Fast and effective prediction of microRNA/target duplexes

Rehmsmeier M, Steffen P, Höchsmann M, Giegerich R (2004)
RNA-A PUBLICATION OF THE RNA SOCIETY 10(10): 1507-1517.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
Abstract / Bemerkung
MicroRNAs (miRNAs) are short RNAs that post-transcriptionally regulate the expression of target genes by binding to the target mRNAs. Although a large number of animal miRNAs has been defined, only a few targets are known. In contrast to plant miRNAs, which usually bind nearly perfectly to their targets, animal miRNAs bind less tightly, with a few nucleotides being unbound, thus producing more complex secondary structures of miRNA/target duplexes. Here, we present a program, RNAhybrid, that predicts multiple potential binding sites of miRNAs in large target RNAs. In general, the program finds the energetically most favorable hybridization sites of a small RNA in a large RNA. Intramolecular hybridizations, that is, base pairings between target nucleotides or between miRNA nucleotides are not allowed. For large targets, the time complexity of the algorithm is linear in the target length, allowing many long targets to be searched in a short time. Statistical significance of predicted targets is assessed with an extreme value statistics of length normalized minimum free energies, a Poisson approximation of multiple binding sites, and the calculation of effective numbers of orthologous targets in comparative studies of multiple organisms. We applied our method to the prediction of Drosophila miRNA targets in 3'UTRs and coding sequence. RNAhybrid, with its accompanying programs RNAcalibrate and RNAeffective, is available for download and as a Web tool on the Bielefeld Bioinformatics Server (http://bibiserv.techfak.uni-bielefeld.de/rnahybrid/).
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Zeitschriftentitel
RNA-A PUBLICATION OF THE RNA SOCIETY
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10
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10
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1507-1517
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PUB-ID

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Rehmsmeier M, Steffen P, Höchsmann M, Giegerich R. Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY. 2004;10(10):1507-1517.
Rehmsmeier, M., Steffen, P., Höchsmann, M., & Giegerich, R. (2004). Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY, 10(10), 1507-1517. doi:10.1021/rna.5248604
Rehmsmeier, M., Steffen, P., Höchsmann, M., and Giegerich, R. (2004). Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY 10, 1507-1517.
Rehmsmeier, M., et al., 2004. Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY, 10(10), p 1507-1517.
M. Rehmsmeier, et al., “Fast and effective prediction of microRNA/target duplexes”, RNA-A PUBLICATION OF THE RNA SOCIETY, vol. 10, 2004, pp. 1507-1517.
Rehmsmeier, M., Steffen, P., Höchsmann, M., Giegerich, R.: Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY. 10, 1507-1517 (2004).
Rehmsmeier, Marc, Steffen, Peter, Höchsmann, Matthias, and Giegerich, Robert. “Fast and effective prediction of microRNA/target duplexes”. RNA-A PUBLICATION OF THE RNA SOCIETY 10.10 (2004): 1507-1517.

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FAMLF is a target of miR-181b in Burkitt lymphoma.
Li JG, Ding Y, Huang YM, Chen WL, Pan LL, Li Y, Chen XL, Chen Y, Wang SY, Wu XN., Braz J Med Biol Res 50(6), 2017
PMID: 28492808
Inhibition of miR-274-3p increases BmCPV replication by regulating the expression of BmCPV NS5 gene in Bombyx mori.
Wu P, Jiang X, Sang Q, Annan E, Cheng T, Guo X., Virus Genes 53(4), 2017
PMID: 28493152
Putative roles as oncogene or tumour suppressor of the Mid-clustered microRNAs in Gallid alphaherpesvirus 2 (GaHV2) induced Marek's disease lymphomagenesis.
Teng M, Yu ZH, Zhao P, Zhuang GQ, Wu ZX, Dang L, Li HZ, Ma SM, Cui ZZ, Zhang GP, Wu R, Luo J., J Gen Virol 98(5), 2017
PMID: 28510513
A MIR4646 associated methylation locus is hypomethylated in adolescent depression.
Boström AE, Ciuculete DM, Attwood M, Krattinger R, Nikontovic L, Titova OE, Kullak-Ublick GA, Mwinyi J, Schiöth HB., J Affect Disord 220(), 2017
PMID: 28618313
Posttranscriptional Interaction Between miR-450a-5p and miR-28-5p and STAT1 mRNA Triggers Osteoblastic Differentiation of Human Mesenchymal Stem Cells.
Dernowsek JA, Pereira MC, Fornari TA, Macedo C, Assis AF, Donate PB, Bombonato-Prado KF, Passos-Bueno MR, Passos GA., J Cell Biochem 118(11), 2017
PMID: 28407302
Experimental evolution of resistance against Bacillus thuringiensis in the insect model host Galleria mellonella results in epigenetic modifications.
Mukherjee K, Grizanova E, Chertkova E, Lehmann R, Dubovskiy I, Vilcinskas A., Virulence 8(8), 2017
PMID: 28521626
A promoter-proximal transcript targeted by genetic polymorphism controls E-cadherin silencing in human cancers.
Pisignano G, Napoli S, Magistri M, Mapelli SN, Pastori C, Di Marco S, Civenni G, Albino D, Enriquez C, Allegrini S, Mitra A, D'Ambrosio G, Mello-Grand M, Chiorino G, Garcia-Escudero R, Varani G, Carbone GM, Catapano CV., Nat Commun 8(), 2017
PMID: 28555645
Analysis of sucrose-induced small RNAs in Streptococcus mutans in the presence of different sucrose concentrations.
Liu SS, Zhu WH, Zhi QH, Liu J, Wang Y, Lin HC., Appl Microbiol Biotechnol 101(14), 2017
PMID: 28567481
The primary transcriptome of Neisseria meningitidis and its interaction with the RNA chaperone Hfq.
Heidrich N, Bauriedl S, Barquist L, Li L, Schoen C, Vogel J., Nucleic Acids Res 45(10), 2017
PMID: 28334889
Deficiency of pigment epithelium-derived factor in nasopharyngeal carcinoma cells triggers the epithelial-mesenchymal transition and metastasis.
Zhang T, Yin P, Zhang Z, Xu B, Che D, Dai Z, Dong C, Jiang P, Hong H, Yang Z, Zhou T, Shao J, Xu Z, Yang X, Gao G., Cell Death Dis 8(6), 2017
PMID: 28569772
Construction and analyses of the microRNA-target gene differential regulatory network in thyroid carcinoma.
Kang YY, Liu Y, Wang ML, Guo M, Wang Y, Cheng ZF., PLoS One 12(6), 2017
PMID: 28570571
Identification, Characterization, and Functional Validation of Drought-responsive MicroRNAs in Subtropical Maize Inbreds.
Aravind J, Rinku S, Pooja B, Shikha M, Kaliyugam S, Mallikarjuna MG, Kumar A, Rao AR, Nepolean T., Front Plant Sci 8(), 2017
PMID: 28626466
miR-142-3p Contributes to Early Cardiac Fate Decision of Embryonic Stem Cells.
Chen ZY, Chen F, Cao N, Zhou ZW, Yang HT., Stem Cells Int 2017(), 2017
PMID: 28656050
The lncRNA H19 mediates breast cancer cell plasticity during EMT and MET plasticity by differentially sponging miR-200b/c and let-7b.
Zhou W, Ye XL, Xu J, Cao MG, Fang ZY, Li LY, Guan GH, Liu Q, Qian YH, Xie D., Sci Signal 10(483), 2017
PMID: 28611183
miRNA profiling during antigen-dependent T cell activation: A role for miR-132-3p.
Gutiérrez-Vázquez C, Rodríguez-Galán A, Fernández-Alfara M, Mittelbrunn M, Sánchez-Cabo F, Martínez-Herrera DJ, Ramírez-Huesca M, Pascual-Montano A, Sánchez-Madrid F., Sci Rep 7(1), 2017
PMID: 28615644
3'UTR polymorphisms of carbonic anhydrase IX determine the miR-34a targeting efficiency and prognosis of hepatocellular carcinoma.
Hua KT, Liu YF, Hsu CL, Cheng TY, Yang CY, Chang JS, Lee WJ, Hsiao M, Juan HF, Chien MH, Yang SF., Sci Rep 7(1), 2017
PMID: 28667334
IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions.
Mann M, Wright PR, Backofen R., Nucleic Acids Res 45(w1), 2017
PMID: 28472523
Fixed differences in the 3'UTR of buffalo PRNP gene provide binding sites for miRNAs post-transcriptional regulation.
Zhao H, Wang S, Guo L, Du Y, Liu L, Ma T, Otecko NO, Li C, Zhang Y., Oncotarget 8(28), 2017
PMID: 28545018
Acute lymphoblastic leukemia and genetic variations in BHMT gene: Case-control study and computational characterization.
Bellampalli R, Vohra M, Sharma K, Bhaskaranand N, Bhat KG, Prasad K, Sharma AR, Satyamoorthy K, Rai PS., Cancer Biomark 19(4), 2017
PMID: 28582843
Altered microRNA and Piwi-interacting RNA profiles in cumulus cells from patients with diminished ovarian reserve.
Chen D, Zhang Z, Chen B, Ji D, Hao Y, Zhou P, Wei Z, Cao Y., Biol Reprod 97(1), 2017
PMID: 28651359
Poly (ADP-Ribose) Polymerase-1 (PARP-1) Induction by Cocaine Is Post-Transcriptionally Regulated by miR-125b.
Dash S, Balasubramaniam M, Rana T, Godino A, Peck EG, Goodwin JS, Villalta F, Calipari ES, Nestler EJ, Dash C, Pandhare J., eNeuro 4(4), 2017
PMID: 28828398
Drosophila microRNA modulates viral replication by targeting a homologue of mammalian cJun.
