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NGSmirPlant: comprehensive characterization of the small RNA transcriptomes of plants

  • Jie Bai 1,2 ,
  • Chen Dan 1 ,
  • Yi Zhang 1 ,
  • Guoping Zhao , 1,2,3 ,
  • Xiaoming Ding , 1
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  • 1. Department of Microbiology and Microbial Engineering, School of Life Sciences, Fudan University, Shanghai 200433, China
  • 2. Key Laboratory of Synthetic Biology, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China
  • 3. Shanghai-MOST Key Laboratory of Health and Disease Genomics, Chinese National Human Genome Center at Shanghai, Shanghai 201203, China

Published date: 11 Jun 2015

Copyright

2014 This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Cite this article

Jie Bai , Chen Dan , Yi Zhang , Guoping Zhao , Xiaoming Ding . NGSmirPlant: comprehensive characterization of the small RNA transcriptomes of plants[J]. Protein & Cell, 2015 , 6(6) : 397 -402 . DOI: 10.1007/s13238-015-0159-z

1
Audic S, Claverie JM (1997) The significance of digital gene expression profiles. Genome Res7: 986-995

2
Creighton CJ, Reid JG, Gunaratne PH (2009) Expression profiling of microRNAs by deep sequencing. Brief Bioinform10: 490-497

DOI

3
Fahlgren N, Sullivan CM, Kasschau KD, Chapman EJ, Cumbie JS, Montgomery TA, Gilbert SD, Dasenko M, Backman TW, Givan SA, Carrington JC (2009) Computational and analytical framework for small RNA profiling by high-throughput sequencing. Rna15: 992-1002

DOI

4
Friedlander MR, Chen W, Adamidi C, Maaskola J, Einspanier R, Knespel S, Rajewsky N (2008) Discovering microRNAs from deep sequencing data using miRDeep. Nat Biotechnol26: 407-415

DOI

5
Jones-Rhoades MW, Bartel DP, Bartel B (2006) MicroRNAS and their regulatory roles in plants. Annu Rev Plant Biol57: 19-53

DOI

6
Llave C, Kasschau KD, Rector MA, Carrington JC (2002) Endogenous and silencing-associated small RNAs in plants. Plant Cell14: 1605-1619

DOI

7
Rogers K, Chen X (2013) Biogenesis, turnover, and mode of action of plant microRNAs. Plant Cell25: 2383-2399

DOI

8
Tam S, de Borja R, Tsao MS, McPherson JD (2014) Robust global microRNA expression profiling using next-generation sequencing technologies. Lab Investig94: 350-358

DOI

9
Wu G (2013) Plant microRNAs and development. J Genet Genomics40: 217-230

DOI

10
Zhang B, Wang Q, Pan X (2007) MicroRNAs and their regulatory roles in animals and plants. J Cell Physiol210: 279-289

DOI

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