA world. Trends in Biochemical Sciences, 2014, 39(1): 35-43.
[13] Øom U A, Shiekhattar R. Long noncoding RNAs usher in a new era in the biology of enhancers. Cell, 2013, 154(6): 1190-1193.
[14] Ulitsky I, Bartel D P. lincRNAs: genomics, evolution, and mechanisms. Cell, 2013, 154(1): 26-46.
[15] Zhang Y, Chen Y. Long noncoding RNAs: new regulators in plant development. Biochemical and Biophysical Research Communications, 2013, 436(2): 111-114.
[16] Ding J, Lu Q, Ouyang Y, et al. A long noncoding RNA regulates photoperiod-sensitive male sterility, an essential component of hybrid rice. Proceedings of the National Academy of Sciences, 2012, 109(7): 2654-2659.
[17] Sun Q, Csorba T, Skourti-Stathaki K, et al. R-loop stabilization represses antisense transcription at the arabidopsis FLC locus. SCIENCE, 2013, 340(6132): 619-621.
[18] Wahba L A K D. The Rs of biology: R-loops and the regulation of regulators. Yangtze River Academic, 2013, 50(5):611-612.
[19] Inagaki S, Numata K, Kondo T, et al. Identification and expression analysis of putative mRNA-like non-coding RNA in Drosophila. Genes to Cells, 2005, 10(12): 1163-1173.
[20] Wang K C, Yang Y W, Liu B, et al. A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature, 2011, 472(7341): 120-124.
[21] Ariel F, Jegu T, Latrasse D, et al. Noncoding transcription by alternative RNA polymerases dynamically regulates an auxin-driven chromatin loop. Mol Cell, 2014, 55(3): 383-396.
[22] Kim T, Hemberg M, Gray J M, et al. Widespread transcription at neuronal activity-regulated enhancers. Nature, 2010, 465(7295): 182-187.
[23] Lam M T Y, Li W, Rosenfeld M G, et al. Enhancer RNAs and regulated transcriptional programs. Trends in Biochemical Sciences, 2014, 39(4): 170-182.
[24] Li W, Notani D, Ma Q, et al. Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation. Nature, 2013, 498(7455): 516-520.
[25] Natoli G, Andrau J C. Noncoding transcription at enhancers: general principles and functional models. Annu Rev Genet, 2012, 46: 1-19.
[26] Kondo T, Plaza S, Zanet J, et al. Small peptides switch the transcriptional activity of shavenbaby during drosophila embryogenesis. Science, 2010, 329(5989): 336-339.
[27] Hung T, Chang H Y. Long noncoding RNA in genome regulation Prospects and mechanisms. Rna Biology, 2010, 7(5): 582-585.
[28] Martianov I, Ramadass A, Serra Barros A, et al. Repression of the human dihydofolate reductase gene by a non-coding interfering transcript. Nature, 2007, 445(7128): 666-670.
[29] Wu H J, Wang Z M, Wang M, et al. Widespread long noncoding RNAs as endogenous target mimics for microRNAs in plants. Plant Physiology, 2013, 161(4): 1875-1884.
[30] Daughters R S, Tuttle D L, Gao W, et al. RNA gain-of-function in spinocerebellar ataxia type 8. PLoS Genetics, 2009, 5(8): e1000600.
[31] Faghihi M A, Modarresi F, Khalil A M, et al. Expression of a noncoding RNA is elevated in Alzheimer' disease and drives rapid feed-forward regulation of β-secretase. Nature Medicine, 2008, 14(7): 723-730.
[32] Sonkoly E, Bata-Csorgo Z, Pivarcsi A, et al. Identification and characterization of a novel, psoriasis susceptibility-related noncoding RNA gene, PRINS. Journal of Biological Chemistry, 2005, 280(25): 24159-24167.
[33] Zhang X, Rice K, Wang Y, et al. Maternally expressed gene 3 (MEG3) noncoding ribonucleic acid: isoform structure, expression, and functions. Endocrinology, 2010, 151(3): 939-947.
[34] Huarte M, Guttman M, Feldser D, et al. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell, 2010, 142(3): 409-419.
[35] Ørom U A, Derrien T, Beringer M, et al. Long noncoding RNAs with enhancer-like function in human cells. Cell, 2010, 143(1): 46-58.
