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Items: 1 to 20 of 98

1.

Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries.

de Hoon MJ, Taft RJ, Hashimoto T, Kanamori-Katayama M, Kawaji H, Kawano M, Kishima M, Lassmann T, Faulkner GJ, Mattick JS, Daub CO, Carninci P, Kawai J, Suzuki H, Hayashizaki Y.

Genome Res. 2010 Feb;20(2):257-64. doi: 10.1101/gr.095273.109. Epub 2010 Jan 5.

2.

Identification of Taxus microRNAs and their targets with high-throughput sequencing and degradome analysis.

Hao DC, Yang L, Xiao PG, Liu M.

Physiol Plant. 2012 Dec;146(4):388-403. doi: 10.1111/j.1399-3054.2012.01668.x. Epub 2012 Jul 25.

PMID:
22708792
3.

Identifying RNA editing sites in miRNAs by deep sequencing.

Alon S, Eisenberg E.

Methods Mol Biol. 2013;1038:159-70. doi: 10.1007/978-1-62703-514-9_9.

PMID:
23872974
4.

A comprehensive study of multiple mapping and feature selection for correction strategy in the analysis of small RNAs from SOLiD sequencing.

Guo L, Liang T, Lu Z.

Biosystems. 2011 May-Jun;104(2-3):87-93. doi: 10.1016/j.biosystems.2011.01.004. Epub 2011 Jan 13.

PMID:
21237247
5.

Construction of small RNA cDNA libraries for deep sequencing.

Lu C, Meyers BC, Green PJ.

Methods. 2007 Oct;43(2):110-7.

PMID:
17889797
6.

Discovering microRNAs from deep sequencing data using miRDeep.

Friedländer MR, Chen W, Adamidi C, Maaskola J, Einspanier R, Knespel S, Rajewsky N.

Nat Biotechnol. 2008 Apr;26(4):407-15. doi: 10.1038/nbt1394.

PMID:
18392026
7.

Systematic identification of edited microRNAs in the human brain.

Alon S, Mor E, Vigneault F, Church GM, Locatelli F, Galeano F, Gallo A, Shomron N, Eisenberg E.

Genome Res. 2012 Aug;22(8):1533-40. doi: 10.1101/gr.131573.111. Epub 2012 Apr 12.

8.

Using deep sequencing data for identification of editing sites in mature miRNAs.

Alon S, Eisenberg E.

Methods Mol Biol. 2015;1269:231-42. doi: 10.1007/978-1-4939-2291-8_14.

PMID:
25577382
9.

Generation of plant small RNA cDNA libraries for high-throughput sequencing.

Zhu QH, Helliwell CA.

Methods Mol Biol. 2012;894:123-37. doi: 10.1007/978-1-61779-882-5_9.

PMID:
22678577
10.

Genome-wide identification of Schistosoma japonicum microRNAs using a deep-sequencing approach.

Huang J, Hao P, Chen H, Hu W, Yan Q, Liu F, Han ZG.

PLoS One. 2009 Dec 8;4(12):e8206. doi: 10.1371/journal.pone.0008206.

11.

Discovery of plant microRNAs and short-interfering RNAs by deep parallel sequencing.

Chellappan P, Jin H.

Methods Mol Biol. 2009;495:121-32. doi: 10.1007/978-1-59745-477-3_11.

PMID:
19085152
12.

A bioinformatic screen for novel A-I RNA editing sites reveals recoding editing in BC10.

Clutterbuck DR, Leroy A, O'Connell MA, Semple CA.

Bioinformatics. 2005 Jun 1;21(11):2590-5. Epub 2005 Mar 29.

PMID:
15797904
13.

Computational prediction of RNA editing sites.

Bundschuh R.

Bioinformatics. 2004 Nov 22;20(17):3214-20. Epub 2004 Jul 1.

PMID:
15231535
14.

CPSS: a computational platform for the analysis of small RNA deep sequencing data.

Zhang Y, Xu B, Yang Y, Ban R, Zhang H, Jiang X, Cooke HJ, Xue Y, Shi Q.

Bioinformatics. 2012 Jul 15;28(14):1925-7. doi: 10.1093/bioinformatics/bts282. Epub 2012 May 9.

PMID:
22576177
15.

Identification of miRNA from Porphyra yezoensis by high-throughput sequencing and bioinformatics analysis.

Liang C, Zhang X, Zou J, Xu D, Su F, Ye N.

PLoS One. 2010 May 19;5(5):e10698. doi: 10.1371/journal.pone.0010698.

16.

Identification of fruit related microRNAs in cucumber (Cucumis sativus L.) using high-throughput sequencing technology.

Ye X, Song T, Liu C, Feng H, Liu Z.

Hereditas. 2014 Dec;151(6):220-8. doi: 10.1111/hrd2.00057.

17.

Deep sequencing of grapevine flower and berry short RNA library for discovery of novel microRNAs and validation of precise sequences of grapevine microRNAs deposited in miRBase.

Wang C, Wang X, Kibet NK, Song C, Zhang C, Li X, Han J, Fang J.

Physiol Plant. 2011 Sep;143(1):64-81. doi: 10.1111/j.1399-3054.2011.01481.x. Epub 2011 Jun 9.

PMID:
21496033
18.

MiRAuto: an automated user-friendly microRNA prediction tool utilizing plant small RNA sequencing data.

Lee J, Kim DI, Park JH, Choi IY, Shin C.

Mol Cells. 2013 Apr;35(4):342-7. doi: 10.1007/s10059-013-0019-8. Epub 2013 Apr 15.

19.

Conserved miRNA analysis in Gossypium hirsutum through small RNA sequencing.

Ruan MB, Zhao YT, Meng ZH, Wang XJ, Yang WC.

Genomics. 2009 Oct;94(4):263-8. doi: 10.1016/j.ygeno.2009.07.002. Epub 2009 Jul 21.

20.

Revealing editing and SNPs of microRNAs in colon tissues by analyzing high-throughput sequencing profiles of small RNAs.

Zheng Y, Li T, Ren R, Shi D, Wang S.

BMC Genomics. 2014;15 Suppl 9:S11. doi: 10.1186/1471-2164-15-S9-S11. Epub 2014 Dec 8.

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