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Volumn 6, Issue , 2016, Pages

MIR-isomiRExp: A web-server for the analysis of expression of miRNA at the miRNA/isomiR levels

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA;

EID: 84961572745     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep23700     Document Type: Article
Times cited : (43)

References (31)
  • 1
    • 84867736206 scopus 로고    scopus 로고
    • IsomiRs-the overlooked repertoire in the dynamic microRNAome
    • Neilsen, C. T., Goodall, G. J., Bracken, C. P. IsomiRs-the overlooked repertoire in the dynamic microRNAome. Trends Genet 28, 544-549 (2012).
    • (2012) Trends Genet , vol.28 , pp. 544-549
    • Neilsen, C.T.1    Goodall, G.J.2    Bracken, C.P.3
  • 2
    • 84899895387 scopus 로고    scopus 로고
    • A Challenge for miRNA: Multiple IsomiRs in miRNAomics
    • Guo, L., Chen, F. A Challenge for miRNA: Multiple IsomiRs in miRNAomics. Gene 544, 1-7 (2014).
    • (2014) Gene , vol.544 , pp. 1-7
    • Guo, L.1    Chen, F.2
  • 3
    • 41649102715 scopus 로고    scopus 로고
    • Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa
    • Morin, R. D. et al. Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa. Genome Res 18, 571-584 (2008).
    • (2008) Genome Res , vol.18 , pp. 571-584
    • Morin, R.D.1
  • 4
    • 41649106136 scopus 로고    scopus 로고
    • Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
    • Morin, R. D. et al. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res 18, 610-621 (2008).
    • (2008) Genome Res , vol.18 , pp. 610-621
    • Morin, R.D.1
  • 5
    • 79959386594 scopus 로고    scopus 로고
    • A Comprehensive Survey of miRNA repertoire and 3? Addition events in the placentas of patients with Pre-eclampsia from High-throughput sequencing
    • Guo, L. et al. A Comprehensive Survey of miRNA Repertoire and 3? Addition Events in the Placentas of Patients with Pre-eclampsia from High-throughput Sequencing. PloS one 6, e21072 (2011).
    • (2011) PloS One , vol.6 , pp. e21072
    • Guo, L.1
  • 6
    • 78649255480 scopus 로고    scopus 로고
    • A comprehensive survey of 3? Animal miRNA modification events and a possible role for 3? Adenylation in modulating miRNA targeting effectiveness
    • Burroughs, A. M. et al. A comprehensive survey of 3? animal miRNA modification events and a possible role for 3? adenylation in modulating miRNA targeting effectiveness. Genome Res 20, 1398-1410 (2010).
    • (2010) Genome Res , vol.20 , pp. 1398-1410
    • Burroughs, A.M.1
  • 7
    • 77957312307 scopus 로고    scopus 로고
    • Dynamic isomiR regulation in Drosophila development
    • Fernandez-Valverde, S. L., Taft, R. J., Mattick, J. S. Dynamic isomiR regulation in Drosophila development. Rna 16, 1881-1888 (2010).
    • (2010) RNA , vol.16 , pp. 1881-1888
    • Fernandez-Valverde, S.L.1    Taft, R.J.2    Mattick, J.S.3
  • 8
    • 84873701078 scopus 로고    scopus 로고
    • A highly expressed MIR-101 isoMIR is a functional silencing small RNA
    • Llorens, F et al. A highly expressed miR-101 isomiR is a functional silencing small RNA. BMC Genomics 14, 104 (2013).
    • (2013) BMC Genomics , vol.14 , pp. 104
    • Llorens, F.1
  • 9
    • 84878349081 scopus 로고    scopus 로고
    • Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor
    • Llorens, F. et al. Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor. BMC Genomics 14, 371 (2013).
    • (2013) BMC Genomics , vol.14 , pp. 371
    • Llorens, F.1
  • 10
    • 84906283860 scopus 로고    scopus 로고
    • 5? IsomiR variation is of functional and evolutionary importance
    • Tan, G. C. et al. 5? isomiR variation is of functional and evolutionary importance. Nucleic Acids Res 42, 9424-9435 (2014).
    • (2014) Nucleic Acids Res , vol.42 , pp. 9424-9435
    • Tan, G.C.1
  • 11
    • 84907210648 scopus 로고    scopus 로고
    • A novel MIR-451a isoMIR, associated with amelanotypic phenotype, acts as a tumor suppressor in melanoma by retarding cell migration and invasion
