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Similar articles for PubMed (Select 25114903)

1.

miRSeq: a user-friendly standalone toolkit for sequencing quality evaluation and miRNA profiling.

Pan CT, Tsai KW, Hung TM, Lin WC, Pan CY, Yu HR, Li SC.

Biomed Res Int. 2014;2014:462135. doi: 10.1155/2014/462135. Epub 2014 Jun 24.

2.

CAP-miRSeq: a comprehensive analysis pipeline for microRNA sequencing data.

Sun Z, Evans J, Bhagwate A, Middha S, Bockol M, Yan H, Kocher JP.

BMC Genomics. 2014 Jun 3;15:423. doi: 10.1186/1471-2164-15-423.

3.

miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments.

Wen M, Shen Y, Shi S, Tang T.

BMC Bioinformatics. 2012 Jun 21;13:140. doi: 10.1186/1471-2105-13-140.

4.

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.

5.

Next-generation sequencing identifies the natural killer cell microRNA transcriptome.

Fehniger TA, Wylie T, Germino E, Leong JW, Magrini VJ, Koul S, Keppel CR, Schneider SE, Koboldt DC, Sullivan RP, Heinz ME, Crosby SD, Nagarajan R, Ramsingh G, Link DC, Ley TJ, Mardis ER.

Genome Res. 2010 Nov;20(11):1590-604. doi: 10.1101/gr.107995.110. Epub 2010 Oct 8.

6.

eRNA: a graphic user interface-based tool optimized for large data analysis from high-throughput RNA sequencing.

Yuan T, Huang X, Dittmar RL, Du M, Kohli M, Boardman L, Thibodeau SN, Wang L.

BMC Genomics. 2014 Mar 5;15:176. doi: 10.1186/1471-2164-15-176.

7.

RNA CoMPASS: a dual approach for pathogen and host transcriptome analysis of RNA-seq datasets.

Xu G, Strong MJ, Lacey MR, Baribault C, Flemington EK, Taylor CM.

PLoS One. 2014 Feb 25;9(2):e89445. doi: 10.1371/journal.pone.0089445. eCollection 2014.

8.

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
9.

Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis.

Li Y, Zhang Z, Liu F, Vongsangnak W, Jing Q, Shen B.

Nucleic Acids Res. 2012 May;40(10):4298-305. doi: 10.1093/nar/gks043. Epub 2012 Jan 28.

10.

isomiRex: web-based identification of microRNAs, isomiR variations and differential expression using next-generation sequencing datasets.

Sablok G, Milev I, Minkov G, Minkov I, Varotto C, Yahubyan G, Baev V.

FEBS Lett. 2013 Aug 19;587(16):2629-34. doi: 10.1016/j.febslet.2013.06.047. Epub 2013 Jul 4.

11.

Robust global microRNA expression profiling using next-generation sequencing technologies.

Tam S, de Borja R, Tsao MS, McPherson JD.

Lab Invest. 2014 Mar;94(3):350-8. doi: 10.1038/labinvest.2013.157. Epub 2014 Jan 20.

12.

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.

13.

miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data.

An J, Lai J, Lehman ML, Nelson CC.

Nucleic Acids Res. 2013 Jan;41(2):727-37. doi: 10.1093/nar/gks1187. Epub 2012 Dec 4.

14.

miRNA data analysis: next-gen sequencing.

Gunaratne PH, Coarfa C, Soibam B, Tandon A.

Methods Mol Biol. 2012;822:273-88. doi: 10.1007/978-1-61779-427-8_19.

PMID:
22144206
15.

New methods for next generation sequencing based microRNA expression profiling.

Buermans HP, Ariyurek Y, van Ommen G, den Dunnen JT, 't Hoen PA.

BMC Genomics. 2010 Dec 20;11:716. doi: 10.1186/1471-2164-11-716.

16.

NGS-Trex: Next Generation Sequencing Transcriptome profile explorer.

Boria I, Boatti L, Pesole G, Mignone F.

BMC Bioinformatics. 2013;14 Suppl 7:S10. doi: 10.1186/1471-2105-14-S7-S10. Epub 2013 Apr 22.

17.

miRNAkey: a software for microRNA deep sequencing analysis.

Ronen R, Gan I, Modai S, Sukacheov A, Dror G, Halperin E, Shomron N.

Bioinformatics. 2010 Oct 15;26(20):2615-6. doi: 10.1093/bioinformatics/btq493. Epub 2010 Aug 27.

18.

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.

19.

Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis.

Yilmazel B, Hu Y, Sigoillot F, Smith JA, Shamu CE, Perrimon N, Mohr SE.

BMC Bioinformatics. 2014 Jun 17;15:192. doi: 10.1186/1471-2105-15-192.

20.

High-throughput multiplex sequencing of miRNA.

Vigneault F, Ter-Ovanesyan D, Alon S, Eminaga S, C Christodoulou D, Seidman JG, Eisenberg E, M Church G.

Curr Protoc Hum Genet. 2012 Apr;Chapter 11:Unit 11.12.1-10. doi: 10.1002/0471142905.hg1112s73.

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