[36] Wang Z, Gerstein M, Snyder M. RNA-seq: a revolutionary tool for transcriptomics. Nature Reviews Genetics, 2009, 10(1): 57-63.
[37] Liu J, Jung C, Xu J, et al. Genome-wide analysis uncovers regulation of long Intergenic noncoding RNAs in Arabidopsis. The Plant Cell, 2012, 24(11): 4333-4345.
[38] Li L, Eichten S R, Shimizu R, et al. Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biol, 2014, 15(2): R40.
[39] Ilott N E, Ponting C P. Predicting long non-coding RNAs using RNA sequencing. Methods, 2013, 63(1): 50-59.
[40] Tsai M C, Manor O, Wan Y, et al. Long noncoding RNA as modular scaffold of histone modification complexes. Science, 2010, 329(5992): 689-693.
[41] Chu C, Qu K, Zhong F L, et al. Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions. Molecular Cell, 2011, 44(4): 667-678.
[42] Simon M D, Wang C I, Kharchenko P V, et al. The genomic binding sites of a noncoding RNA. Proceedings of the National Academy of Sciences of the United States of America, 2011, 108(51): 20497-20502.
[43] Yan B, Wang Z, Guo J. The research strategies for probing the function of long noncoding RNAs. Genomics, 2012, 99(2): 76-80.
[44] Zhu J, Fu H, Wu Y, et al. Function of lncRNAs and approaches to lncRNA-protein interactions. Science China Life Sciences, 2013, 56(10): 876-885. arch, 2013, 21(6-7): 685-693.
[5] Akua T, Shaul O. The Arabidopsis thaliana MHX gene includes an intronic element that boosts translation when localized in a 5' UTR intron. Journal of Experimental Botany, 2013, 64(14): 4255-4270.
[6] Christie M, Croft L J, Carroll B J. Intron splicing suppresses RNA silencing in Arabidopsis. The Plant Journal, 2011, 68(1): 159-167.
[7] Chung B Y W, Simons C, Firth A E, et al. Effect of 5' UTR introns on gene expression in Arabidopsis thaliana. BMC Genomics, 2006, 7(1): 120.
[8] Batista PJ, Chang H Y. Long noncoding RNAs: cellular address codes in development and disease. Cell, 2013, 152(6): 1298-1307.
[9] Khalil A M, Guttman M, Huarte M, et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci USA, 2009, 106(28): 11667-11672.
[10] Kung J T Y, Colognori D, Lee J T. Long noncoding RNAs: past, present, and future. Genetics, 2013, 193(3): 651-669.
[11] Lee J T. The X as model for RNA's niche in epigenomic regulation. Cold Spring Harbor Perspectives in Biology, 2010, 2(9): a3749.
[12] Yang L, Froberg J E, Lee J T. Long noncoding RNAs: fresh perspectives into the RNA world. Trends in Biochemical Sciences, 2014, 39(1): 35-43.
[13] om U A, Shiekhattar R. Long noncoding RNAs usher in a new era in the biology of enhancers. Cell, 2013, 154(6): 1190-1193.
[14] Ulitsky I, Bartel D P. lincRNAs: genomics, evolution, and mechanisms. Cell, 2013, 154(1): 26-46.
[15] Zhang Y, Chen Y. Long noncoding RNAs: new regulators in plant development. Biochemical and Biophysical Research Communications, 2013, 436(2): 111-114.
[16] Ding J, Lu Q, Ouyang Y, et al. A long noncoding RNA regulates photoperiod-sensitive male sterility, an essential component of hybrid rice. Proceedings of the National Academy of Sciences, 2012, 109(7): 2654-2659.
[17] Sun Q, Csorba T, Skourti-Stathaki K, et al. R-loop stabilization represses antisense transcription at the arabidopsis FLC locus. SCIENCE, 2013, 340(6132): 619-621.
[18] Wahba L A K D. The Rs of biology: R-loops and the regulation of regulators. Yangtze River Academic, 2013, 50(5):611-612.
[19] Inagaki S, Numata K, Kondo T, et al. Identification and expression analysis of putative mRNA-like non-coding RNA in Drosophila. Genes to Cells, 2005, 10(12): 1163-1173.
[20] Wang K C, Yang Y W, Liu B, et al. A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature, 2011, 472(7341): 120-124.
