Target Prediction Algorithms and Bioinformatics Resources for miRNA Studies
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Niall Barron | Martin Clynes | C. Clarke | M. Henry | P. Meleady | N. Barron | M. Clynes | M. Gallagher | Colin Clarke | Paula Meleady | Michael Henry | Mark Gallagher | M. Henry
[1] Byoung-Tak Zhang,et al. miTarget: microRNA target gene prediction using a support vector machine , 2006, BMC Bioinformatics.
[2] Tongbin Li,et al. miRecords: an integrated resource for microRNA–target interactions , 2008, Nucleic Acids Res..
[3] D. Bartel,et al. Weak Seed-Pairing Stability and High Target-Site Abundance Decrease the Proficiency of lsy-6 and Other miRNAs , 2011, Nature Structural &Molecular Biology.
[4] D. Bartel. MicroRNAs: Target Recognition and Regulatory Functions , 2009, Cell.
[5] Jan Krüger,et al. RNAhybrid: microRNA target prediction easy, fast and flexible , 2006, Nucleic Acids Res..
[6] P. Schuster,et al. Complete suboptimal folding of RNA and the stability of secondary structures. , 1999, Biopolymers.
[7] Xianghuo He,et al. Multiple microRNAs modulate p21Cip1/Waf1 expression by directly targeting its 3′ untranslated region , 2010, Oncogene.
[8] A. Hatzigeorgiou,et al. A guide through present computational approaches for the identification of mammalian microRNA targets , 2006, Nature Methods.
[9] Doron Betel,et al. The microRNA.org resource: targets and expression , 2007, Nucleic Acids Res..
[10] C. Burge,et al. Prediction of Mammalian MicroRNA Targets , 2003, Cell.
[11] Anton J. Enright,et al. MicroRNA targets in Drosophila , 2003, Genome Biology.
[12] Ola Snøve,et al. Distance constraints between microRNA target sites dictate efficacy and cooperativity , 2007, Nucleic acids research.
[13] Tamas Dalmay,et al. Mutations in the seed region of human miR-96 are responsible for nonsyndromic progressive hearing loss , 2009, Nature Genetics.
[14] C. Willoughby,et al. Mutation altering the miR-184 seed region causes familial keratoconus with cataract. , 2011, American journal of human genetics.
[15] A. Ballabio,et al. MicroRNA target prediction by expression analysis of host genes. , 2009, Genome research.
[16] Norbert Gretz,et al. miRWalk - Database: Prediction of possible miRNA binding sites by "walking" the genes of three genomes , 2011, J. Biomed. Informatics.
[17] B. Reinhart,et al. Prediction of Plant MicroRNA Targets , 2002, Cell.
[18] B. Reinhart,et al. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans , 2000, Nature.
[19] Aliaksandr Druz,et al. A novel microRNA mmu‐miR‐466h affects apoptosis regulation in mammalian cells , 2011, Biotechnology and bioengineering.
[20] S. Bahr,et al. Profiling highly conserved microrna expression in recombinant IgG‐producing and parental Chinese hamster ovary cells , 2011, Biotechnology progress.
[21] Hui Zhou,et al. starBase: a database for exploring microRNA–mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data , 2010, Nucleic Acids Res..
[22] Masaru Tomita,et al. Computational analysis of microRNA targets in Caenorhabditis elegans. , 2006, Gene.
[23] Chi-Ying F. Huang,et al. miRTarBase: a database curates experimentally validated microRNA–target interactions , 2010, Nucleic Acids Res..
[24] M. Hentze,et al. Mechanism of translational regulation by miR-2 from sites in the 5' untranslated region or the open reading frame. , 2010, RNA.
[25] Margherita Mutarelli,et al. HOCTAR database: A unique resource for microRNA target prediction , 2011, Gene.
[26] Renate Kunert,et al. Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: Identification, annotation and profiling of microRNAs as targets for cellular engineering , 2011, Journal of biotechnology.
[27] Boqin Qiang,et al. Improving the prediction of human microRNA target genes by using ensemble algorithm , 2007, FEBS letters.
[28] K. Gunsalus,et al. Combinatorial microRNA target predictions , 2005, Nature Genetics.
[29] A. Mele,et al. Ago HITS-CLIP decodes miRNA-mRNA interaction maps , 2009, Nature.
[30] Ivo L. Hofacker,et al. Vienna RNA secondary structure server , 2003, Nucleic Acids Res..
[31] Anton J. Enright,et al. Human MicroRNA Targets , 2004, PLoS biology.
[32] Brian D Athey,et al. New class of microRNA targets containing simultaneous 5'-UTR and 3'-UTR interaction sites. , 2009, Genome research.
[33] Dominik Lutter,et al. GeneSet2miRNA: finding the signature of cooperative miRNA activities in the gene lists , 2009, Nucleic Acids Res..
