Current tools for the identification of miRNA genes and their targets
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[1] T. Tuschl,et al. Structure of the guide-strand-containing argonaute silencing complex , 2008, Nature.
[2] Dang D. Long,et al. mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein–enriched transcripts , 2008, Nature Methods.
[3] Chao Cheng,et al. Inferring MicroRNA Activities by Combining Gene Expression with MicroRNA Target Prediction , 2008, PloS one.
[4] N. Rajewsky,et al. Discovering microRNAs from deep sequencing data using miRDeep , 2008, Nature Biotechnology.
[5] Yun Zheng,et al. Identification of novel and candidate miRNAs in rice by high throughput sequencing , 2008, BMC Plant Biology.
[6] R. Place,et al. MicroRNA-373 induces expression of genes with complementary promoter sequences , 2008, Proceedings of the National Academy of Sciences.
[7] Xiaowei Wang,et al. Sequence analysis Prediction of both conserved and nonconserved microRNA targets in animals , 2007 .
[8] Brendan J. Frey,et al. Comparing Sequence and Expression for Predicting microRNA Targets Using GenMIR3 , 2007, Pacific Symposium on Biocomputing.
[9] J. Steitz,et al. Switching from Repression to Activation: MicroRNAs Can Up-Regulate Translation , 2007, Science.
[10] Carsten Wiuf,et al. Ab Initio Identification of Human Micrornas Based on Structure Motifs Ab Initio Identification of Human Micrornas Based on Struc- Ture Motifs , 2007 .
[11] Manolis Kellis,et al. Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. , 2007, Genome research.
[12] Trina M. Norden-Krichmar,et al. Computational prediction and experimental validation of Ciona intestinalis microRNA genes , 2007, BMC Genomics.
[13] Thomas Sandmann,et al. Identification of Novel Drosophila melanogaster MicroRNAs , 2007, PloS one.
[14] Sonja J. Prohaska,et al. Computational RNomics of Drosophilids , 2007, BMC Genomics.
[15] Marie Öhman,et al. A-to-I editing challenger or ally to the microRNA process. , 2007 .
[16] Michael Kertesz,et al. The role of site accessibility in microRNA target recognition , 2007, Nature Genetics.
[17] B. Lenhard,et al. Mammalian MicroRNA Prediction through a Support Vector Machine Model of Sequence and Structure , 2007, PloS one.
[18] Bin Fan,et al. MiRFinder: an improved approach and software implementation for genome-wide fast microRNA precursor scans , 2007, BMC Bioinformatics.
[19] D. Chitwood,et al. Target mimics modulate miRNAs , 2007, Nature Genetics.
[20] D. Bartel,et al. Intronic microRNA precursors that bypass Drosha processing , 2007, Nature.
[21] C. Sander,et al. A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing , 2007, Cell.
[22] D. Baulcombe,et al. miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii , 2007, Nature.
[23] Peng Jiang,et al. MiPred: classification of real and pseudo microRNA precursors using random forest prediction model with combined features , 2007, Nucleic Acids Res..
[24] 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.
[25] Anton J. Enright,et al. Prediction of microRNA targets. , 2007, Drug discovery today.
[26] William Ritchie,et al. RNA stem-loops: to be or not to be cleaved by RNAse III. , 2007, RNA.
[27] Rolf Backofen,et al. Inferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering , 2007, PLoS Comput. Biol..
[28] V. Kim,et al. Processing of intronic microRNAs , 2007, The EMBO journal.
[29] Santosh K. Mishra,et al. De novo SVM classification of precursor microRNAs from genomic pseudo hairpins using global and intrinsic folding measures , 2007, Bioinform..
[30] Ola R. Snøve,et al. Reliable prediction of Drosha processing sites improves microRNA gene prediction. , 2007, Bioinformatics.
[31] M. Ohman. A-to-I editing challenger or ally to the microRNA process. , 2007, Biochimie.
[32] Christine G Elsik,et al. Computational and transcriptional evidence for microRNAs in the honey bee genome , 2007, Genome Biology.
[33] Mihaela Zavolan,et al. Inference of miRNA targets using evolutionary conservation and pathway analysis , 2007, BMC Bioinformatics.