Monsanto-Hearne V, Asad S, Asgari S, Johnson KN., J Gen Virol 98(7), 2017
PMID: 28691661
A Novel Regulatory Mechanism of Smooth Muscle α-Actin Expression by NRG-1/circACTA2/miR-548f-5p Axis.
Sun Y, Yang Z, Zheng B, Zhang XH, Zhang ML, Zhao XS, Zhao HY, Suzuki T, Wen JK., Circ Res 121(6), 2017
PMID: 28698179
miR-34b Modulates Skeletal Muscle Cell Proliferation and Differentiation.
Tang Z, Qiu H, Luo L, Liu N, Zhong J, Kang K, Gou D., J Cell Biochem 118(12), 2017
PMID: 28422320
MicroRNA Regulation of Glycolytic Metabolism in Glioblastoma.
Alfardus H, McIntyre A, Smith S., Biomed Res Int 2017(), 2017
PMID: 28804724
Regulation of Neisseria meningitidis cytochrome bc1 components by NrrF, a Fur-controlled small noncoding RNA.
Pannekoek Y, Huis In 't Veld R, Schipper K, Bovenkerk S, Kramer G, Speijer D, van der Ende A., FEBS Open Bio 7(9), 2017
PMID: 28904860
MiR-15a/16 deficiency enhances anti-tumor immunity of glioma-infiltrating CD8+ T cells through targeting mTOR.
Yang J, Liu R, Deng Y, Qian J, Lu Z, Wang Y, Zhang D, Luo F, Chu Y., Int J Cancer 141(10), 2017
PMID: 28758198
MicroRNA expression profiling of porcine mammary epithelial cells after challenge with Escherichia coli in vitro.
Jaeger A, Hadlich F, Kemper N, Lübke-Becker A, Muráni E, Wimmers K, Ponsuksili S., BMC Genomics 18(1), 2017
PMID: 28836962
A compilation of Web-based research tools for miRNA analysis.
Shukla V, Varghese VK, Kabekkodu SP, Mallya S, Satyamoorthy K., Brief Funct Genomics 16(5), 2017
PMID: 28334134
A trans-acting leader RNA from a Salmonella virulence gene.
Choi E, Han Y, Cho YJ, Nam D, Lee EJ., Proc Natl Acad Sci U S A 114(38), 2017
PMID: 28874555
Involvement of miR-155/FOXO3a and miR-222/PTEN in acquired radioresistance of colorectal cancer cell line.
Khoshinani HM, Afshar S, Pashaki AS, Mahdavinezhad A, Nikzad S, Najafi R, Amini R, Gholami MH, Khoshghadam A, Saidijam M., Jpn J Radiol 35(11), 2017
PMID: 28879560
Downregulation of microRNA-145 may contribute to liver fibrosis in biliary atresia by targeting ADD3.
Ye Y, Li Z, Feng Q, Chen Z, Wu Z, Wang J, Ye X, Zhang D, Liu L, Gao W, Zhang L, Wang B., PLoS One 12(9), 2017
PMID: 28902846
MicroRNA-208a-3p contributes to connexin40 remolding in human chronic atrial fibrillation.
Li S, Jiang Z, Wen L, Feng G, Zhong G., Exp Ther Med 14(6), 2017
PMID: 29285063
Time-lapse imaging of microRNA activity reveals the kinetics of microRNA activation in single living cells.
Ando H, Hirose M, Kurosawa G, Impey S, Mikoshiba K., Sci Rep 7(1), 2017
PMID: 28974737
A non-coding function of TYRP1 mRNA promotes melanoma growth.
Gilot D, Migault M, Bachelot L, Journé F, Rogiers A, Donnou-Fournet E, Mogha A, Mouchet N, Pinel-Marie ML, Mari B, Montier T, Corre S, Gautron A, Rambow F, El Hajj P, Ben Jouira R, Tartare-Deckert S, Marine JC, Felden B, Ghanem G, Galibert MD., Nat Cell Biol 19(11), 2017
PMID: 28991221
An Epstein-Barr Virus MicroRNA Blocks Interleukin-1 (IL-1) Signaling by Targeting IL-1 Receptor 1.
Skinner CM, Ivanov NS, Barr SA, Chen Y, Skalsky RL., J Virol 91(21), 2017
PMID: 28794034
IscR Regulation of Type 3 Fimbriae Expression in Klebsiella pneumoniae CG43.
Lin TH, Tseng CY, Lai YC, Wu CC, Huang CF, Lin CT., Front Microbiol 8(), 2017
PMID: 29085346
Dynamic and Modularized MicroRNA Regulation and Its Implication in Human Cancers.
Shu J, Silva BVRE, Gao T, Xu Z, Cui J., Sci Rep 7(1), 2017
PMID: 29042600
MicroRNA expression analysis of feline and canine parvovirus infection in vivo (felis).
Zhou P, Zhang X, Zeng W, Zheng Q, Hao X, Lin X, Zheng Y, Wang L, Zhang G, Li S., PLoS One 12(10), 2017
PMID: 29049413
miR-204 is associated with an endocrine phenotype in human pancreatic islets but does not regulate the insulin mRNA through MAFA.
Marzinotto I, Pellegrini S, Brigatti C, Nano R, Melzi R, Mercalli A, Liberati D, Sordi V, Ferrari M, Falconi M, Doglioni C, Ravassard P, Piemonti L, Lampasona V., Sci Rep 7(1), 2017
PMID: 29070792
A survey of software tools for microRNA discovery and characterization using RNA-seq.
Bortolomeazzi M, Gaffo E, Bortoluzzi S., Brief Bioinform (), 2017
PMID: 29126230
Increased Expression of a MicroRNA Correlates with Anthelmintic Resistance in Parasitic Nematodes.
Gillan V, Maitland K, Laing R, Gu H, Marks ND, Winter AD, Bartley D, Morrison A, Skuce PJ, Rezansoff AM, Gilleard JS, Martinelli A, Britton C, Devaney E., Front Cell Infect Microbiol 7(), 2017
PMID: 29209592
Osteoglycin inhibition by microRNA miR-155 impairs myogenesis.
Freire PP, Cury SS, de Oliveira G, Fernandez GJ, Moraes LN, da Silva Duran BO, Ferreira JH, Fuziwara CS, Kimura ET, Dal-Pai-Silva M, Carvalho RF., PLoS One 12(11), 2017
PMID: 29161332
Transcribed ultraconserved region 339 promotes carcinogenesis by modulating tumor suppressor microRNAs.
Vannini I, Wise PM, Challagundla KB, Plousiou M, Raffini M, Bandini E, Fanini F, Paliaga G, Crawford M, Ferracin M, Ivan C, Fabris L, Davuluri RV, Guo Z, Cortez MA, Zhang X, Chen L, Zhang S, Fernandez-Cymering C, Han L, Carloni S, Salvi S, Ling H, Murtadha M, Neviani P, Gitlitz BJ, Laird-Offringa IA, Nana-Sinkam P, Negrini M, Liang H, Amadori D, Cimmino A, Calin GA, Fabbri M., Nat Commun 8(1), 2017
PMID: 29180617
A transfer-RNA-derived small RNA regulates ribosome biogenesis.
Kim HK, Fuchs G, Wang S, Wei W, Zhang Y, Park H, Roy-Chaudhuri B, Li P, Xu J, Chu K, Zhang F, Chua MS, So S, Zhang QC, Sarnow P, Kay MA., Nature 552(7683), 2017
PMID: 29186115
MiR-215-5p is a tumor suppressor in colorectal cancer targeting EGFR ligand epiregulin and its transcriptional inducer HOXB9.
Vychytilova-Faltejskova P, Merhautova J, Machackova T, Gutierrez-Garcia I, Garcia-Solano J, Radova L, Brchnelova D, Slaba K, Svoboda M, Halamkova J, Demlova R, Kiss I, Vyzula R, Conesa-Zamora P, Slaby O., Oncogenesis 6(11), 2017
PMID: 29199273
Listeria monocytogenes Induces a Virulence-Dependent microRNA Signature That Regulates the Immune Response in Galleria mellonella.
Mannala GK, Izar B, Rupp O, Schultze T, Goesmann A, Chakraborty T, Hain T., Front Microbiol 8(), 2017
PMID: 29312175
The oncogenic role of circPVT1 in head and neck squamous cell carcinoma is mediated through the mutant p53/YAP/TEAD transcription-competent complex.
Verduci L, Ferraiuolo M, Sacconi A, Ganci F, Vitale J, Colombo T, Paci P, Strano S, Macino G, Rajewsky N, Blandino G., Genome Biol 18(1), 2017
PMID: 29262850
Integrated MicroRNA-mRNA Analysis Reveals miR-204 Inhibits Cell Proliferation in Gastric Cancer by Targeting CKS1B, CXCL1 and GPRC5A.
Shrestha S, Yang CD, Hong HC, Chou CH, Tai CS, Chiew MY, Chen WL, Weng SL, Chen CC, Chang YA, Lee ML, Huang WY, Hsu SD, Chen YC, Huang HD., Int J Mol Sci 19(1), 2017
PMID: 29283424
Cortical Tubers: Windows into Dysregulation of Epilepsy Risk and Synaptic Signaling Genes by MicroRNAs.
Dombkowski AA, Batista CE, Cukovic D, Carruthers NJ, Ranganathan R, Shukla U, Stemmer PM, Chugani HT, Chugani DC., Cereb Cortex 26(3), 2016
PMID: 25452577
miR-200 promotes the mesenchymal to epithelial transition by suppressing multiple members of the Zeb2 and Snail1 transcriptional repressor complexes.
Perdigão-Henriques R, Petrocca F, Altschuler G, Thomas MP, Le MT, Tan SM, Hide W, Lieberman J., Oncogene 35(2), 2016
PMID: 25798844
MicroRNA 140 Promotes Expression of Long Noncoding RNA NEAT1 in Adipogenesis.