[21] Ariel F, Jegu T, Latrasse D, et al. Noncoding transcription by alternative RNA polymerases dynamically regulates an auxin-driven chromatin loop. Mol Cell, 2014, 55(3): 383-396.
[22] Kim T, Hemberg M, Gray J M, et al. Widespread transcription at neuronal activity-regulated enhancers. Nature, 2010, 465(7295): 182-187.
[23] Lam M T Y, Li W, Rosenfeld M G, et al. Enhancer RNAs and regulated transcriptional programs. Trends in Biochemical Sciences, 2014, 39(4): 170-182.
[24] Li W, Notani D, Ma Q, et al. Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation. Nature, 2013, 498(7455): 516-520.
[25] Natoli G, Andrau J C. Noncoding transcription at enhancers: general principles and functional models. Annu Rev Genet, 2012, 46: 1-19.
[26] Kondo T, Plaza S, Zanet J, et al. Small peptides switch the transcriptional activity of shavenbaby during drosophila embryogenesis. Science, 2010, 329(5989): 336-339.
[27] Hung T, Chang H Y. Long noncoding RNA in genome regulation Prospects and mechanisms. Rna Biology, 2010, 7(5): 582-585.
[28] Martianov I, Ramadass A, Serra Barros A, et al. Repression of the human dihydofolate reductase gene by a non-coding interfering transcript. Nature, 2007, 445(7128): 666-670.
[29] Wu H J, Wang Z M, Wang M, et al. Widespread long noncoding RNAs as endogenous target mimics for microRNAs in plants. Plant Physiology, 2013, 161(4): 1875-1884.
[30] Daughters R S, Tuttle D L, Gao W, et al. RNA gain-of-function in spinocerebellar ataxia type 8. PLoS Genetics, 2009, 5(8): e1000600.
[31] Faghihi M A, Modarresi F, Khalil A M, et al. Expression of a noncoding RNA is elevated in Alzheimer' disease and drives rapid feed-forward regulation of β-secretase. Nature Medicine, 2008, 14(7): 723-730.
[32] Sonkoly E, Bata-Csorgo Z, Pivarcsi A, et al. Identification and characterization of a novel, psoriasis susceptibility-related noncoding RNA gene, PRINS. Journal of Biological Chemistry, 2005, 280(25): 24159-24167.
[33] Zhang X, Rice K, Wang Y, et al. Maternally expressed gene 3 (MEG3) noncoding ribonucleic acid: isoform structure, expression, and functions. Endocrinology, 2010, 151(3): 939-947.
[34] Huarte M, Guttman M, Feldser D, et al. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell, 2010, 142(3): 409-419.
[35] rom U A, Derrien T, Beringer M, et al. Long noncoding RNAs with enhancer-like function in human cells. Cell, 2010, 143(1): 46-58.
[36] Wang Z, Gerstein M, Snyder M. RNA-seq: a revolutionary tool for transcriptomics. Nature Reviews Genetics, 2009, 10(1): 57-63.
[37] Liu J, Jung C, Xu J, et al. Genome-wide analysis uncovers regulation of long Intergenic noncoding RNAs in Arabidopsis. The Plant Cell, 2012, 24(11): 4333-4345.
[38] Li L, Eichten S R, Shimizu R, et al. Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biol, 2014, 15(2): R40.
[39] Ilott N E, Ponting C P. Predicting long non-coding RNAs using RNA sequencing. Methods, 2013, 63(1): 50-59.
[40] Tsai M C, Manor O, Wan Y, et al. Long noncoding RNA as modular scaffold of histone modification complexes. Science, 2010, 329(5992): 689-693.
[41] Chu C, Qu K, Zhong F L, et al. Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions. Molecular Cell, 2011, 44(4): 667-678.
[42] Simon M D, Wang C I, Kharchenko P V, et al. The genomic binding sites of a noncoding RNA. Proceedings of the National Academy of Sciences of the United States of America, 2011, 108(51): 20497-20502.
[43] Yan B, Wang Z, Guo J. The research strategies for probing the function of long noncoding RNAs. Genomics, 2012, 99(2): 76-80.
[44] Zhu J, Fu H, Wu Y, et al. Function of lncRNAs and approaches to lncRNA-protein interactions. Science China Life Sciences, 2013, 56(10): 876-885.
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