BMC Molecular Biology

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Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis

Hailing Jin*, Vladimir Vacic, Thomas Girke, Stefano Lonardi and Jian-Kang Zhu*

BMC Molecular Biology 2008, 9:6 doi:10.1186/1471-2199-9-6

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Genome-wide analysis of plant nat-siRNAs reveals insights into their distribution, biogenesis and function

Xiaoming Zhang, Jing Xia, Yifan E Lii, Blanca E Barrera-Figueroa, Xuefeng Zhou, Shang Gao, Lu Lu, Dongdong Niu, Zheng Chen, Christy Leung, Timothy Wong, Huiming Zhang, Jianhua Guo, Yi Li, Renyi Liu, Wanqi Liang, Jian-Kang Zhu, Weixiong Zhang, Hailing Jin Genome Biology 2012, 13:R20 (22 March 2012)

In Arabidopsis and rice, natural antisense transcripts are processed into siRNAs by DCL1 and DCL3

Database   Open Access

Maize microarray annotation database

Nanette Coetzer, Alexander A Myburg, Dave K Berger Plant Methods 2011, 7:31 (1 October 2011)

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Multiple distinct small RNAs originate from the same microRNA precursors

Weixiong Zhang, Shang Gao, Xuefeng Zhou, Jing Xia, Padmanabhan Chellappan, Xiang Zhou, Xiaoming Zhang, Hailing Jin Genome Biology 2010, 11:R81 (9 August 2010)

Deep sequencing of Arabidopsis small RNAs reveals the existence of novel miRNA-like RNAs generated from miRNA precursor hairpins.

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Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes

Koji Numata, Yuko Osada, Yuki Okada, Rintaro Saito, Noriko Hiraiwa, Hajime Nakaoka, Naoyuki Yamamoto, Kazufumi Watanabe, Kazue Okubo, Chihiro Kohama, Akio Kanai, Kuniya Abe, Hidenori Kiyosawa BMC Genomics 2009, 10:392 (22 August 2009)

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Bioinformatics analysis suggests base modifications of tRNAs and miRNAs in Arabidopsis thaliana

Kei Iida, Hailing Jin, Jian-Kang Zhu BMC Genomics 2009, 10:155 (9 April 2009)

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Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays

Samuel P Hazen, Felix Naef, Tom Quisel, Joshua M Gendron, Huaming Chen, Joseph R Ecker, Justin O Borevitz, Steve A Kay Genome Biology 2009, 10:R17 (11 February 2009)

Whole genome tiling array analysis reveals the extent of transcriptional oscillation for both coding and non-coding genes in regulating Arabidopsis thaliana circadian rhythms

Research article   Open Access

Sense and antisense OsDof12 transcripts in rice

Dejun Li, Chunhua Yang, Xiaobing Li, Guobiao Ji, Lihuang Zhu BMC Molecular Biology 2008, 9:80 (17 September 2008)