Gernapudi R, Wolfson B, Zhang Y, Yao Y, Yang P, Asahara H, Zhou Q., Mol Cell Biol 36(1), 2016
PMID: 26459763
Complexity of Host Micro-RNA Response to Cytomegalovirus Reactivation After Organ Transplantation.
Egli A, Lisboa LF, O'Shea D, Asberg A, Mueller T, Emery V, Kumar D, Humar A., Am J Transplant 16(2), 2016
PMID: 26460801
Novel regulation and functional interaction of polycistronic miRNAs.
Truscott M, Islam AB, Frolov MV., RNA 22(1), 2016
PMID: 26554028
Bioinformatic tools for microRNA dissection.
Akhtar MM, Micolucci L, Islam MS, Olivieri F, Procopio AD., Nucleic Acids Res 44(1), 2016
PMID: 26578605
Regulation signature of miR-143 and miR-26 in porcine Salmonella infection identified by binding site enrichment analysis.
Yao M, Gao W, Tao H, Yang J, Liu G, Huang T., Mol Genet Genomics 291(2), 2016
PMID: 26589421
MTUS1 and its targeting miRNAs in colorectal carcinoma: significant associations.
Ozcan O, Kara M, Yumrutas O, Bozgeyik E, Bozgeyik I, Celik OI., Tumour Biol 37(5), 2016
PMID: 26643896
A variant at a potentially functional microRNA-binding site in BRIP1 was associated with risk of squamous cell carcinoma of the head and neck.
Liu H, Gao F, Dahlstrom KR, Li G, Sturgis EM, Zevallos JP, Wei Q, Liu Z., Tumour Biol 37(6), 2016
PMID: 26711789
MicroRNA-276 promotes egg-hatching synchrony by up-regulating brm in locusts.
He J, Chen Q, Wei Y, Jiang F, Yang M, Hao S, Guo X, Chen D, Kang L., Proc Natl Acad Sci U S A 113(3), 2016
PMID: 26729868
MicroRNAs in Honey Bee Caste Determination.
Ashby R, Forêt S, Searle I, Maleszka R., Sci Rep 6(), 2016
PMID: 26739502
Association between CYP2E1 polymorphisms and risk of differentiated thyroid carcinoma.
Pellé L, Cipollini M, Tremmel R, Romei C, Figlioli G, Gemignani F, Melaiu O, De Santi C, Barone E, Elisei R, Seiser E, Innocenti F, Zanger UM, Landi S., Arch Toxicol 90(12), 2016
PMID: 26783003
Dual RNA-seq unveils noncoding RNA functions in host-pathogen interactions.
Westermann AJ, Förstner KU, Amman F, Barquist L, Chao Y, Schulte LN, Müller L, Reinhardt R, Stadler PF, Vogel J., Nature 529(7587), 2016
PMID: 26789254
Complex interaction between dengue virus replication and expression of miRNA-133a.
Castillo JA, Castrillón JC, Diosa-Toro M, Betancur JG, St Laurent G, Smit JM, Urcuqui-Inchima S., BMC Infect Dis 16(), 2016
PMID: 26818704
MicroRNA-10a/10b represses a novel target gene mib1 to regulate angiogenesis.
Wang X, Ling CC, Li L, Qin Y, Qi J, Liu X, You B, Shi Y, Zhang J, Jiang Q, Xu H, Sun C, You Y, Chai R, Liu D., Cardiovasc Res 110(1), 2016
PMID: 26825552
Six Medicago truncatula Dicer-like protein genes are expressed in plant cells and upregulated in nodules.
Tworak A, Urbanowicz A, Podkowinski J, Kurzynska-Kokorniak A, Koralewska N, Figlerowicz M., Plant Cell Rep 35(5), 2016
PMID: 26825594
The peach HECATE3-like gene FLESHY plays a double role during fruit development.
Botton A, Rasori A, Ziliotto F, Moing A, Maucourt M, Bernillon S, Deborde C, Petterle A, Varotto S, Bonghi C., Plant Mol Biol 91(1-2), 2016
PMID: 26846510
H19 activates Wnt signaling and promotes osteoblast differentiation by functioning as a competing endogenous RNA.
Liang WC, Fu WM, Wang YB, Sun YX, Xu LL, Wong CW, Chan KM, Li G, Waye MM, Zhang JF., Sci Rep 6(), 2016
PMID: 26853553
Role of miR-222-3p in c-Src-Mediated Regulation of Osteoclastogenesis.
Takigawa S, Chen A, Wan Q, Na S, Sudo A, Yokota H, Hamamura K., Int J Mol Sci 17(2), 2016
PMID: 26891296
MiR-125b Regulates Primordial Follicle Assembly by Targeting Activin Receptor Type 2a in Neonatal Mouse Ovary.
Wang S, Liu J, Li X, Ji X, Zhang J, Wang Y, Cui S., Biol Reprod 94(4), 2016
PMID: 26962113
MiRComb: An R Package to Analyse miRNA-mRNA Interactions. Examples across Five Digestive Cancers.
Vila-Casadesús M, Gironella M, Lozano JJ., PLoS One 11(3), 2016
PMID: 26967326
Long non-coding RNA containing ultraconserved genomic region 8 promotes bladder cancer tumorigenesis.
Olivieri M, Ferro M, Terreri S, Durso M, Romanelli A, Avitabile C, De Cobelli O, Messere A, Bruzzese D, Vannini I, Marinelli L, Novellino E, Zhang W, Incoronato M, Ilardi G, Staibano S, Marra L, Franco R, Perdonà S, Terracciano D, Czerniak B, Liguori GL, Colonna V, Fabbri M, Febbraio F, Calin GA, Cimmino A., Oncotarget 7(15), 2016
PMID: 26943042
Predicting RNA secondary structures from sequence and probing data.
Lorenz R, Wolfinger MT, Tanzer A, Hofacker IL., Methods 103(), 2016
PMID: 27064083
Identification of Differentially Expressed microRNAs between the Fenpropathrin Resistant and Susceptible Strains in Tetranychus cinnabarinus.
Zhang Y, Xu Z, Wu Q, Peng M, Liu Y, Liu X, Shi L, Shen G, Pan Y, He L., PLoS One 11(4), 2016
PMID: 27050424
Insilco Prediction and Characterization of microRNAs from Oncopeltus fasciatus (Hemiptera: Lygaeidae) Genome.
Ellango R, Asokan R, Ramamurthy VV., Appl Biochem Biotechnol 179(8), 2016
PMID: 27075458
Association study of MiRSNPs with schizophrenia, tardive dyskinesia and cognition.
John J, Bhatia T, Kukshal P, Chandna P, Nimgaonkar VL, Deshpande SN, Thelma BK., Schizophr Res 174(1-3), 2016
PMID: 27106592
MicroRNAs of Toxocara canis and their predicted functional roles.
Ma G, Luo Y, Zhu H, Luo Y, Korhonen PK, Young ND, Gasser RB, Zhou R., Parasit Vectors 9(), 2016
PMID: 27108220
Oscillating glucose induces microRNA-185 and impairs an efficient antioxidant response in human endothelial cells.
La Sala L, Cattaneo M, De Nigris V, Pujadas G, Testa R, Bonfigli AR, Genovese S, Ceriello A., Cardiovasc Diabetol 15(), 2016
PMID: 27137793
Identification of novel microRNAs regulating HLA-G expression and investigating their clinical relevance in renal cell carcinoma.
Jasinski-Bergner S, Reches A, Stoehr C, Massa C, Gonschorek E, Huettelmaier S, Braun J, Wach S, Wullich B, Spath V, Wang E, Marincola FM, Mandelboim O, Hartmann A, Seliger B., Oncotarget 7(18), 2016
PMID: 27057628
Reduced miR-659-3p Levels Correlate with Progranulin Increase in Hypoxic Conditions: Implications for Frontotemporal Dementia.
Piscopo P, Grasso M, Fontana F, Crestini A, Puopolo M, Del Vescovo V, Venerosi A, Calamandrei G, Vencken SF, Greene CM, Confaloni A, Denti MA., Front Mol Neurosci 9(), 2016
PMID: 27199656
Differential expression of conserved and novel microRNAs during tail regeneration in the lizard Anolis carolinensis.
Hutchins ED, Eckalbar WL, Wolter JM, Mangone M, Kusumi K., BMC Genomics 17(), 2016
PMID: 27150582
Hsa-miR-24-3p increases nasopharyngeal carcinoma radiosensitivity by targeting both the 3'UTR and 5'UTR of Jab1/CSN5.
Wang S, Pan Y, Zhang R, Xu T, Wu W, Zhang R, Wang C, Huang H, Calin CA, Yang H, Claret FX., Oncogene 35(47), 2016
PMID: 27157611
MicroRNA-214 Reduces Insulin-like Growth Factor-1 (IGF-1) Receptor Expression and Downstream mTORC1 Signaling in Renal Carcinoma Cells.
Das F, Dey N, Bera A, Kasinath BS, Ghosh-Choudhury N, Choudhury GG., J Biol Chem 291(28), 2016
PMID: 27226530
Phenethyl isothiocyanate (PEITC) suppresses prostate cancer cell invasion epigenetically through regulating microRNA-194.
Zhang C, Shu L, Kim H, Khor TO, Wu R, Li W, Kong AN., Mol Nutr Food Res 60(6), 2016
PMID: 26820911
Germ cell and tumor associated piRNAs in the medaka and Xiphophorus melanoma models.
Kneitz S, Mishra RR, Chalopin D, Postlethwait J, Warren WC, Walter RB, Schartl M., BMC Genomics 17(), 2016
PMID: 27183847
Identification and characterization of microRNAs in the white-backed planthopper, Sogatella furcifera.
