Identifying miRNAs, targets and functions
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[1] S. Karlin,et al. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. , 1990, Proceedings of the National Academy of Sciences of the United States of America.
[2] V. Ambros,et al. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14 , 1993, Cell.
[3] T. Kealey. Genome:The Autobiography of a Species in 23 Chapters , 2000, Nature Genetics.
[4] B. Reinhart,et al. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA , 2000, Nature.
[5] J. Venter,et al. Genome: The Autobiography of a Species in 23 Chapters , 2000, Nature Medicine.
[6] Michael I. Jordan,et al. Modeling annotated data , 2003, SIGIR.
[7] G. Rubin,et al. Computational identification of Drosophila microRNA genes , 2003, Genome Biology.
[8] C. Burge,et al. Vertebrate MicroRNA Genes , 2003, Science.
[9] C. Burge,et al. Prediction of Mammalian MicroRNA Targets , 2003, Cell.
[10] D. Bartel. MicroRNAs Genomics, Biogenesis, Mechanism, and Function , 2004, Cell.
[11] E. Lai. Predicting and validating microRNA targets , 2004, Genome Biology.
[12] Peter L. Hammer,et al. Consensus algorithms for the generation of all maximal bicliques , 2004, Discret. Appl. Math..
[13] R. Giegerich,et al. Fast and effective prediction of microRNA/target duplexes. , 2004, RNA.
[14] Lin He,et al. MicroRNAs: small RNAs with a big role in gene regulation , 2004, Nature Reviews Genetics.
[15] Peter A. Flach,et al. Subgroup Discovery with CN2-SD , 2004, J. Mach. Learn. Res..
[16] Thomas L. Griffiths,et al. Probabilistic author-topic models for information discovery , 2004, KDD.
[17] Anton J. Enright,et al. Human MicroRNA Targets , 2004, PLoS biology.
[18] C. Croce,et al. MicroRNA gene expression deregulation in human breast cancer. , 2005, Cancer research.
[19] Giovanni De Micheli,et al. Prediction of regulatory modules comprising microRNAs and target genes , 2005, ECCB/JBI.
[20] K. Gunsalus,et al. Combinatorial microRNA target predictions , 2005, Nature Genetics.
[21] Isaac Bentwich. Available online , 2005 .
[22] C. Burge,et al. Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets , 2005, Cell.
[23] Srinivas Aluru. Handbook of Computational Molecular Biology (Chapman & All/Crc Computer and Information Science Series) , 2005 .
[24] Eugene Berezikov,et al. Approaches to microRNA discovery , 2006, Nature Genetics.
[25] Mihaela Zavolan,et al. Inference of miRNA targets using evolutionary conservation and pathway analysis , 2007, BMC Bioinformatics.
[26] R. Stephens,et al. Unique microRNA molecular profiles in lung cancer diagnosis and prognosis. , 2006, Cancer cell.
[27] Brendan J. Frey,et al. Detecting MicroRNA Targets by Linking Sequence, MicroRNA and Gene Expression Data , 2006, RECOMB.
[28] Anton J. Enright,et al. Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs , 2006, Science.
[29] A. Hatzigeorgiou,et al. A guide through present computational approaches for the identification of mammalian microRNA targets , 2006, Nature Methods.
[30] Yvonne Tay,et al. A Pattern-Based Method for the Identification of MicroRNA Binding Sites and Their Corresponding Heteroduplexes , 2006, Cell.
[31] N. Rajewsky. microRNA target predictions in animals , 2006, Nature Genetics.
[32] Colin N. Dewey,et al. A Genome-Wide Map of Conserved MicroRNA Targets in C. elegans , 2006, Current Biology.
[33] T. Tammela,et al. MicroRNA expression profiling in prostate cancer. , 2007, Cancer research.
[34] Y. Akao,et al. MicroRNA-143 and -145 in colon cancer. , 2007, DNA and cell biology.
[35] Byoung-Tak Zhang,et al. BIOINFORMATICS ORIGINAL PAPER doi:10.1093/bioinformatics/btm045 Data and text mining Discovery of microRNA–mRNA modules via population-based probabilistic learning , 2007 .
[36] K. Chaudhuri,et al. MicroRNA detection and target prediction: integration of computational and experimental approaches. , 2007, DNA and cell biology.
[37] G. Hannon,et al. A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii. , 2007, Genes & development.
[38] Michael Kertesz,et al. The role of site accessibility in microRNA target recognition , 2007, Nature Genetics.
