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Items: 19

1.

In silico identification and characterization of a diverse subset of conserved microRNAs in bioenergy crop Arundo donax L.

Jike W, Sablok G, Bertorelle G, Li M, Varotto C.

Sci Rep. 2018 Nov 12;8(1):16667. doi: 10.1038/s41598-018-34982-8.

2.

IpiRId: Integrative approach for piRNA prediction using genomic and epigenomic data.

Boucheham A, Sommard V, Zehraoui F, Boualem A, Batouche M, Bendahmane A, Israeli D, Tahi F.

PLoS One. 2017 Jun 16;12(6):e0179787. doi: 10.1371/journal.pone.0179787. eCollection 2017.

3.

A Review on Recent Computational Methods for Predicting Noncoding RNAs.

Zhang Y, Huang H, Zhang D, Qiu J, Yang J, Wang K, Zhu L, Fan J, Yang J.

Biomed Res Int. 2017;2017:9139504. doi: 10.1155/2017/9139504. Epub 2017 May 3. Review.

4.
5.

The impact of feature selection on one and two-class classification performance for plant microRNAs.

Khalifa W, Yousef M, Saçar Demirci MD, Allmer J.

PeerJ. 2016 Jun 21;4:e2135. doi: 10.7717/peerj.2135. eCollection 2016.

6.

Feature Selection Has a Large Impact on One-Class Classification Accuracy for MicroRNAs in Plants.

Yousef M, Saçar Demirci MD, Khalifa W, Allmer J.

Adv Bioinformatics. 2016;2016:5670851. doi: 10.1155/2016/5670851. Epub 2016 Apr 12.

7.

Improving classification of mature microRNA by solving class imbalance problem.

Wang Y, Li X, Tao B.

Sci Rep. 2016 May 16;6:25941. doi: 10.1038/srep25941.

8.

Improved Pre-miRNA Classification by Reducing the Effect of Class Imbalance.

Zhong Y, Xuan P, Han K, Zhang W, Li J.

Biomed Res Int. 2015;2015:960108. doi: 10.1155/2015/960108. Epub 2015 Nov 10.

9.

Dietary MicroRNA Database (DMD): An Archive Database and Analytic Tool for Food-Borne microRNAs.

Chiang K, Shu J, Zempleni J, Cui J.

PLoS One. 2015 Jun 1;10(6):e0128089. doi: 10.1371/journal.pone.0128089. eCollection 2015.

10.

Prediction of plant pre-microRNAs and their microRNAs in genome-scale sequences using structure-sequence features and support vector machine.

Meng J, Liu D, Sun C, Luan Y.

BMC Bioinformatics. 2014 Dec 30;15:423. doi: 10.1186/s12859-014-0423-x.

11.

Virus versus host plant microRNAs: who determines the outcome of the interaction?

Maghuly F, Ramkat RC, Laimer M.

PLoS One. 2014 Jun 4;9(6):e98263. doi: 10.1371/journal.pone.0098263. eCollection 2014. Erratum in: PLoS One. 2019 Apr 12;14(4):e0215588.

12.

Computational approaches in detecting non- coding RNA.

Wang C, Wei L, Guo M, Zou Q.

Curr Genomics. 2013 Sep;14(6):371-7. doi: 10.2174/13892029113149990005.

13.

Identification and characterization of the microRNA transcriptome of a moth orchid Phalaenopsis aphrodite.

Chao YT, Su CL, Jean WH, Chen WC, Chang YC, Shih MC.

Plant Mol Biol. 2014 Mar;84(4-5):529-48. doi: 10.1007/s11103-013-0150-0. Epub 2013 Oct 31.

14.

A significant fraction of 21-nucleotide small RNA originates from phased degradation of resistance genes in several perennial species.

Källman T, Chen J, Gyllenstrand N, Lagercrantz U.

Plant Physiol. 2013 Jun;162(2):741-54. doi: 10.1104/pp.113.214643. Epub 2013 Apr 11.

15.

HuntMi: an efficient and taxon-specific approach in pre-miRNA identification.

Gudyś A, Szcześniak MW, Sikora M, Makałowska I.

BMC Bioinformatics. 2013 Mar 5;14:83. doi: 10.1186/1471-2105-14-83.

16.

Genome-wide identification of soybean microRNAs and their targets reveals their organ-specificity and responses to phosphate starvation.

Xu F, Liu Q, Chen L, Kuang J, Walk T, Wang J, Liao H.

BMC Genomics. 2013 Jan 31;14:66. doi: 10.1186/1471-2164-14-66.

17.

Heterogeneous ensemble approach with discriminative features and modified-SMOTEbagging for pre-miRNA classification.

Lertampaiporn S, Thammarongtham C, Nukoolkit C, Kaewkamnerdpong B, Ruengjitchatchawalya M.

Nucleic Acids Res. 2013 Jan 7;41(1):e21. doi: 10.1093/nar/gks878. Epub 2012 Sep 24.

18.

Sorting the wheat from the chaff: identifying miRNAs in genomic survey sequences of Triticum aestivum chromosome 1AL.

Lucas SJ, Budak H.

PLoS One. 2012;7(7):e40859. doi: 10.1371/journal.pone.0040859. Epub 2012 Jul 17.

19.

MaturePred: efficient identification of microRNAs within novel plant pre-miRNAs.

Xuan P, Guo M, Huang Y, Li W, Huang Y.

PLoS One. 2011;6(11):e27422. doi: 10.1371/journal.pone.0027422. Epub 2011 Nov 16.

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