[1] Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Mo-rales DR, Thomas K, Presser A, Bernstein BE, van Oudenaarden A, Regev A, Lander ES, Rinn JL. Many human large intergenic noncoding RNAs associate with chro-matin-modifying complexes and affect gene expression. Proc Natl Acad Sci USA, 2009, 106(28): 11667–11672.
[2] Li L, Eichten SR, Shimizu R, Petsch K, Yeh CT, Wu W, Chettoor AM, Givan SA, Cole RA, Fowler JE, Evans MMS, Scanlon MJ, Yu JM, Schnable PS, Timmermans MCP, Springer NM, Muehlbauer GJ. Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biol, 2014, 15(2): R40.
[3] Boerner S, McGinnis KM. Computational identification and functional predictions of long noncoding RNA in Zea mays. PloS ONE, 2012, 7(8): e43047.
[4] Liu J, Jung C, Xu J, Wang H, Deng SL, Bernad L, Are-nas-Huertero C, Chua NH. Genome-wide analysis uncovers regulation of long intergenic noncoding RNAs in Ara-bidopsis. Plant Cell, 2012, 24(11): 4333–4345.
[5] Voinnet O. Origin, biogenesis, and activity of plant mi-croRNAs. Cell, 2009, 136(4): 669–687.
[6] Bartel DP. MicroRNAs: target recognition and regulatory functions. Cell, 2009, 136(2): 215–233.
[7] Brodersen P, Sakvarelidze-Achard L, Bruun-Rasmussen M, Dunoyer P, Yamamoto YY, Sieburth L, Voinnet O. Wide-spread translational inhibition by plant miRNAs and siRNAs. Science, 2008, 320(5880): 1185–1190.
[8] Majoros WH, Ohler U. Spatial preferences of microRNA targets in 3' untranslated regions. BMC Genomics, 2007, 8(1): 152.
[9] Jalali S, Bhartiya D, Lalwani MK, Sivasubbu S, Scaria V. Systematic transcriptome wide analysis of lncRNA- miRNA interactions. PloS ONE, 2013, 8(2): e53823.
[10] Salmena L, Poliseno L, Tay Y, Kats L, Pandolfi PP. A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language? Cell, 2011, 146(3): 353–358.
[11] Zhao Y, He SM, Liu CN, Ru SW, Zhao HT, Yang Z, Yang PC, Yuan XY, Sun SW, Bu DB, Huang JF, Skogerb? G, Chen RS. MicroRNA regulation of messenger-like noncoding RNAs: a network of mutual microRNA control. Trends Genet, 2008, 24(7): 323–327.
[12] Liu K, Yan ZM, Li YC, Sun ZR. Linc2GO: a human Lin-cRNA function annotation resource based on ceRNA hy-pothesis. Bioinformatics, 2013, 29(17): 2221–2222.
[13] Cesana M, Cacchiarelli D, Legnini I, Santini T, Sthandier O, Chinappi M, Tramontano A, Bozzoni I. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell, 2011, 147(2): 358–369.
[14] Wu HJ, Wang ZM, Wang M, Wang XJ. Widespread long noncoding RNAs as endogenous target mimics for mi-croRNAs in plants. Plant Physiol, 2013, 161(4): 1875–1884.
[15] Addo-Quaye C, Eshoo TW, Bartel DP, Axtell MJ. Endog-enous siRNA and miRNA Targets Identified by Sequencing of the Arabidopsis Degradome. Curr Biol, 2008, 18(10): 758–762.
[16] German MA, Pillay M, Jeong DH, Hetawal A, Luo SJ, Ja-nardhanan P, Kannan V, Rymarquis LA, Nobuta K, German R, De Paoli E, Lu C, Schroth G, Meyers BC, Green PJ. Glob-al identification of microRNA–target RNA pairs by parallel analysis of RNA ends. Nat Biotechnol, 2008, 26(8): 941–946.
[17] German MA, Luo SJ, Schroth G, Meyers BC, Green PJ. Construction of Parallel Analysis of RNA Ends (PARE) libraries for the study of cleaved miRNA targets and the RNA degradome. Nat Protoc, 2009, 4(3): 356–362.
[18] Li YF, Zheng Y, Addo-Quaye C, Zhang L, Saini A, Jagadeeswaran G, Axtell MJ, Zhang WX, Sunkar R. Tran-scriptome-wide identification of microRNA targets in rice. Plant J, 2010, 62(5): 742–759.
[19] Mao WH, Li ZY, Xia XJ, Li YD, Yu JQ. A combined ap-proach of high-throughput sequencing and degradome analysis reveals tissue specific expression of microRNAs and their targets in cucumber. PloS ONE, 2012, 7(3): e33040.
[20] Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ. miRBase: tools for microRNA genomics. Nucleic Acids Res, 2008, 36(Database issue): D154–D158.
[21] Huala E, Dickerma