Chang ZX, Tang N, Wang L, Zhang LQ, Akinyemi IA, Wu QF., Insect Sci 23(3), 2016
PMID: 27060479
Hepatitis B virus inhibits intrinsic RIG-I and RIG-G immune signaling via inducing miR146a.
Hou Z, Zhang J, Han Q, Su C, Qu J, Xu D, Zhang C, Tian Z., Sci Rep 6(), 2016
PMID: 27210312
Genetic variant of miR-146a rs2910164 C>G and gastric cancer susceptibility.
Xia ZG, Yin HF, Long Y, Cheng L, Yu LJ, Guo WJ, Zhu XD, Li J, Wang YN, Yang YJ, Wang JC, Jin L, Qiu LX, Wei Y., Oncotarget 7(23), 2016
PMID: 27105532
A functional single nucleotide polymorphism of SET8 is prognostic for breast cancer.
Liu B, Zhang X, Song F, Liu Q, Dai H, Zheng H, Cui P, Zhang L, Zhang W, Chen K., Oncotarget 7(23), 2016
PMID: 27144429
STarMirDB: A database of microRNA binding sites.
Rennie W, Kanoria S, Liu C, Mallick B, Long D, Wolenc A, Carmack CS, Lu J, Ding Y., RNA Biol 13(6), 2016
PMID: 27144897
Aberrantly expressed microRNAs in the context of bladder tumorigenesis.
Lee JY, Ryu DS, Kim WJ, Kim SJ., Investig Clin Urol 57 Suppl 1(), 2016
PMID: 27326408
miR-196b Is Epigenetically Silenced during the Premalignant Stage of Lung Carcinogenesis.
Tellez CS, Juri DE, Do K, Picchi MA, Wang T, Liu G, Spira A, Belinsky SA., Cancer Res 76(16), 2016
PMID: 27302168
Characterisation of CDKL5 Transcript Isoforms in Human and Mouse.
Hector RD, Dando O, Landsberger N, Kilstrup-Nielsen C, Kind PC, Bailey ME, Cobb SR., PLoS One 11(6), 2016
PMID: 27315173
Comprehensive analysis of high-throughput screens with HiTSeekR.
List M, Schmidt S, Christiansen H, Rehmsmeier M, Tan Q, Mollenhauer J, Baumbach J., Nucleic Acids Res 44(14), 2016
PMID: 27330136
Targeting the Ca(2+) Sensor STIM1 by Exosomal Transfer of Ebv-miR-BART13-3p is Associated with Sjögren's Syndrome.
Gallo A, Jang SI, Ong HL, Perez P, Tandon M, Ambudkar I, Illei G, Alevizos I., EBioMedicine 10(), 2016
PMID: 27381477
Analysis of clock gene-miRNA correlation networks reveals candidate drivers in colorectal cancer.
Mazzoccoli G, Colangelo T, Panza A, Rubino R, Tiberio C, Palumbo O, Carella M, Trombetta D, Gentile A, Tavano F, Valvano MR, Storlazzi CT, Macchia G, De Cata A, Bisceglia G, Capocefalo D, Colantuoni V, Sabatino L, Piepoli A, Mazza T., Oncotarget 7(29), 2016
PMID: 27323779
Identifying survival-associated ceRNA clusters in cholangiocarcinoma.
Wan M, Zhang FM, Li ZL, Kang PC, Jiang PM, Wang YM, Wang ZD, Zhong XY, Li CL, Wang H, Zhao SY, Cui YF., Oncol Rep 36(3), 2016
PMID: 27432084
MicroRNA-mediated target mRNA cleavage and 3'-uridylation in human cells.
Xu K, Lin J, Zandi R, Roth JA, Ji L., Sci Rep 6(), 2016
PMID: 27440378
miR-9 Acts as an OncomiR in Prostate Cancer through Multiple Pathways That Drive Tumour Progression and Metastasis.
Seashols-Williams SJ, Budd W, Clark GC, Wu Q, Daniel R, Dragoescu E, Zehner ZE., PLoS One 11(7), 2016
PMID: 27447934
miR-27a and miR-27b regulate autophagic clearance of damaged mitochondria by targeting PTEN-induced putative kinase 1 (PINK1).
Kim J, Fiesel FC, Belmonte KC, Hudec R, Wang WX, Kim C, Nelson PT, Springer W, Kim J., Mol Neurodegener 11(1), 2016
PMID: 27456084
MicroTrout: A comprehensive, genome-wide miRNA target prediction framework for rainbow trout, Oncorhynchus mykiss.
Mennigen JA, Zhang D., Comp Biochem Physiol Part D Genomics Proteomics 20(), 2016
PMID: 27494513
MicroRNA-mRNA regulatory networking fine-tunes the porcine muscle fiber type, muscular mitochondrial respiratory and metabolic enzyme activities.
Liu X, Trakooljul N, Hadlich F, Muráni E, Wimmers K, Ponsuksili S., BMC Genomics 17(), 2016
PMID: 27485725
Transcriptome analysis of tube foot and large scale marker discovery in sea cucumber, Apostichopus japonicus.
Zhou X, Wang H, Cui J, Qiu X, Chang Y, Wang X., Comp Biochem Physiol Part D Genomics Proteomics 20(), 2016
PMID: 27525815
Role of plant MicroRNA in cross-species regulatory networks of humans.
Zhang H, Li Y, Liu Y, Liu H, Wang H, Jin W, Zhang Y, Zhang C, Xu D., BMC Syst Biol 10(1), 2016
PMID: 27502923
MicroRNA-21 Lowers Blood Pressure in Spontaneous Hypertensive Rats by Upregulating Mitochondrial Translation.
Li H, Zhang X, Wang F, Zhou L, Yin Z, Fan J, Nie X, Wang P, Fu XD, Chen C, Wang DW., Circulation 134(10), 2016
PMID: 27542393
MicroRNA-433 Dampens Glucocorticoid Receptor Signaling, Impacting Circadian Rhythm and Osteoblastic Gene Expression.
Smith SS, Dole NS, Franceschetti T, Hrdlicka HC, Delany AM., J Biol Chem 291(41), 2016
PMID: 27551048
Prosteatotic and Protective Components in a Unique Model of Fatty Liver: Gut Microbiota and Suppressed Complement System.
Liu L, Zhao X, Wang Q, Sun X, Xia L, Wang Q, Yang B, Zhang Y, Montgomery S, Meng H, Geng T, Gong D., Sci Rep 6(), 2016
PMID: 27550859
Upregulation of CD4+T-Cell Derived MiR-223 in The Relapsing Phase of Multiple Sclerosis Patients.
Hosseini A, Ghaedi K, Tanhaei S, Ganjalikhani-Hakemi M, Teimuri S, Etemadifar M, Nasr Esfahani MH., Cell J 18(3), 2016
PMID: 27602319
Epstein-Barr viral miRNAs inhibit antiviral CD4+ T cell responses targeting IL-12 and peptide processing.
Tagawa T, Albanese M, Bouvet M, Moosmann A, Mautner J, Heissmeyer V, Zielinski C, Lutter D, Hoser J, Hastreiter M, Hayes M, Sugden B, Hammerschmidt W., J Exp Med 213(10), 2016
PMID: 27621419
SpermBase: A Database for Sperm-Borne RNA Contents.
Schuster A, Tang C, Xie Y, Ortogero N, Yuan S, Yan W., Biol Reprod 95(5), 2016
PMID: 27628216
Analysis of Small RNAs in Streptococcus mutans under Acid Stress-A New Insight for Caries Research.
Liu S, Tao Y, Yu L, Zhuang P, Zhi Q, Zhou Y, Lin H., Int J Mol Sci 17(9), 2016
PMID: 27649155
MicroRNA-137 Inhibits EFNB2 Expression Affected by a Genetic Variant and Is Expressed Aberrantly in Peripheral Blood of Schizophrenia Patients.
Wu S, Zhang R, Nie F, Wang X, Jiang C, Liu M, Valenzuela RK, Liu W, Shi Y, Ma J., EBioMedicine 12(), 2016
PMID: 27650867
Functional SNP in 3'-UTR MicroRNA-Binding Site of ZNF350 Confers Risk for Age-Related Cataract.
Gu S, Rong H, Zhang G, Kang L, Yang M, Guan H., Hum Mutat 37(11), 2016
PMID: 27586871
sta-1 is repressed by mir-58 family in Caenorhabditis elegans.
Lozano E, de Lucas MP, Sáez AG., Worm 5(4), 2016
PMID: 28090395
HSV1 MicroRNA Modulation of GPI Anchoring and Downstream Immune Evasion.
Enk J, Levi A, Weisblum Y, Yamin R, Charpak-Amikam Y, Wolf DG, Mandelboim O., Cell Rep 17(4), 2016
PMID: 27760325
Pairing beyond the Seed Supports MicroRNA Targeting Specificity.
Broughton JP, Lovci MT, Huang JL, Yeo GW, Pasquinelli AE., Mol Cell 64(2), 2016
PMID: 27720646
Increased precursor microRNA-21 following status epilepticus can compete with mature microRNA-21 to alter translation.
Chak K, Roy-Chaudhuri B, Kim HK, Kemp KC, Porter BE, Kay MA., Exp Neurol 286(), 2016
PMID: 27725160
Identification and Expression Profiling of miRNAome in Goat longissimus dorsi Muscle from Prenatal Stages to a Neonatal Stage.
Guo J, Zhao W, Zhan S, Li L, Zhong T, Wang L, Dong Y, Zhang H., PLoS One 11(10), 2016
PMID: 27798673
miR-146a Polymorphism (rs2910164) Predicts Colorectal Cancer Patients' Susceptibility to Liver Metastasis.