[34] Martti T. Tammi,et al. MicroTar: predicting microRNA targets from RNA duplexes , 2006, BMC Bioinformatics.
[35] B. Davidson,et al. RNA polymerase III transcribes human microRNAs , 2006, Nature Structural &Molecular Biology.
[36] Jan Gorodkin,et al. MicroRNA sequence motifs reveal asymmetry between the stem arms , 2006, Comput. Biol. Chem..
[37] Peter F. Stadler,et al. Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data , 2006, ISMB.
[38] Byoung-Tak Zhang,et al. Molecular Basis for the Recognition of Primary microRNAs by the Drosha-DGCR8 Complex , 2006, Cell.
[39] Louise C. Showe,et al. Bioinformatics Original Paper Combining Multi-species Genomic Data for Microrna Identification Using a Naı¨ve Bayes Classifier , 2022 .
[40] N. Rajewsky. microRNA target predictions in animals , 2006, Nature Genetics.
[41] E. Borenstein,et al. Direct evolution of genetic robustness in microRNA. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[42] Baohong Zhang,et al. Conservation and divergence of plant microRNA genes. , 2006, The Plant journal : for cell and molecular biology.
[43] Daniel H. Huson,et al. Identification of plant microRNA homologs , 2006, Bioinform..
[44] K. Chaudhuri,et al. An approach for the identification of microRNA with an application to Anopheles gambiae. , 2006, Acta biochimica Polonica.
[45] Byoung-Tak Zhang,et al. miTarget: microRNA target gene prediction using a support vector machine , 2006, BMC Bioinformatics.
[46] Anton J. Enright,et al. RNA editing of human microRNAs , 2006, Genome Biology.
[47] S. Cox,et al. Evidence that miRNAs are different from other RNAs , 2006, Cellular and Molecular Life Sciences CMLS.
[48] Fei Li,et al. Classification of real and pseudo microRNA precursors using local structure-sequence features and support vector machine , 2005, BMC Bioinformatics.
[49] R. Russell,et al. Animal MicroRNAs Confer Robustness to Gene Expression and Have a Significant Impact on 3′UTR Evolution , 2005, Cell.
[50] R. Pillai. MicroRNA function: multiple mechanisms for a tiny RNA? , 2005, RNA.
[51] Mihaela Zavolan,et al. Identification of Clustered Micrornas Using an Ab Initio Prediction Method , 2022 .
[52] Olivier Elemento,et al. Revealing Posttranscriptional Regulatory Elements Through Network-Level Conservation , 2005, PLoS Comput. Biol..
[53] William H Press,et al. Human microRNAs target a functionally distinct population of genes with AT-rich 3′ UTRs , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[54] Fei Li,et al. MicroRNA identification based on sequence and structure alignment , 2005, Bioinform..
[55] Anders Krogh,et al. Computational evidence for hundreds of non-conserved plant microRNAs , 2005, BMC Genomics.
[56] Donald C. Chang,et al. Asymmetry of intronic pre-miRNA structures in functional RISC assembly. , 2005, Gene.
[57] Richard W. Carthew,et al. Silence from within: Endogenous siRNAs and miRNAs , 2005, Cell.
[58] Ola Snøve,et al. Weighted sequence motifs as an improved seeding step in microRNA target prediction algorithms. , 2005, RNA.
[59] Byoung-Tak Zhang,et al. Human microRNA prediction through a probabilistic co-learning model of sequence and structure , 2005, Nucleic acids research.
[60] Vetle I. Torvik,et al. Mammalian microRNAs derived from genomic repeats. , 2005, Trends in genetics : TIG.
[61] Hanah Margalit,et al. Clustering and conservation patterns of human microRNAs , 2005, Nucleic acids research.
[62] Peter M. Waterhouse,et al. Plant and animal microRNAs: similarities and differences , 2005, Functional & Integrative Genomics.
[63] K. Gunsalus,et al. Combinatorial microRNA target predictions , 2005, Nature Genetics.
[64] Daniel Gautheret,et al. Profile-based detection of microRNA precursors in animal genomes , 2005, Bioinform..
[65] K. Lindblad-Toh,et al. Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals , 2005, Nature.
