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Literature DB >> 22609373

miRSeqNovel: an R based workflow for analyzing miRNA sequencing data.

Kui Qian¹, Eeva Auvinen, Dario Greco, Petri Auvinen.

Abstract

We present miRSeqNovel, an R based workflow for miRNA sequencing data analysis. miRSeqNovel can process both colorspace (SOLiD) and basespace (Illumina/Solexa) data by different mapping algorithms. It finds differentially expressed miRNAs and gives conservative prediction of novel miRNA candidates with customized parameters. miRSeqNovel is freely available at http://sourceforge.net/projects/mirseq/files.

Mesh：

Substances：
MicroRNAs

Year: 2012 PMID： 22609373 DOI： 10.1016/j.mcp.2012.05.002

Source DB: PubMed Journal: Mol Cell Probes ISSN： 0890-8508 Impact factor: 2.365

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Cited

8 in total

Review 1. Seeing the forest for the trees: annotating small RNA producing genes in plants.

Authors: Ceyda Coruh; Saima Shahid; Michael J Axtell
Journal: Curr Opin Plant Biol Date: 2014-03-15 Impact factor: 7.834

2. MicroRNAs Regulating Autophagy in Neurodegeneration.

Authors: Qingxuan Lai; Nikolai Kovzel; Ruslan Konovalov; Ilya A Vinnikov
Journal: Adv Exp Med Biol Date: 2021 Impact factor: 2.622

3. Low expression levels of putative HPV encoded microRNAs in cervical samples.

Authors: Elina Virtanen; Tuuli Pietilä; Pekka Nieminen; Kui Qian; Eeva Auvinen
Journal: Springerplus Date: 2016-10-22

4. Diff isomiRs: Large-scale detection of differential isomiRs for understanding non-coding regulated stress omics in plants.

Authors: Kun Yang; Xiaopeng Wen; Suresh Mudunuri; G P Saradhi Varma; Gaurav Sablok
Journal: Sci Rep Date: 2019-02-05 Impact factor: 4.379

miRSeqNovel: an R based workflow for analyzing miRNA sequencing data.

Review 1. Seeing the forest for the trees: annotating small RNA producing genes in plants.

2. MicroRNAs Regulating Autophagy in Neurodegeneration.

3. Low expression levels of putative HPV encoded microRNAs in cervical samples.

4. Diff isomiRs: Large-scale detection of differential isomiRs for understanding non-coding regulated stress omics in plants.

Review 5. Biogenesis, Functions, Interactions, and Resources of Non-Coding RNAs in Plants.

6. Identification and validation of human papillomavirus encoded microRNAs.

7. isomiRs: Increasing Evidences of isomiRs Complexity in Plant Stress Functional Biology.

Review 8. Deciphering miRNAs' Action through miRNA Editing.