Iguchi T, Nambara S, Masuda T, Komatsu H, Ueda M, Kidogami S, Ogawa Y, Hu Q, Sato K, Saito T, Hirata H, Sakimura S, Uchi R, Hayashi N, Ito S, Eguchi H, Sugimachi K, Maehara Y, Mimori K., PLoS One 11(11), 2016
PMID: 27824903
Deregulation of the miR-16-KRAS axis promotes colorectal cancer.
You C, Liang H, Sun W, Li J, Liu Y, Fan Q, Zhang H, Yue X, Li J, Chen X, Ba Y., Sci Rep 6(), 2016
PMID: 27857191
Aire Downregulation Is Associated with Changes in the Posttranscriptional Control of Peripheral Tissue Antigens in Medullary Thymic Epithelial Cells.
Oliveira EH, Macedo C, Collares CV, Freitas AC, Donate PB, Sakamoto-Hojo ET, Donadi EA, Passos GA., Front Immunol 7(), 2016
PMID: 27933063
Virus-Mediated Alterations in miRNA Factors and Degradation of Viral miRNAs by MCPIP1.
Happel C, Ramalingam D, Ziegelbauer JM., PLoS Biol 14(11), 2016
PMID: 27893764
New Cross-Talk Layer between Ultraconserved Non-Coding RNAs, MicroRNAs and Polycomb Protein YY1 in Bladder Cancer.
Terreri S, Durso M, Colonna V, Romanelli A, Terracciano D, Ferro M, Perdonà S, Castaldo L, Febbraio F, de Nigris F, Cimmino A., Genes (Basel) 7(12), 2016
PMID: 27983635
miR-339-5p regulates the p53 tumor-suppressor pathway by targeting MDM2.
Jansson MD, Damas ND, Lees M, Jacobsen A, Lund AH., Oncogene 34(15), 2015
PMID: 24882579
The ROS-sensitive microRNA-9/9* controls the expression of mitochondrial tRNA-modifying enzymes and is involved in the molecular mechanism of MELAS syndrome.
Meseguer S, Martínez-Zamora A, García-Arumí E, Andreu AL, Armengod ME., Hum Mol Genet 24(1), 2015
PMID: 25149473
miR-340 inhibits tumor cell proliferation and induces apoptosis by targeting multiple negative regulators of p27 in non-small cell lung cancer.
Fernandez S, Risolino M, Mandia N, Talotta F, Soini Y, Incoronato M, Condorelli G, Banfi S, Verde P., Oncogene 34(25), 2015
PMID: 25151966
Using temperature effects to predict the interactions between two RNAs.
Ganjtabesh M, Montaseri S, Zare-Mirakabad F., J Theor Biol 364(), 2015
PMID: 25218429
Prediction and characterization of microRNAs from eleven fish species by computational methods.
Huang Y, Zou Q, Ren HT, Sun XH., Saudi J Biol Sci 22(4), 2015
PMID: 26150741
Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks.
Chiu HS, Llobet-Navas D, Yang X, Chung WJ, Ambesi-Impiombato A, Iyer A, Kim HR, Seviour EG, Luo Z, Sehgal V, Moss T, Lu Y, Ram P, Silva J, Mills GB, Califano A, Sumazin P., Genome Res 25(2), 2015
PMID: 25378249
Interleukin 7 up-regulates CD95 protein on CD4+ T cells by affecting mRNA alternative splicing: priming for a synergistic effect on HIV-1 reservoir maintenance.
Yin Y, Zhang S, Luo H, Zhang X, Geng G, Li J, Guo X, Cai W, Li L, Liu C, Zhang H., J Biol Chem 290(1), 2015
PMID: 25411246
miR-638 regulates differentiation and proliferation in leukemic cells by targeting cyclin-dependent kinase 2.
Lin Y, Li D, Liang Q, Liu S, Zuo X, Li L, Sun X, Li W, Guo M, Huang Z., J Biol Chem 290(3), 2015
PMID: 25451924
Alteration of the miRNA expression profile in male porcine anterior pituitary cells in response to GHRH and CST and analysis of the potential roles for miRNAs in regulating GH.
Qi QE, Xi QY, Ye RS, Chen T, Cheng X, Li CY, Zhu XT, Shu G, Wang LN, Jiang QY, Zhang YL., Growth Horm IGF Res 25(2), 2015
PMID: 25613666
LncTar: a tool for predicting the RNA targets of long noncoding RNAs.
Li J, Ma W, Zeng P, Wang J, Geng B, Yang J, Cui Q., Brief Bioinform 16(5), 2015
PMID: 25524864
Inhibition of miR-34b and miR-34c enhances α-synuclein expression in Parkinson's disease.
Kabaria S, Choi DC, Chaudhuri AD, Mouradian MM, Junn E., FEBS Lett 589(3), 2015
PMID: 25541488
miR-222 overexpression may contribute to liver fibrosis in biliary atresia by targeting PPP2R2A.
Dong R, Zheng Y, Chen G, Zhao R, Zhou Z, Zheng S., J Pediatr Gastroenterol Nutr 60(1), 2015
PMID: 25238119
An assessment of bacterial small RNA target prediction programs.
Pain A, Ott A, Amine H, Rochat T, Bouloc P, Gautheret D., RNA Biol 12(5), 2015
PMID: 25760244
The VrrA sRNA controls a stationary phase survival factor Vrp of Vibrio cholerae.
Sabharwal D, Song T, Papenfort K, Wai SN., RNA Biol 12(2), 2015
PMID: 25826569
MicroRNA-20a is essential for normal embryogenesis by targeting vsx1 mRNA in fish.
Sun L, Li H, Xu X, Xiao G, Luo C., RNA Biol 12(6), 2015
PMID: 25833418
MicroRNAs Expressed during Viral Infection: Biomarker Potential and Therapeutic Considerations.
Louten J, Beach M, Palermino K, Weeks M, Holenstein G., Biomark Insights 10(suppl 4), 2015
PMID: 26819546
Knockdown of long non-coding RNA XIST exerts tumor-suppressive functions in human glioblastoma stem cells by up-regulating miR-152.
Yao Y, Ma J, Xue Y, Wang P, Li Z, Liu J, Chen L, Xi Z, Teng H, Wang Z, Li Z, Liu Y., Cancer Lett 359(1), 2015
PMID: 25578780
CLIP: viewing the RNA world from an RNA-protein interactome perspective.
Zhang Y, Xie S, Xu H, Qu L., Sci China Life Sci 58(1), 2015
PMID: 25576455
Long non-coding RNA HOTTIP is frequently up-regulated in hepatocellular carcinoma and is targeted by tumour suppressive miR-125b.
Tsang FH, Au SL, Wei L, Fan DN, Lee JM, Wong CC, Ng IO, Wong CM., Liver Int 35(5), 2015
PMID: 25424744
Dysregulation of miR-34a links neuronal development to genetic risk factors for bipolar disorder.
Bavamian S, Mellios N, Lalonde J, Fass DM, Wang J, Sheridan SD, Madison JM, Zhou F, Rueckert EH, Barker D, Perlis RH, Sur M, Haggarty SJ., Mol Psychiatry 20(5), 2015
PMID: 25623948
Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation.
Papenfort K, Förstner KU, Cong JP, Sharma CM, Bassler BL., Proc Natl Acad Sci U S A 112(7), 2015
PMID: 25646441
Predicted trans-acting siRNAs in the human brain.
Liu X, Zhang G, Zhang C, Wang J., Int J Mol Sci 16(2), 2015
PMID: 25654231
MicroRNA miR-24-3p promotes porcine reproductive and respiratory syndrome virus replication through suppression of heme oxygenase-1 expression.
Xiao S, Wang X, Ni H, Li N, Zhang A, Liu H, Pu F, Xu L, Gao J, Zhao Q, Mu Y, Wang C, Sun Y, Du T, Xu X, Zhang G, Hiscox JA, Goodfellow IG, Zhou EM., J Virol 89(8), 2015
PMID: 25653454
Dissociation of SERPINE1 mRNA from the translational repressor proteins Ago2 and TIA-1 upon platelet activation.
Corduan A, Plé H, Laffont B, Wallon T, Plante I, Landry P, Provost P., Thromb Haemost 113(5), 2015
PMID: 25673011
Deep sequencing and proteomic analysis of the microRNA-induced silencing complex in human red blood cells.
Azzouzi I, Moest H, Wollscheid B, Schmugge M, Eekels JJM, Speer O., Exp Hematol 43(5), 2015
PMID: 25681748
Inhibition of nucleoporin member Nup214 expression by miR-133b perturbs mitotic timing and leads to cell death.
Bhattacharjya S, Roy KS, Ganguly A, Sarkar S, Panda CK, Bhattacharyya D, Bhattacharyya NP, Roychoudhury S., Mol Cancer 14(), 2015
PMID: 25743594
MicroRNAs targeting the immunomodulatory HLA-G gene: a new survey searching for microRNAs with potential to regulate HLA-G.
Porto IO, Mendes-Junior CT, Felício LP, Georg RC, Moreau P, Donadi EA, Chies JA, Castelli EC., Mol Immunol 65(2), 2015
PMID: 25700346
Altered microRNA expression in bovine skeletal muscle with age.
Sun J, Sonstegard TS, Li C, Huang Y, Li Z, Lan X, Zhang C, Lei C, Zhao X, Chen H., Anim Genet 46(3), 2015
PMID: 25703017
Suppression of CYP2C9 by microRNA hsa-miR-128-3p in human liver cells and association with hepatocellular carcinoma.
Yu D, Green B, Marrone A, Guo Y, Kadlubar S, Lin D, Fuscoe J, Pogribny I, Ning B., Sci Rep 5(), 2015
PMID: 25704921
Interferon-alpha competing endogenous RNA network antagonizes microRNA-1270.
Kimura T, Jiang S, Yoshida N, Sakamoto R, Nishizawa M., Cell Mol Life Sci 72(14), 2015
PMID: 25746225
MiR-2 family regulates insect metamorphosis by controlling the juvenile hormone signaling pathway.