[66] Y. Li,et al. Incorporating structure to predict microRNA targets. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[67] Gang Wu,et al. Nuclear processing and export of microRNAs in Arabidopsis. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[68] D. Bartel,et al. Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. , 2005, RNA.
[69] J. Castle,et al. Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs , 2005, Nature.
[70] C. Sander,et al. Identification of microRNAs of the herpesvirus family , 2005, Nature Methods.
[71] R. Russell,et al. Principles of MicroRNA–Target Recognition , 2005, PLoS biology.
[72] Yang Li,et al. Computational identification of novel family members of microRNA genes in Arabidopsis thaliana and Oryza sativa. , 2005, Acta biochimica et biophysica Sinica.
[73] Guiliang Tang,et al. siRNA and miRNA: an insight into RISCs. , 2005, Trends in biochemical sciences.
[74] B. Patterson,et al. Letter to the editor. , 2018, Journal of professional nursing : official journal of the American Association of Colleges of Nursing.
[75] C. Burge,et al. Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets , 2005, Cell.
[76] Michel J. Weber. New human and mouse microRNA genes found by homology search , 2004, The FEBS journal.
[77] R. Aharonov,et al. Identification of hundreds of conserved and nonconserved human microRNAs , 2005, Nature Genetics.
[78] A. Adai,et al. Computational prediction of miRNAs in Arabidopsis thaliana. , 2005, Genome research.
[79] S. Ying,et al. Intronic microRNAs. , 2005, Biochemical and biophysical research communications.
[80] P. Macdonald,et al. Prediction and verification of microRNA targets by MovingTargets, a highly adaptable prediction method , 2005, BMC Genomics.
[81] B. Cullen. Transcription and processing of human microRNA precursors. , 2004, Molecular cell.
[82] B. Cullen,et al. Human microRNAs are processed from capped, polyadenylated transcripts that can also function as mRNAs. , 2004, RNA.
[83] F. Slack,et al. Architecture of a validated microRNA::target interaction. , 2004, Chemistry & biology.
[84] Yves Van de Peer,et al. Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences , 2004, Bioinform..
[85] Sanghyuk Lee,et al. MicroRNA genes are transcribed by RNA polymerase II , 2004, The EMBO journal.
[86] Anton J. Enright,et al. Human MicroRNA Targets , 2004, PLoS biology.
[87] J. Krol,et al. Structural Features of MicroRNA (miRNA) Precursors and Their Relevance to miRNA Biogenesis and Small Interfering RNA/Short Hairpin RNA Design* , 2004, Journal of Biological Chemistry.
[88] R. Giegerich,et al. Fast and effective prediction of microRNA/target duplexes. , 2004, RNA.
[89] A. Bradley,et al. Identification of mammalian microRNA host genes and transcription units. , 2004, Genome research.
[90] C. Burge,et al. Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification. , 2004, RNA.
[91] Terry Gaasterland,et al. Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets , 2004, Genome Biology.
[92] P. Rouzé,et al. Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[93] Henry Mirsky,et al. RNA editing of a miRNA precursor. , 2004, RNA.
[94] R. Sunkar,et al. Novel and Stress-Regulated MicroRNAs and Other Small RNAs from Arabidopsis , 2004, The Plant Cell Online.
[95] Eric Westhof,et al. Single Processing Center Models for Human Dicer and Bacterial RNase III , 2004, Cell.
[96] D. Bartel,et al. Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. , 2004, Molecular cell.
[97] A. Hatzigeorgiou,et al. A combined computational-experimental approach predicts human microRNA targets. , 2004, Genes & development.
[98] Anton J. Enright,et al. Identification of Virus-Encoded MicroRNAs , 2004, Science.
[99] D. Bartel,et al. MicroRNA-Directed Cleavage of HOXB8 mRNA , 2004, Science.
[100] Xuemei Chen,et al. A MicroRNA as a Translational Repressor of APETALA2 in Arabidopsis Flower Development , 2004, Science.
[101] John G Doench,et al. Specificity of microRNA target selection in translational repression. , 2004, Genes & development.
[102] D. Bartel. MicroRNAs Genomics, Biogenesis, Mechanism, and Function , 2004, Cell.