[34] R. Russell,et al. Principles of MicroRNA–Target Recognition , 2005, PLoS biology.
[35] B. Berger,et al. Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs. , 2011, Genome research.
[36] John G Doench,et al. Specificity of microRNA target selection in translational repression. , 2004, Genes & development.
[37] L. Lim,et al. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. , 2007, Molecular cell.
[38] C. Clarke,et al. Impact of miR-7 over-expression on the proteome of Chinese hamster ovary cells. , 2012, Journal of biotechnology.
[39] Profiling conserved microRNA expression in recombinant CHO cell lines using Illumina sequencing. , 2012, Biotechnology and bioengineering.
[40] M. Stoffel,et al. MicroRNA-96 Directly Inhibits γ-Globin Expression in Human Erythropoiesis , 2011, PloS one.
[41] Yvonne Tay,et al. A Pattern-Based Method for the Identification of MicroRNA Binding Sites and Their Corresponding Heteroduplexes , 2006, Cell.
[42] Nectarios Koziris,et al. DIANA-microT web server: elucidating microRNA functions through target prediction , 2009, Nucleic Acids Res..
[43] R. Giegerich,et al. Fast and effective prediction of microRNA/target duplexes. , 2004, RNA.
[44] V. Ambros,et al. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14 , 1993, Cell.
[45] C. Clarke,et al. Engineering CHO cell growth and recombinant protein productivity by overexpression of miR-7. , 2011, Journal of biotechnology.
[46] W. Filipowicz,et al. Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? , 2008, Nature Reviews Genetics.
[47] Niraj Kumar,et al. Initial identification of low temperature and culture stage induction of miRNA expression in suspension CHO-K1 cells. , 2007, Journal of biotechnology.
[48] J. Steitz,et al. Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5′ UTR as in the 3′ UTR , 2007, Proceedings of the National Academy of Sciences.
[49] Martin Reczko,et al. Lost in translation: an assessment and perspective for computational microRNA target identification , 2009, Bioinform..
[50] C. Burge,et al. Most mammalian mRNAs are conserved targets of microRNAs. , 2008, Genome research.
[51] Nectarios Koziris,et al. Accurate microRNA target prediction correlates with protein repression levels , 2009, BMC Bioinformatics.
[52] Peng Jiang,et al. MiPred: classification of real and pseudo microRNA precursors using random forest prediction model with combined features , 2007, Nucleic Acids Res..
[53] J. Kitzman,et al. Determinants of targeting by endogenous and exogenous microRNAs and siRNAs. , 2007, RNA.
[54] U. A. Ørom,et al. Experimental identification of microRNA targets. , 2010, Gene.
[55] Louise C. Showe,et al. Naïve Bayes for microRNA target predictions - machine learning for microRNA targets , 2007, Bioinform..
[56] D. Bartel,et al. The impact of microRNAs on protein output , 2008, Nature.
[57] John J Rossi,et al. SNPs in human miRNA genes affect biogenesis and function. , 2009, RNA.
[58] Nectarios Koziris,et al. TarBase 6.0: capturing the exponential growth of miRNA targets with experimental support , 2011, Nucleic Acids Res..
[59] C. Burge,et al. Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets , 2005, Cell.
[60] Kelvin H. Lee,et al. The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line , 2011, Nature Biotechnology.
[61] N. Rajewsky,et al. Widespread changes in protein synthesis induced by microRNAs , 2008, Nature.
[62] Yadong Wang,et al. miR2Disease: a manually curated database for microRNA deregulation in human disease , 2008, Nucleic Acids Res..
[63] O. Hobert. Common logic of transcription factor and microRNA action. , 2004, Trends in biochemical sciences.
[64] Michael Kertesz,et al. The role of site accessibility in microRNA target recognition , 2007, Nature Genetics.
[65] Ana Kozomara,et al. miRBase: integrating microRNA annotation and deep-sequencing data , 2010, Nucleic Acids Res..
[66] Vaibhav Jadhav,et al. Dynamic mRNA and miRNA profiling of CHO‐K1 suspension cell cultures , 2012, Biotechnology journal.
[67] C. Sander,et al. A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing , 2007, Cell.
[68] C. Burge,et al. The Widespread Impact of Mammalian MicroRNAs on mRNA Repression and Evolution , 2005, Science.
[69] Oliver Hofmann,et al. miR-24 Inhibits cell proliferation by targeting E2F2, MYC, and other cell-cycle genes via binding to "seedless" 3'UTR microRNA recognition elements. , 2009, Molecular cell.
[70] J. Castle,et al. Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs , 2005, Nature.
[71] Nitya M. Jacob,et al. Conserved microRNAs in Chinese hamster ovary cell lines. , 2011, Biotechnology and bioengineering.