Lozano J, Montañez R, Belles X., Proc Natl Acad Sci U S A 112(12), 2015
PMID: 25775510
SOX11 identified by target gene evaluation of miRNAs differentially expressed in focal and non-focal brain tissue of therapy-resistant epilepsy patients.
Haenisch S, Zhao Y, Chhibber A, Kaiboriboon K, Do LV, Vogelgesang S, Barbaro NM, Alldredge BK, Lowenstein DH, Cascorbi I, Kroetz DL., Neurobiol Dis 77(), 2015
PMID: 25766675
The BDNF Val66Met variant affects gene expression through miR-146b.
Hsu PK, Xu B, Mukai J, Karayiorgou M, Gogos JA., Neurobiol Dis 77(), 2015
PMID: 25771167
An Lnc RNA (GAS5)/SnoRNA-derived piRNA induces activation of TRAIL gene by site-specifically recruiting MLL/COMPASS-like complexes.
He X, Chen X, Zhang X, Duan X, Pan T, Hu Q, Zhang Y, Zhong F, Liu J, Zhang H, Luo J, Wu K, Peng G, Luo H, Zhang L, Li X, Zhang H., Nucleic Acids Res 43(7), 2015
PMID: 25779046
Identification of metE as a second target of the sRNA scr5239 in Streptomyces coelicolor.
Vockenhuber MP, Heueis N, Suess B., PLoS One 10(3), 2015
PMID: 25785836
hiCLIP reveals the in vivo atlas of mRNA secondary structures recognized by Staufen 1.
Sugimoto Y, Vigilante A, Darbo E, Zirra A, Militti C, D'Ambrogio A, Luscombe NM, Ule J., Nature 519(7544), 2015
PMID: 25799984
Identification of a Novel Small Non-Coding RNA Modulating the Intracellular Survival of Brucella melitensis.
Wang Y, Ke Y, Xu J, Wang L, Wang T, Liang H, Zhang W, Gong C, Yuan J, Zhuang Y, An C, Lei S, Du X, Wang Z, Li W, Yuan X, Huang L, Yang X, Chen Z., Front Microbiol 6(), 2015
PMID: 25852653
Identification of subtype specific miRNA-mRNA functional regulatory modules in matched miRNA-mRNA expression data: multiple myeloma as a case.
Zhang Y, Liu W, Xu Y, Li C, Wang Y, Yang H, Zhang C, Su F, Li Y, Li X., Biomed Res Int 2015(), 2015
PMID: 25874214
Identification of lncRNA-associated competing triplets reveals global patterns and prognostic markers for cancer.
Wang P, Ning S, Zhang Y, Li R, Ye J, Zhao Z, Zhi H, Wang T, Guo Z, Li X., Nucleic Acids Res 43(7), 2015
PMID: 25800746
LPS-miR-34a-CCL22 axis contributes to regulatory T cell recruitment in periapical lesions.
He M, Song G, Yu Y, Jin Q, Bian Z., Biochem Biophys Res Commun 460(3), 2015
PMID: 25817785
Expression quantitative trait loci (eQTLs) in microRNA genes are enriched for schizophrenia and bipolar disorder association signals.
Williamson VS, Mamdani M, McMichael GO, Kim AH, Lee D, Bacanu S, Vladimirov VI., Psychol Med 45(12), 2015
PMID: 25817407
Selective microRNA-Offset RNA expression in human embryonic stem cells.
Asikainen S, Heikkinen L, Juhila J, Holm F, Weltner J, Trokovic R, Mikkola M, Toivonen S, Balboa D, Lampela R, Icay K, Tuuri T, Otonkoski T, Wong G, Hovatta O., PLoS One 10(3), 2015
PMID: 25822230
MicroRNA Screening and the Quest for Biologically Relevant Targets.
Eulalio A, Mano M., J Biomol Screen 20(8), 2015
PMID: 25824005
A single nucleotide polymorphism in osteonectin 3' untranslated region regulates bone volume and is targeted by miR-433.
Dole NS, Kapinas K, Kessler CB, Yee SP, Adams DJ, Pereira RC, Delany AM., J Bone Miner Res 30(4), 2015
PMID: 25262637
Changes in cellular microRNA expression induced by porcine circovirus type 2-encoded proteins.
Hong JS, Kim NH, Choi CY, Lee JS, Na D, Chun T, Lee YS., Vet Res 46(), 2015
PMID: 25885539
A 3' external transcribed spacer in a tRNA transcript acts as a sponge for small RNAs to prevent transcriptional noise.
Lalaouna D, Carrier MC, Semsey S, Brouard JS, Wang J, Wade JT, Massé E., Mol Cell 58(3), 2015
PMID: 25891076
MicroRNA transcriptome analysis identifies miR-365 as a novel negative regulator of cell proliferation in Zmpste24-deficient mouse embryonic fibroblasts.
Xiong XD, Jung HJ, Gombar S, Park JY, Zhang CL, Zheng H, Ruan J, Li JB, Kaeberlein M, Kennedy BK, Zhou Z, Liu X, Suh Y., Mutat Res 777(), 2015
PMID: 25983189
Epigenetic silencing of microRNA-149 in cancer-associated fibroblasts mediates prostaglandin E2/interleukin-6 signaling in the tumor microenvironment.
Li P, Shan JX, Chen XH, Zhang D, Su LP, Huang XY, Yu BQ, Zhi QM, Li CL, Wang YQ, Tomei S, Cai Q, Ji J, Li JF, Chouchane L, Yu YY, Sun FZ, Xu ZH, Liu BY, Zhu ZG., Cell Res 25(5), 2015
PMID: 25916550
Functional dissection of virus-human crosstalk mediated by miRNAs based on the VmiReg database.
Shao T, Zhao Z, Wu A, Bai J, Li Y, Chen H, Jiang C, Wang Y, Li S, Wang L, Zhang F, Xu J, Li X., Mol Biosyst 11(5), 2015
PMID: 25787233
In-silico search of virus-specific host microRNAs regulating avian influenza virus NS1 expression.
Asaf VN, Kumar A, Raut AA, Bhatia S, Mishra A., Theory Biosci 134(1-2), 2015
PMID: 25963812
MicroRNAs Regulate Cellular ATP Levels by Targeting Mitochondrial Energy Metabolism Genes during C2C12 Myoblast Differentiation.
Siengdee P, Trakooljul N, Murani E, Schwerin M, Wimmers K, Ponsuksili S., PLoS One 10(5), 2015
PMID: 26010876
Robust intestinal homeostasis relies on cellular plasticity in enteroblasts mediated by miR-8-Escargot switch.
Antonello ZA, Reiff T, Ballesta-Illan E, Dominguez M., EMBO J 34(15), 2015
PMID: 26077448
Human miR-3145 inhibits influenza A viruses replication by targeting and silencing viral PB1 gene.
Khongnomnan K, Makkoch J, Poomipak W, Poovorawan Y, Payungporn S., Exp Biol Med (Maywood) 240(12), 2015
PMID: 26080461
MiRBooking simulates the stoichiometric mode of action of microRNAs.
Weill N, Lisi V, Scott N, Dallaire P, Pelloux J, Major F., Nucleic Acids Res 43(14), 2015
PMID: 26089388
Ensemble Methods for MiRNA Target Prediction from Expression Data.
Le TD, Zhang J, Liu L, Li J., PLoS One 10(6), 2015
PMID: 26114448
Respiratory Syncytial Virus Utilizes a tRNA Fragment to Suppress Antiviral Responses Through a Novel Targeting Mechanism.
Deng J, Ptashkin RN, Chen Y, Cheng Z, Liu G, Phan T, Deng X, Zhou J, Lee I, Lee YS, Bao X., Mol Ther 23(10), 2015
PMID: 26156244
Deep Sequencing Analysis of miRNA Expression in Breast Muscle of Fast-Growing and Slow-Growing Broilers.
Ouyang H, He X, Li G, Xu H, Jia X, Nie Q, Zhang X., Int J Mol Sci 16(7), 2015
PMID: 26193261
Dissecting the target specificity of RNase H recruiting oligonucleotides using massively parallel reporter analysis of short RNA motifs.
Rukov JL, Hagedorn PH, Høy IB, Feng Y, Lindow M, Vinther J., Nucleic Acids Res 43(17), 2015
PMID: 26220183
Naïve Bayes classifier predicts functional microRNA target interactions in colorectal cancer.
Amirkhah R, Farazmand A, Gupta SK, Ahmadi H, Wolkenhauer O, Schmitz U., Mol Biosyst 11(8), 2015
PMID: 26086375
Small RNA-based feedforward loop with AND-gate logic regulates extrachromosomal DNA transfer in Salmonella.
Papenfort K, Espinosa E, Casadesús J, Vogel J., Proc Natl Acad Sci U S A 112(34), 2015
PMID: 26307765
BCR-ABL Mutation-Guided Therapy for CML Blast Crisis: A Case Report.
Ostendorf BN, Nogai H, Baldus CD, Burmeister T, Arnold R., Biomark Insights 10(suppl 3), 2015
PMID: 26379418
Short interspersed DNA elements and miRNAs: a novel hidden gene regulation layer in zebrafish?
Scarpato M, Angelini C, Cocca E, Pallotta MM, Morescalchi MA, Capriglione T., Chromosome Res 23(3), 2015
PMID: 26363800
Translational Regulation of the Mitochondrial Genome Following Redistribution of Mitochondrial MicroRNA in the Diabetic Heart.
Jagannathan R, Thapa D, Nichols CE, Shepherd DL, Stricker JC, Croston TL, Baseler WA, Lewis SE, Martinez I, Hollander JM., Circ Cardiovasc Genet 8(6), 2015
PMID: 26377859
MicroRNA-7 activates Nrf2 pathway by targeting Keap1 expression.