    • Babapoor, S., Fleming, E., Wu, R., Dadras, S. S. A novel miR-451a isomiR, associated with amelanotypic phenotype, acts as a tumor suppressor in melanoma by retarding cell migration and invasion. PloS one 9, e107502 (2014).
    • (2014) PloS One , vol.9 , pp. e107502
    • Babapoor, S.1    Fleming, E.2    Wu, R.3    Dadras, S.S.4
  • 12
    • 84907984631 scopus 로고    scopus 로고
    • IsomiR Expression Profiles in Human Lymphoblastoid Cell Lines Exhibit Population and Gender Dependencies
    • Loher, P., Londin, E. R., Rigoutsos, I. IsomiR Expression Profiles in Human Lymphoblastoid Cell Lines Exhibit Population and Gender Dependencies. Oncotarget 5, 8790-8802 (2014).
    • (2014) Oncotarget , vol.5 , pp. 8790-8802
    • Loher, P.1    Londin, E.R.2    Rigoutsos, I.3
  • 13
    • 84938622806 scopus 로고    scopus 로고
    • 3? IsomiR species and DNA contamination influence reliable quantification of microRNAs by stemloop quantitative PCR
    • Schamberger, A., Orban, T. I. 3? IsomiR species and DNA contamination influence reliable quantification of microRNAs by stemloop quantitative PCR. PLoS one 9, e106315 (2014).
    • (2014) PLoS One , vol.9 , pp. e106315
    • Schamberger, A.1    Orban, T.I.2
  • 14
    • 84896264985 scopus 로고    scopus 로고
    • Integrative Analysis of miRNA-mRNA and miRNA-miRNA Interactions
    • Guo, L., Zhao, Y., Yang, S., Zhang, H., Chen, F. Integrative Analysis of miRNA-mRNA and miRNA-miRNA Interactions. BioMed Res Int 2014, http://dx.doi.org/10.1155/2014/907420 (2014).
    • (2014) BioMed Res Int 2014
    • Guo, L.1    Zhao, Y.2    Yang, S.3    Zhang, H.4    Chen, F.5
  • 15
    • 84895382187 scopus 로고    scopus 로고
    • Multiple IsomiRs and diversity of miRNA sequences unveil evolutionary roles and functional relationships across animals
    • Guo, L., Chen, F., Lu, Z. Multiple IsomiRs and Diversity of miRNA Sequences Unveil Evolutionary Roles and Functional Relationships Across Animals. in MicroRNA and Non-Coding RNA: Technology, Developments and Applications 127-144 (2013).
    • (2013) MicroRNA and Non-Coding RNA: Technology Developments and Applications , pp. 127-144
    • Guo, L.1    Chen, F.2    Lu, Z.3
  • 16
    • 84881480813 scopus 로고    scopus 로고
    • IsomiRex: Web-based identification of microRNAs, isomiR variations and differential expression using nextgeneration sequencing datasets
    • Sablok, G. et al. isomiRex: Web-based identification of microRNAs, isomiR variations and differential expression using nextgeneration sequencing datasets. FEBS Lett 587, 2629-2634 (2013).
    • (2013) FEBS Lett , vol.587 , pp. 2629-2634
    • Sablok, G.1
  • 17
    • 84876546237 scopus 로고    scopus 로고
    • YM500: A small RNA sequencing (smRNA-seq) database for microRNA research
    • Cheng, W. C. et al. YM500: a small RNA sequencing (smRNA-seq) database for microRNA research. Nucleic Acids Res 41, D285-294 (2013).
    • (2013) Nucleic Acids Res , vol.41 , pp. D285-294
    • Cheng, W.C.1
  • 18
    • 84938995518 scopus 로고    scopus 로고
    • YM500v2: A small RNA sequencing (smRNA-seq) database for human cancer miRNome research
    • Cheng, W. C. et al. YM500v2: a small RNA sequencing (smRNA-seq) database for human cancer miRNome research. Nucleic Acids Res 43, D862-867 (2015).
    • (2015) Nucleic Acids Res , vol.43 , pp. D862-867
    • Cheng, W.C.1
  • 19
    • 84927598498 scopus 로고    scopus 로고
    • IsomiRage: From functional classification to differential expression of miRNA isoforms
    • Muller, H., Marzi, M. J., Nicassio, F. IsomiRage: From Functional Classification to Differential Expression of miRNA Isoforms. Front Bioeng Biotechnol 2, 38 (2014).
    • (2014) Front Bioeng Biotechnol , vol.2 , pp. 38
    • Muller, H.1    Marzi, M.J.2    Nicassio, F.3
  • 20
    • 79957561785 scopus 로고    scopus 로고
    • Cross-mapping events in miRNAs reveal potential miRNA-mimics and evolutionary implications
    • Guo, L. et al. Cross-mapping events in miRNAs reveal potential miRNA-mimics and evolutionary implications. PloS one 6, e20517 (2011).
    • (2011) PloS One , vol.6 , pp. e20517
    • Guo, L.1
  • 21
    • 84860348037 scopus 로고    scopus 로고