[39] Anton J. Enright,et al. Prediction of microRNA targets. , 2007, Drug discovery today.
[40] L. Lim,et al. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. , 2007, Molecular cell.
[41] B. Frey,et al. Using expression profiling data to identify human microRNA targets , 2007, Nature Methods.
[42] Jason H. Moore,et al. Characterization of microRNA expression levels and their biological correlates in human cancer cell lines. , 2007, Cancer research.
[43] Tu Bao Ho,et al. Finding microRNA regulatory modules in human genome using rule induction , 2008, BMC Bioinformatics.
[44] M. Stephens,et al. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. , 2008, Genome research.
[45] Stijn van Dongen,et al. miRBase: tools for microRNA genomics , 2007, Nucleic Acids Res..
[46] Xiaowei Wang. miRDB: a microRNA target prediction and functional annotation database with a wiki interface. , 2008, RNA.
[47] N. Rajewsky,et al. Discovering microRNAs from deep sequencing data using miRDeep , 2008, Nature Biotechnology.
[48] Brad T. Sherman,et al. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources , 2008, Nature Protocols.
[49] W. L. Ruzzo,et al. MicroRNA Discovery and Profiling in Human Embryonic Stem Cells by Deep Sequencing of Small RNA Libraries , 2008, Stem cells.
[50] Yvonne Tay,et al. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation , 2008, Nature.
[51] Weixiong Zhang,et al. MicroRNA prediction with a novel ranking algorithm based on random walks , 2008, ISMB.
[52] Xiaowei Wang,et al. Sequence analysis Prediction of both conserved and nonconserved microRNA targets in animals , 2007 .
[53] Sanghyuk Lee,et al. miRGator: an integrated system for functional annotation of microRNAs , 2007, Nucleic Acids Res..
[54] N. Rajewsky,et al. Widespread changes in protein synthesis induced by microRNAs , 2008, Nature.
[55] D. Bartel,et al. The impact of microRNAs on protein output , 2008, Nature.
[56] R. Place,et al. MicroRNA-373 induces expression of genes with complementary promoter sequences , 2008, Proceedings of the National Academy of Sciences.
[57] Huan Yang,et al. MicroRNA expression profiling in human ovarian cancer: miR-214 induces cell survival and cisplatin resistance by targeting PTEN. , 2008, Cancer research.
[58] Tao Jiang,et al. MSOAR 2.0: Incorporating tandem duplications into ortholog assignment based on genome rearrangement , 2010, BMC Bioinformatics.
[59] C. Croce. Causes and consequences of microRNA dysregulation in cancer , 2009, Nature Reviews Genetics.
[60] D. Bartel. MicroRNAs: Target Recognition and Regulatory Functions , 2009, Cell.
[61] Jonathan R. Clark,et al. Alterations in miRNA processing and expression in pleomorphic adenomas of the salivary gland , 2009, International journal of cancer.
[62] Tongbin Li,et al. miRecords: an integrated resource for microRNA–target interactions , 2008, Nucleic Acids Res..
[63] W. Ritchie,et al. Predicting microRNA targets and functions: traps for the unwary , 2009, Nature Methods.
[64] Xinxia Peng,et al. Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers , 2009, BMC Genomics.
[65] Jiuyong Li,et al. Exploring complex miRNA-mRNA interactions with Bayesian networks by splitting-averaging strategy , 2009, BMC Bioinformatics.
[66] M. Kiebler,et al. Faculty Opinions recommendation of Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps. , 2009 .
[67] Nectarios Koziris,et al. Accurate microRNA target prediction correlates with protein repression levels , 2009, BMC Bioinformatics.
[68] Li Li,et al. Computational approaches for microRNA studies: a review , 2010, Mammalian Genome.
[69] Je-Gun Joung,et al. Identification of microRNA regulatory modules in Arabidopsis via a probabilistic graphical model , 2009, Bioinform..
[70] Martin Reczko,et al. The database of experimentally supported targets: a functional update of TarBase , 2008, Nucleic Acids Res..
[71] Dennis Shasha,et al. miRò: a miRNA knowledge base , 2009, Database J. Biol. Databases Curation.
[72] Martin Reczko,et al. Lost in translation: an assessment and perspective for computational microRNA target identification , 2009, Bioinform..
[73] C. Barbato,et al. Computational Challenges in miRNA Target Predictions: To Be or Not to Be a True Target? , 2009, Journal of biomedicine & biotechnology.