Kabaria S, Choi DC, Chaudhuri AD, Jain MR, Li H, Junn E., Free Radic Biol Med 89(), 2015
PMID: 26453926
The Lin28/let-7 axis is critical for myelination in the peripheral nervous system.
Gökbuget D, Pereira JA, Bachofner S, Marchais A, Ciaudo C, Stoffel M, Schulte JH, Suter U., Nat Commun 6(), 2015
PMID: 26466203
MiRNA Analysis by Quantitative PCR in Preterm Human Breast Milk Reveals Daily Fluctuations of hsa-miR-16-5p.
Floris I, Billard H, Boquien CY, Joram-Gauvard E, Simon L, Legrand A, Boscher C, Rozé JC, Bolaños-Jiménez F, Kaeffer B., PLoS One 10(10), 2015
PMID: 26474056
MicroRNA expression profiles of bovine milk exosomes in response to Staphylococcus aureus infection.
Sun J, Aswath K, Schroeder SG, Lippolis JD, Reinhardt TA, Sonstegard TS., BMC Genomics 16(), 2015
PMID: 26475455
MiR137 is an androgen regulated repressor of an extended network of transcriptional coregulators.
Nilsson EM, Laursen KB, Whitchurch J, McWilliam A, Ødum N, Persson JL, Persson JL, Heery DM, Gudas LJ, Mongan NP., Oncotarget 6(34), 2015
PMID: 26461474
Myomaker, Regulated by MYOD, MYOG and miR-140-3p, Promotes Chicken Myoblast Fusion.
Luo W, Li E, Nie Q, Zhang X., Int J Mol Sci 16(11), 2015
PMID: 26540045
Differential microRNA Expression in Fast- and Slow-Twitch Skeletal Muscle of Piaractus mesopotamicus during Growth.
Duran BO, Fernandez GJ, Mareco EA, Moraes LN, Salomão RA, Gutierrez de Paula T, Santos VB, Carvalho RF, Dal-Pai-Silva M., PLoS One 10(11), 2015
PMID: 26529415
Identification of bacterial sRNA regulatory targets using ribosome profiling.
Wang J, Rennie W, Liu C, Carmack CS, Prévost K, Caron MP, Massé E, Ding Y, Wade JT., Nucleic Acids Res 43(21), 2015
PMID: 26546513
Genome-wide miR-155 and miR-802 target gene identification in the hippocampus of Ts65Dn Down syndrome mouse model by miRNA sponges.
Bofill-De Ros X, Santos M, Vila-Casadesús M, Villanueva E, Andreu N, Dierssen M, Fillat C., BMC Genomics 16(), 2015
PMID: 26546125
miRNA⁻mRNA Conflux Regulating Immunity and Oxidative Stress Pathways in the Midgut of Blood-Fed Anopheles stephensi.
Jain S, Shrinet J, Tridibes A, Bhatnagar RK, Sunil S., Noncoding RNA 1(3), 2015
PMID: 29861425
MicroRNA Expression in the Glaucomatous Retina.
Jayaram H, Cepurna WO, Johnson EC, Morrison JC., Invest Ophthalmol Vis Sci 56(13), 2015
PMID: 26720444
Schizophrenia-Associated MIR204 Regulates Noncoding RNAs and Affects Neurotransmitter and Ion Channel Gene Sets.
Cammaerts S, Strazisar M, Smets B, Weckhuysen S, Nordin A, De Jonghe P, Adolfsson R, De Rijk P, Del Favero J., PLoS One 10(12), 2015
PMID: 26714269
Identifying miRNAs, targets and functions.
Liu B, Li J, Cairns MJ., Brief Bioinform 15(1), 2014
PMID: 23175680
Functional combination strategy for prioritization of human miRNA target.
Li J, Zhang Y, Wang Y, Zhang C, Wang Q, Shi X, Li C, Zhang R, Li X., Gene 533(1), 2014
PMID: 24100082
Ovine herpesvirus-2-encoded microRNAs target virus genes involved in virus latency.
Riaz A, Dry I, Levy CS, Hopkins J, Grey F, Shaw DJ, Dalziel RG., J Gen Virol 95(pt 2), 2014
PMID: 24172907
SMARCB1 expression in epithelioid sarcoma is regulated by miR-206, miR-381, and miR-671-5p on Both mRNA and protein levels.
Papp G, Krausz T, Stricker TP, Szendrői M, Sápi Z., Genes Chromosomes Cancer 53(2), 2014
PMID: 24327545
Evolutionary conservation of primate lymphocryptovirus microRNA targets.
Skalsky RL, Kang D, Linnstaedt SD, Cullen BR., J Virol 88(3), 2014
PMID: 24257599
miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions.
Hsu SD, Tseng YT, Shrestha S, Lin YL, Khaleel A, Chou CH, Chu CF, Huang HY, Lin CM, Ho SY, Jian TY, Lin FM, Chang TH, Weng SL, Liao KW, Liao IE, Liu CC, Huang HD., Nucleic Acids Res 42(database issue), 2014
PMID: 24304892
Widespread microRNA dysregulation in multiple system atrophy - disease-related alteration in miR-96.
Ubhi K, Rockenstein E, Kragh C, Inglis C, Spencer B, Michael S, Mante M, Adame A, Galasko D, Masliah E., Eur J Neurosci 39(6), 2014
PMID: 24304186
miR-29a suppresses growth and invasion of gastric cancer cells in vitro by targeting VEGF-A.
Chen L, Xiao H, Wang ZH, Huang Y, Liu ZP, Ren H, Song H., BMB Rep 47(1), 2014
PMID: 24209632
HITS-CLIP and PAR-CLIP advance viral miRNA targetome analysis.
Haecker I, Renne R., Crit Rev Eukaryot Gene Expr 24(2), 2014
PMID: 24940765
Analysis of STAT4 expression in cutaneous T-cell lymphoma (CTCL) patients and patient-derived cell lines.
Litvinov IV, Cordeiro B, Fredholm S, Ødum N, Zargham H, Huang Y, Zhou Y, Pehr K, Kupper TS, Woetmann A, Sasseville D., Cell Cycle 13(18), 2014
PMID: 25486484
microRNAs miR-27a and miR-27b directly regulate liver dihydropyrimidine dehydrogenase expression through two conserved binding sites.
Offer SM, Butterfield GL, Jerde CR, Fossum CC, Wegner NJ, Diasio RB., Mol Cancer Ther 13(3), 2014
PMID: 24401318
Plant miRNAome and antiviral resistance: a retrospective view and prospective challenges.
Ramesh SV, Ratnaparkhe MB, Kumawat G, Gupta GK, Husain SM., Virus Genes 48(1), 2014
PMID: 24445902
Comprehensive microRNA profiling of prostate cancer cells after ionizing radiation treatment.
Leung CM, Li SC, Chen TW, Ho MR, Hu LY, Liu WS, Wu TT, Hsu PC, Chang HT, Tsai KW., Oncol Rep 31(3), 2014
PMID: 24452514
Identification and profiling of microRNAs in the embryonic breast muscle of pekin duck.
Gu L, Xu T, Huang W, Xie M, Sun S, Hou S., PLoS One 9(1), 2014
PMID: 24465928
Role of microRNA-27a in down-regulation of angiogenic factor AGGF1 under hypoxia associated with high-grade bladder urothelial carcinoma.
Xu Y, Zhou M, Wang J, Zhao Y, Li S, Zhou B, Su Z, Xu C, Xia Y, Qian H, Tu X, Xiao W, Chen X, Chen Q, Wang QK., Biochim Biophys Acta 1842(5), 2014
PMID: 24462738
Extracting rate changes in transcriptional regulation from MEDLINE abstracts.
Liu W, Miao K, Li G, Chang K, Zheng J, Rajapakse JC., BMC Bioinformatics 15 Suppl 2(), 2014
PMID: 24564647
The panorama of miRNA-mediated mechanisms in mammalian cells.
Stroynowska-Czerwinska A, Fiszer A, Krzyzosiak WJ., Cell Mol Life Sci 71(12), 2014
PMID: 24468964
The integrative analysis of microRNA and mRNA expression in Apis mellifera following maze-based visual pattern learning.
Qin QH, Wang ZL, Tian LQ, Gan HY, Zhang SW, Zeng ZJ., Insect Sci 21(5), 2014
PMID: 24136738
MicroRNA target identification: lessons from hypoxamiRs.
Bertero T, Robbe-Sermesant K, Le Brigand K, Ponzio G, Pottier N, Rezzonico R, Mazure NM, Barbry P, Mari B., Antioxid Redox Signal 21(8), 2014
PMID: 24111877
Targetome profiling and functional genetics implicate miR-618 in lymphomagenesis.
Fu A, Hoffman AE, Liu R, Jacobs DI, Zheng T, Zhu Y., Epigenetics 9(5), 2014
PMID: 24503492
Refining microRNA target predictions: sorting the wheat from the chaff.
Ritchie W, Rasko JE., Biochem Biophys Res Commun 445(4), 2014
PMID: 24525131
Common features of microRNA target prediction tools.
Peterson SM, Thompson JA, Ufkin ML, Sathyanarayana P, Liaw L, Congdon CB., Front Genet 5(), 2014
PMID: 24600468
A non-canonical plant microRNA target site.
Brousse C, Liu Q, Beauclair L, Deremetz A, Axtell MJ, Bouché N., Nucleic Acids Res 42(8), 2014
PMID: 24561804
miR-100 induces epithelial-mesenchymal transition but suppresses tumorigenesis, migration and invasion.
Chen D, Sun Y, Yuan Y, Han Z, Zhang P, Zhang J, You MJ, Teruya-Feldstein J, Wang M, Gupta S, Hung MC, Liang H, Ma L., PLoS Genet 10(2), 2014
PMID: 24586203
Exploring energy landscapes: from molecular to mesoscopic systems.