    • Tracking miRNA precursor metabolic products and processing sites through completely analyzing high-throughput sequencing data
    • Guo, L. et al. Tracking miRNA precursor metabolic products and processing sites through completely analyzing high-throughput sequencing data. Mol Biol Rep 39, 2031-2038 (2012).
    • (2012) Mol Biol Rep , vol.39 , pp. 2031-2038
    • Guo, L.1
  • 22
    • 84899952353 scopus 로고    scopus 로고
    • In-depth exploration of miRNA: A new approach to study miRNA at the miRNA/isomiR levels
    • Guo, L., Zhang, H., Zhao, Y., Yang, S., Chen, F. In-depth exploration of miRNA: a new approach to study miRNA at the miRNA/isomiR levels. Curr Bioinform 9, 522-530 (2014).
    • (2014) Curr Bioinform , vol.9 , pp. 522-530
    • Guo, L.1    Zhang, H.2    Zhao, Y.3    Yang, S.4    Chen, F.5
  • 23
    • 84904114152 scopus 로고    scopus 로고
    • An Integrated Analysis of miRNA, lncRNA, and mRNA Expression Profiles
    • Guo, L., Zhao, Y., Yang, S., Zhang, H., Chen, F. An Integrated Analysis of miRNA, lncRNA, and mRNA Expression Profiles. BioMed Res Int 2014, http://dx.doi.org/10.1155/2014/345605 (2014).
    • (2014) BioMed Res Int 2014
    • Guo, L.1    Zhao, Y.2    Yang, S.3    Zhang, H.4    Chen, F.5
  • 24
    • 84888031808 scopus 로고    scopus 로고
    • Integrated evolutionary analysis of human miRNA gene clusters and families implicates evolutionary relationships
    • Guo, L., Zhao, Y., Zhang, H., Yang, S., Chen, F. Integrated evolutionary analysis of human miRNA gene clusters and families implicates evolutionary relationships. Gene 534, 24-32 (2014).
    • (2014) Gene , vol.534 , pp. 24-32
    • Guo, L.1    Zhao, Y.2    Zhang, H.3    Yang, S.4    Chen, F.5
  • 25
    • 84868193851 scopus 로고    scopus 로고
    • MiRNA-miRNA interaction implicates for potential mutual regulatory pattern
    • Guo, L., Sun, B., Wu, Q., Yang, S., Chen, F. miRNA-miRNA interaction implicates for potential mutual regulatory pattern. Gene 511, 187-194 (2012).
    • (2012) Gene , vol.511 , pp. 187-194
    • Guo, L.1    Sun, B.2    Wu, Q.3    Yang, S.4    Chen, F.5
  • 26
    • 84891818318 scopus 로고    scopus 로고
    • MiRBase: Annotating high confidence microRNAs using deep sequencing data
    • Kozomara, A., Griffiths-Jones, S. miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res 42, D68-73 (2014).
    • (2014) Nucleic Acids Res , vol.42 , pp. D68-73
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 27
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M., Salzberg, S. L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10, R25 (2009).
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 28
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders, S., Huber, W. Differential expression analysis for sequence count data. Genome Biol 11, R106 (2010).
    • (2010) Genome Biol , vol.11 , pp. R106
    • Anders, S.1    Huber, W.2
  • 29
    • 84919626787 scopus 로고    scopus 로고
    • Predictive genomics: A cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data
    • Wang, E. et al. Predictive genomics: a cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data. Semin Cancer Biol 30, 4-12 (2015).
    • (2015) Semin Cancer Biol , vol.30 , pp. 4-12
    • Wang, E.1
  • 30
    • 36849078711 scopus 로고    scopus 로고
    • Let-7 regulates self renewal and tumorigenicity of breast cancer cells
    • Yu, F. et al. let-7 regulates self renewal and tumorigenicity of breast cancer cells. Cell 131, 1109-1123 (2007).
    • (2007) Cell , vol.131 , pp. 1109-1123
    • Yu, F.1
  • 31
    • 84902174490 scopus 로고    scopus 로고
    • The anti-metastatic activity of collagenase-2 in breast cancer cells is mediated by a signaling pathway involving decorin and MIR-21
    • Soria-Valles, C. et al. The anti-metastatic activity of collagenase-2 in breast cancer cells is mediated by a signaling pathway involving decorin and miR-21. Oncogene 33, 3054-3063 (2014).
    • (2014) Oncogene , vol.33 , pp. 3054-3063
    • Soria-Valles, C.1


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