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Results: 1 to 20 of 99

1.

miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data.

Hendrix D, Levine M, Shi W.

Genome Biol. 2010;11(4):R39. doi: 10.1186/gb-2010-11-4-r39. Epub 2010 Apr 6.

PMID:
20370911
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Computational identification of Ciona intestinalis microRNAs.

Keshavan R, Virata M, Keshavan A, Zeller RW.

Zoolog Sci. 2010 Feb;27(2):162-70. doi: 10.2108/zsj.27.162.

PMID:
20141421
[PubMed - indexed for MEDLINE]
3.

Computational prediction and experimental validation of Ciona intestinalis microRNA genes.

Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T.

BMC Genomics. 2007 Nov 29;8:445.

PMID:
18047675
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

mirExplorer: detecting microRNAs from genome and next generation sequencing data using the AdaBoost method with transition probability matrix and combined features.

Guan DG, Liao JY, Qu ZH, Zhang Y, Qu LH.

RNA Biol. 2011 Sep-Oct;8(5):922-34. doi: 10.4161/rna.8.5.16026. Epub 2011 Sep 1.

PMID:
21881406
[PubMed - indexed for MEDLINE]
Free Article
5.

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
[PubMed - indexed for MEDLINE]
6.

Prediction of conserved precursors of miRNAs and their mature forms by integrating position-specific structural features.

Terai G, Okida H, Asai K, Mituyama T.

PLoS One. 2012;7(9):e44314. doi: 10.1371/journal.pone.0044314. Epub 2012 Sep 5.

PMID:
22957063
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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.

PMID:
19997615
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

A distinct class of small RNAs arises from pre-miRNA-proximal regions in a simple chordate.

Shi W, Hendrix D, Levine M, Haley B.

Nat Struct Mol Biol. 2009 Feb;16(2):183-9. doi: 10.1038/nsmb.1536. Epub 2009 Jan 18.

PMID:
19151725
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression.

Wang WC, Lin FM, Chang WC, Lin KY, Huang HD, Lin NS.

BMC Bioinformatics. 2009 Oct 12;10:328. doi: 10.1186/1471-2105-10-328.

PMID:
19821977
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Identification of novel and known miRNAs in deep-sequencing data with miRDeep2.

Mackowiak SD.

Curr Protoc Bioinformatics. 2011 Dec;Chapter 12:Unit 12.10.. doi: 10.1002/0471250953.bi1210s36.

PMID:
22161567
[PubMed - indexed for MEDLINE]
11.

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.

PMID:
20502668
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Finding sRNA generative locales from high-throughput sequencing data with NiBLS.

MacLean D, Moulton V, Studholme DJ.

BMC Bioinformatics. 2010 Feb 18;11:93. doi: 10.1186/1471-2105-11-93.

PMID:
20167070
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Discovery of barley miRNAs through deep sequencing of short reads.

Schreiber AW, Shi BJ, Huang CY, Langridge P, Baumann U.

BMC Genomics. 2011 Feb 25;12:129. doi: 10.1186/1471-2164-12-129.

PMID:
21352554
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Characterization of microRNAs expression profiling in one group of Chinese urothelial cell carcinoma identified by Solexa sequencing.

Chen YH, Wang SQ, Wu XL, Shen M, Chen ZG, Chen XG, Liu YX, Zhu XL, Guo F, Duan XZ, Han XC, Tao ZH.

Urol Oncol. 2013 Feb;31(2):219-27. doi: 10.1016/j.urolonc.2010.11.007. Epub 2011 Jul 27.

PMID:
21795071
[PubMed - indexed for MEDLINE]
15.

A user-friendly computational workflow for the analysis of microRNA deep sequencing data.

Majer A, Caligiuri KA, Booth SA.

Methods Mol Biol. 2013;936:35-45.

PMID:
23007497
[PubMed - indexed for MEDLINE]
16.

Deep sequencing of small RNAs from human skin reveals major alterations in the psoriasis miRNAome.

Joyce CE, Zhou X, Xia J, Ryan C, Thrash B, Menter A, Zhang W, Bowcock AM.

Hum Mol Genet. 2011 Oct 15;20(20):4025-40. doi: 10.1093/hmg/ddr331. Epub 2011 Aug 1.

PMID:
21807764
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Identification of microRNAs from Amur grape (Vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics.

Wang C, Han J, Liu C, Kibet KN, Kayesh E, Shangguan L, Li X, Fang J.

BMC Genomics. 2012 Mar 29;13:122. doi: 10.1186/1471-2164-13-122.

PMID:
22455456
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Identification and profiling of novel microRNAs in the Brassica rapa genome based on small RNA deep sequencing.

Kim B, Yu HJ, Park SG, Shin JY, Oh M, Kim N, Mun JH.

BMC Plant Biol. 2012 Nov 19;12:218. doi: 10.1186/1471-2229-12-218.

PMID:
23163954
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

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
[PubMed - indexed for MEDLINE]
Free Article
20.

Identification of novel microRNAs in primates by using the synteny information and small RNA deep sequencing data.

Yuan Z, Liu H, Nie Y, Ding S, Yan M, Tan S, Jin Y, Sun X.

Int J Mol Sci. 2013 Oct 16;14(10):20820-32. doi: 10.3390/ijms141020820.

PMID:
24135875
[PubMed - indexed for MEDLINE]
Free PMC Article

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