[74] Yadong Wang,et al. miR2Disease: a manually curated database for microRNA deregulation in human disease , 2008, Nucleic Acids Res..
[75] Ana M. Aransay,et al. miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments , 2009, Nucleic Acids Res..
[76] Jiuyong Li,et al. Discovery of functional miRNA-mRNA regulatory modules with computational methods , 2009, J. Biomed. Informatics.
[77] A. Delacourte,et al. MicroRNA regulation of Alzheimer's Amyloid precursor protein expression , 2009, Neurobiology of Disease.
[78] Min Zhu,et al. Identifying functional miRNA-mRNA regulatory modules with correspondence latent dirichlet allocation , 2010, Bioinform..
[79] Paul Bertone,et al. Systematic comparison of microarray profiling, real-time PCR, and next-generation sequencing technologies for measuring differential microRNA expression. , 2010, RNA.
[80] Juan Nunez-Iglesias,et al. Joint Genome-Wide Profiling of miRNA and mRNA Expression in Alzheimer's Disease Cortex Reveals Altered miRNA Regulation , 2010, PloS one.
[81] Scott B. Dewell,et al. Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP , 2010, Cell.
[82] R. Shamir,et al. Towards computational prediction of microRNA function and activity , 2010, Nucleic acids research.
[83] M. Cairns,et al. Schizophrenia is associated with an increase in cortical microRNA biogenesis , 2009, Molecular Psychiatry.
[84] Gene W. Yeo,et al. Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans , 2010, Nature Structural &Molecular Biology.
[85] Srinivas Aluru,et al. Handbook Of Computational Molecular Biology , 2010 .
[86] Yong Huang,et al. The discovery approaches and detection methods of microRNAs , 2011, Molecular Biology Reports.
[87] Gabriele Sales,et al. MAGIA, a web-based tool for miRNA and Genes Integrated Analysis , 2010, Nucleic Acids Res..
[88] Anjali J. Koppal,et al. Supplementary data: Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites , 2010 .
[89] Y. van de Peer,et al. Module Network Inference from a Cancer Gene Expression Data Set Identifies MicroRNA Regulated Modules , 2010, PloS one.
[90] Mathew B. Cox,et al. MicroRNAs miR-17 and miR-20a Inhibit T Cell Activation Genes and Are Under-Expressed in MS Whole Blood , 2010, PloS one.
[91] Hyeyoung Min,et al. Got target?: computational methods for microRNA target prediction and their extension , 2010, Experimental & Molecular Medicine.
[92] Bing Zhang,et al. WebGestalt2: an updated and expanded version of the Web-based Gene Set Analysis Toolkit , 2010, BMC Bioinformatics.
[93] Debmalya Barh,et al. miReg: a resource for microRNA regulation , 2010, J. Integr. Bioinform..
[94] Florian Buettner,et al. The sufficient minimal set of miRNA seed types , 2011, Bioinform..
[95] Jie Li,et al. Regulatory coordination of clustered microRNAs based on microRNA-transcription factor regulatory network , 2011, BMC Systems Biology.
[96] Leming Shi,et al. Comparing next-generation sequencing and microarray technologies in a toxicological study of the effects of aristolochic acid on rat kidneys. , 2011, Chemical research in toxicology.
[97] R. Küffner,et al. MIRTFnet: Analysis of miRNA Regulated Transcription Factors , 2011, PloS one.
[98] E. Schadt,et al. Characterizing the role of miRNAs within gene regulatory networks using integrative genomics techniques , 2011, Molecular systems biology.
[99] Ana Kozomara,et al. miRBase: integrating microRNA annotation and deep-sequencing data , 2010, Nucleic Acids Res..
[100] Juan Liu,et al. A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules , 2011, Bioinform..
[101] Norbert Gretz,et al. miRWalk - Database: Prediction of possible miRNA binding sites by "walking" the genes of three genomes , 2011, J. Biomed. Informatics.
[102] Sebastian D. Mackowiak,et al. miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades , 2011, Nucleic acids research.
[103] S. Chi,et al. An alternative mode of microRNA target recognition , 2012, Nature Structural &Molecular Biology.
[104] Nectarios Koziris,et al. TarBase 6.0: capturing the exponential growth of miRNA targets with experimental support , 2011, Nucleic Acids Res..
[105] Semih Ekimler,et al. Computational Methods for MicroRNA Target Prediction , 2014, Genes.