[103] Nikolaus Rajewsky,et al. Computational identification of microRNA targets , 2004, Genome Biology.
[104] U. Kutay,et al. Nuclear Export of MicroRNA Precursors , 2004, Science.
[105] R. Plasterk,et al. Substrate requirements for let-7 function in the developing zebrafish embryo. , 2004, Nucleic acids research.
[106] B. Cullen,et al. Structural requirements for pre-microRNA binding and nuclear export by Exportin 5. , 2004, Nucleic acids research.
[107] C. Burge,et al. Prediction of Mammalian MicroRNA Targets , 2003, Cell.
[108] Eric C Lai,et al. microRNAs: Runts of the Genome Assert Themselves , 2003, Current Biology.
[109] Hajime Sakai,et al. Regulation of Flowering Time and Floral Organ Identity by a MicroRNA and Its APETALA2-Like Target Genes Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.016238. , 2003, The Plant Cell Online.
[110] T. Du,et al. Asymmetry in the Assembly of the RNAi Enzyme Complex , 2003, Cell.
[111] S. Jayasena,et al. Functional siRNAs and miRNAs Exhibit Strand Bias , 2003, Cell.
[112] Julius Brennecke,et al. Identification of Drosophila MicroRNA Targets , 2003, PLoS biology.
[113] V. Kim,et al. The nuclear RNase III Drosha initiates microRNA processing , 2003, Nature.
[114] Julius Brennecke,et al. Towards a complete description of the microRNA complement of animal genomes , 2003, Genome Biology.
[115] B. Cullen,et al. MicroRNAs and small interfering RNAs can inhibit mRNA expression by similar mechanisms , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[116] G. Rubin,et al. Computational identification of Drosophila microRNA genes , 2003, Genome Biology.
[117] David P. Bartel,et al. MicroRNAs: At the Root of Plant Development?1 , 2003, Plant Physiology.
[118] V. Ambros,et al. MicroRNAs and Other Tiny Endogenous RNAs in C. elegans , 2003, Current Biology.
[119] G. Church,et al. Computational and experimental identification of C. elegans microRNAs. , 2003, Molecular cell.
[120] C. Burge,et al. The microRNAs of Caenorhabditis elegans. , 2003, Genes & development.
[121] C. Burge,et al. Vertebrate MicroRNA Genes , 2003, Science.
[122] G. Ruvkun,et al. A uniform system for microRNA annotation. , 2003, RNA.
[123] Anton J. Enright,et al. MicroRNA Targets in Drosophila , 2003, Genome Biology.
[124] V. Kim,et al. MicroRNA maturation: stepwise processing and subcellular localization , 2002, The EMBO journal.
[125] B. Reinhart,et al. Prediction of Plant MicroRNA Targets , 2002, Cell.
[126] G. Hutvagner,et al. A microRNA in a Multiple-Turnover RNAi Enzyme Complex , 2002, Science.
[127] B. Reinhart,et al. MicroRNAs in plants. , 2002, Genes & development.
[128] E. Lai. Micro RNAs are complementary to 3′ UTR sequence motifs that mediate negative post-transcriptional regulation , 2002, Nature Genetics.
[129] Ben Lehner,et al. Antisense transcripts in the human genome. , 2002, Trends in genetics : TIG.
[130] V. Ambros. microRNAs Tiny Regulators with Great Potential , 2001, Cell.
[131] D. Gautheret,et al. Direct RNA motif definition and identification from multiple sequence alignments using secondary structure profiles. , 2001, Journal of molecular biology.
[132] V. Ambros,et al. An Extensive Class of Small RNAs in Caenorhabditis elegans , 2001, Science.
[133] L. Lim,et al. An Abundant Class of Tiny RNAs with Probable Regulatory Roles in Caenorhabditis elegans , 2001, Science.
[134] B. Reinhart,et al. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA , 2000, Nature.
[135] Béatrice Conne,et al. The 3′ untranslated region of messenger RNA: A molecular ‘hotspot’ for pathology? , 2000, Nature Medicine.
[136] D. O. Wijnands,et al. Identification of plants , 1997 .
[137] K. D. Kasschau,et al. A MicroRNA as a Translational Repressor of APETALA 2 in Arabidopsis Flower Development , 2022 .