Identification and analysis of intermediate-size noncoding RNAs in the rhesus macaque fetal brain

Liyuan Zhu^{1, #},
Xiaochao Tan^{1, #},
Wei Liu¹,
Fengbiao Mao⁸,
Chao Wu²,
Junjie Zhou²,
Xiao Liu²,
Shuaiyao Lu^{12, 13},
Kaili Ma^{12, 13},
Bin Yin¹⁴,
Jianjun Luo¹⁵,
Jiangang Yuan¹⁶,
Boqin Qiang¹⁶,
Runsheng Chen^{19
, ,},
Xiaozhong Peng^{20
, ,}

1.
State Key Laboratory of Medical Molecular Biology, Department of Molecular Biology and Biochemistry, Institute of Basic Medical Sciences, Medical Primate Research Center, Neuroscience Center, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, China
2.
State Key Laboratory of Medical Molecular Biology, Department of Molecular Biology and Biochemistry, Institute of Basic Medical Sciences, Medical Primate Research Center, Neuroscience Center, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, China
8.
Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing 100101, China
12.
Institute of Medical Biology, Chinese Academy of Medical Sciences, CAMS & PUMC, Kunming 650118, China
13.
Medical Primate Research Center, Chinese Academy of Medical Science and Peking Union Medical College, Beijing 100005, China
14.
State Key Laboratory of Medical Molecular Biology, Department of Molecular Biology and Biochemistry, Institute of Basic Medical Sciences, Medical Primate Research Center, Neuroscience Center, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, China
15.
Bioinformatics Laboratory and CAS Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China
16.
State Key Laboratory of Medical Molecular Biology, Department of Molecular Biology and Biochemistry, Institute of Basic Medical Sciences, Medical Primate Research Center, Neuroscience Center, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, China
19.
Bioinformatics Laboratory and CAS Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China
20.
State Key Laboratory of Medical Molecular Biology, Department of Molecular Biology and Biochemistry, Institute of Basic Medical Sciences, Medical Primate Research Center, Neuroscience Center, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, China

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Corresponding author: E-mail address: crs@sun5.ibp.ac.cn (Runsheng Chen); E-mail address: pengxiaozhong@pumc.edu.cn (Xiaozhong Peng)

These authors contributed equally to this work.

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These authors contributed equally to this work.

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[2]	Blekhman, R., Marioni, J.C., Zumbo, P. et al. Sex-specific and lineage-specific alternative splicing in primates Genome Res., 20 (2010),pp. 180-189
[3]	Burruel, V., Klooster, K.L., Chitwood, J. et al. Oxidative damage to rhesus macaque spermatozoa results in mitotic arrest and transcript abundance changes in early embryos Biol. Reprod., 89 (2013),p. 72
[4]	Deng, W., Zhu, X., Skogerbø, G. et al. Genome Res., 16 (2006),pp. 20-29
[5]	Derti, A., Garrett-Engele, P., Macisaac, K.D. et al. A quantitative atlas of polyadenylation in five mammals Genome Res., 22 (2012),pp. 1173-1183
[6]	Li, Z., Bammann, H., Li, M. et al. Evolutionary and ontogenetic changes in RNA editing in human, chimpanzee, and macaque brains RNA, 19 (2013),pp. 1693-1702
[7]	Liu, S., Lin, L., Jiang, P. et al. A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species Nucleic Acids Res., 39 (2011),pp. 578-588
[8]	Liu, Y., Han, D., Han, Y. et al. Ab initio identification of transcription start sites in the Rhesus macaque genome by histone modification and RNA-Seq Nucleic Acids Res., 39 (2011),pp. 1408-1418
[9]	Margulies, M., Egholm, M., Altman, W.E. et al. Genome sequencing in microfabricated high-density picolitre reactors Nature, 437 (2005),pp. 376-380
[10]	Rinn, J.L., Chang, H.Y. Genome regulation by long noncoding RNAs Annu. Rev. Biochem., 81 (2012),pp. 145-166
[11]	Scaruffi, P. The transcribed-ultra-conserved regions: a novel class of long noncoding RNAs involved in cancer susceptibility Sci. World J., 11 (2011),pp. 340-352
[12]	Wei, C., Xiao, T., Zhang, P. et al. PLoS One, 9 (2014),p. e92946
[13]	Xie, C., Zhang, Y.E., Chen, J.Y. et al. PLoS Genet., 8 (2012),p. e1002942
[14]	Xu, A.G., He, L., Li, Z. et al. Intergenic and repeat transcription in human, chimpanzee and macaque brains measured by RNA-Seq PLoS Comput. Biol., 6 (2010),p. e1000843
[15]	Yan, D., He, D., He, S. et al. Identification and analysis of intermediate size noncoding RNAs in the human fetal brain PLoS One, 6 (2011),p. e21652
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[17]	Zhang, Y., Liu, J., Jia, C. et al. Systematic identification and evolutionary features of rhesus monkey small nucleolar RNAs BMC Genomics, 11 (2010),p. 61
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doi: 10.1016/j.jgg.2017.01.003

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Identification and analysis of intermediate-size noncoding RNAs in the rhesus macaque fetal brain

Corresponding author: E-mail address: crs@sun5.ibp.ac.cn (Runsheng Chen); E-mail address: pengxiaozhong@pumc.edu.cn (Xiaozhong Peng)

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doi: 10.1016/j.jgg.2017.01.003

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Identification and analysis of intermediate-size noncoding RNAs in the rhesus macaque fetal brain

Corresponding author: E-mail address: crs@sun5.ibp.ac.cn (Runsheng Chen); E-mail address: pengxiaozhong@pumc.edu.cn (Xiaozhong Peng)

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