Chakrabarti D, Kusumaatmaja H, Rühle V, Wales DJ., Phys Chem Chem Phys 16(11), 2014
PMID: 24067895
Systematic design and functional analysis of artificial microRNAs.
Arroyo JD, Gallichotte EN, Tewari M., Nucleic Acids Res 42(9), 2014
PMID: 24598260
Forkhead box C2 promoter variant c.-512C>T is associated with increased susceptibility to chronic venous diseases.
Surendran S, Girijamma A, Nair R, Ramegowda KS, Nair DH, Thulaseedharan JV, Lakkappa RB, Kamalapurkar G, Kartha CC., PLoS One 9(3), 2014
PMID: 24608096
mrSNP: software to detect SNP effects on microRNA binding.
Deveci M, Catalyürek UV, Toland AE., BMC Bioinformatics 15(), 2014
PMID: 24629096
Human coronary heart disease: importance of blood cellular miR-2909 RNomics.
Arora M, Kaul D, Sharma YP., Mol Cell Biochem 392(1-2), 2014
PMID: 24634009
MicroRNA-23a/b and microRNA-27a/b suppress Apaf-1 protein and alleviate hypoxia-induced neuronal apoptosis.
Chen Q, Xu J, Li L, Li H, Mao S, Zhang F, Zen K, Zhang CY, Zhang Q., Cell Death Dis 5(), 2014
PMID: 24651435
The HIV Nef protein modulates cellular and exosomal miRNA profiles in human monocytic cells.
Aqil M, Naqvi AR, Mallik S, Bandyopadhyay S, Maulik U, Jameel S., J Extracell Vesicles 3(), 2014
PMID: 24678387
Elevated microRNA-155 promotes foam cell formation by targeting HBP1 in atherogenesis.
Tian FJ, An LN, Wang GK, Zhu JQ, Li Q, Zhang YY, Zeng A, Zou J, Zhu RF, Han XS, Shen N, Yang HT, Zhao XX, Huang S, Qin YW, Jing Q., Cardiovasc Res 103(1), 2014
PMID: 24675724
Novel SNPs and INDEL polymorphisms in the 3'UTR of DGAT1 gene: in silico analyses and a possible association.
Rosse Ida C, Steinberg Rda S, Coimbra RS, Peixoto MG, Verneque RS, Machado MA, Fonseca CG, Carvalho MR., Mol Biol Rep 41(7), 2014
PMID: 24676595
MicroRNA-135b promotes cancer progression by acting as a downstream effector of oncogenic pathways in colon cancer.
Valeri N, Braconi C, Gasparini P, Murgia C, Lampis A, Paulus-Hock V, Hart JR, Ueno L, Grivennikov SI, Lovat F, Paone A, Cascione L, Sumani KM, Veronese A, Fabbri M, Carasi S, Alder H, Lanza G, Gafa' R, Moyer MP, Ridgway RA, Cordero J, Nuovo GJ, Frankel WL, Rugge M, Fassan M, Groden J, Vogt PK, Karin M, Sansom OJ, Croce CM., Cancer Cell 25(4), 2014
PMID: 24735923
Bioinformatics of prokaryotic RNAs.
Backofen R, Amman F, Costa F, Findeiß S, Richter AS, Stadler PF., RNA Biol 11(5), 2014
PMID: 24755880
Role of HCMV miR-UL70-3p and miR-UL148D in overcoming the cellular apoptosis.
Babu SG, Pandeya A, Verma N, Shukla N, Kumar RV, Saxena S., Mol Cell Biochem 393(1-2), 2014
PMID: 24737391
MicroRNA miR-513a-3p acts as a co-regulator of luteinizing hormone/chorionic gonadotropin receptor gene expression in human granulosa cells.
Troppmann B, Kossack N, Nordhoff V, Schüring AN, Gromoll J., Mol Cell Endocrinol 390(1-2), 2014
PMID: 24747085
Mining the 3'UTR of autism-implicated genes for SNPs perturbing microRNA regulation.
Vaishnavi V, Manikandan M, Munirajan AK., Genomics Proteomics Bioinformatics 12(2), 2014
PMID: 24747189
Genome-wide microRNA expression profiles in hippocampus of rats with chronic temporal lobe epilepsy.
Li MM, Jiang T, Sun Z, Zhang Q, Tan CC, Yu JT, Tan L., Sci Rep 4(), 2014
PMID: 24751812
Computational identification of microRNAs and their targets in perennial Ryegrass (Lolium perenne).
Huang Y, Zou Q, Sun XH, Zhao LP., Appl Biochem Biotechnol 173(4), 2014
PMID: 24752936
The Streptococcus suis transcriptional landscape reveals adaptation mechanisms in pig blood and cerebrospinal fluid.
Wu Z, Wu C, Shao J, Zhu Z, Wang W, Zhang W, Tang M, Pei N, Fan H, Li J, Yao H, Gu H, Xu X, Lu C., RNA 20(6), 2014
PMID: 24759092
MicroRNA binding sites in C. elegans 3' UTRs.
Liu C, Rennie WA, Mallick B, Kanoria S, Long D, Wolenc A, Carmack CS, Ding Y., RNA Biol 11(6), 2014
PMID: 24827614
MicroRNA-326 regulates profibrotic functions of transforming growth factor-β in pulmonary fibrosis.
Das S, Kumar M, Negi V, Pattnaik B, Prakash YS, Agrawal A, Ghosh B., Am J Respir Cell Mol Biol 50(5), 2014
PMID: 24279830
STarMir: a web server for prediction of microRNA binding sites.
Rennie W, Liu C, Carmack CS, Wolenc A, Kanoria S, Lu J, Long D, Ding Y., Nucleic Acids Res 42(web server issue), 2014
PMID: 24803672
Identification of miRNA-mediated core gene module for glioma patient prediction by integrating high-throughput miRNA, mRNA expression and pathway structure.
Zhang C, Li C, Li J, Han J, Shang D, Zhang Y, Zhang W, Yao Q, Han L, Xu Y, Yan W, Bao Z, You G, Jiang T, Kang C, Li X., PLoS One 9(5), 2014
PMID: 24809850
Identification and profiling of microRNAs and their target genes from developing caprine skeletal Muscle.
Wang Y, Zhang C, Fang X, Zhao Y, Chen X, Sun J, Zhou Y, Wang J, Wang Y, Lan X, Chen H., PLoS One 9(5), 2014
PMID: 24818606
Identification of nuclear-enriched miRNAs during mouse granulopoiesis.
Wong JJ, Ritchie W, Gao D, Lau KA, Gonzalez M, Choudhary A, Taft RJ, Rasko JE, Holst J., J Hematol Oncol 7(), 2014
PMID: 24886830
Unambiguous identification of miRNA:target site interactions by different types of ligation reactions.
Grosswendt S, Filipchyk A, Manzano M, Klironomos F, Schilling M, Herzog M, Gottwein E, Rajewsky N., Mol Cell 54(6), 2014
PMID: 24857550
MiR-15a/b promote adipogenesis in porcine pre-adipocyte via repressing FoxO1.
Dong P, Mai Y, Zhang Z, Mi L, Wu G, Chu G, Yang G, Sun S., Acta Biochim Biophys Sin (Shanghai) 46(7), 2014
PMID: 24862853
Identifying microRNA targets in different gene regions.
Xu W, San Lucas A, Wang Z, Liu Y., BMC Bioinformatics 15 Suppl 7(), 2014
PMID: 25077573
Cooperative gene regulation by microRNA pairs and their identification using a computational workflow.
Schmitz U, Lai X, Winter F, Wolkenhauer O, Vera J, Gupta SK., Nucleic Acids Res 42(12), 2014
PMID: 24875477
Towards a molecular characterization of autism spectrum disorders: an exome sequencing and systems approach.
An JY, Cristino AS, Zhao Q, Edson J, Williams SM, Ravine D, Wray J, Marshall VM, Hunt A, Whitehouse AJ, Claudianos C., Transl Psychiatry 4(), 2014
PMID: 24893065
Virus versus host plant microRNAs: who determines the outcome of the interaction?
Maghuly F, Ramkat RC, Laimer M., PLoS One 9(6), 2014
PMID: 24896088
Regulation of Hfq mRNA and protein levels in Escherichia coli and Pseudomonas aeruginosa by the Burkholderia cenocepacia MtvR sRNA.
Ramos CG, Grilo AM, Sousa SA, Feliciano JR, da Costa PJ, Leitão JH., PLoS One 9(6), 2014
PMID: 24901988
HITS-CLIP reveals key regulators of nuclear receptor signaling in breast cancer.
Pillai MM, Gillen AE, Yamamoto TM, Kline E, Brown J, Flory K, Hesselberth JR, Kabos P., Breast Cancer Res Treat 146(1), 2014
PMID: 24906430
MicroRNA target prediction: theory and practice.
Wagner M, Vicinus B, Frick VO, Auchtor M, Rubie C, Jeanmonod P, Richards TA, Linder R, Weichert F., Mol Genet Genomics 289(6), 2014
PMID: 24938624
RNA-RNA interaction prediction using genetic algorithm.
Montaseri S, Zare-Mirakabad F, Moghadam-Charkari N., Algorithms Mol Biol 9(), 2014
PMID: 25114714
Identification of microRNAs specific for high producer CHO cell lines using steady-state cultivation.
Maccani A, Hackl M, Leitner C, Steinfellner W, Graf AB, Tatto NE, Karbiener M, Scheideler M, Grillari J, Mattanovich D, Kunert R, Borth N, Grabherr R, Ernst W., Appl Microbiol Biotechnol 98(17), 2014
PMID: 25052466
Vibrio cholerae utilizes direct sRNA regulation in expression of a biofilm matrix protein.
Song T, Sabharwal D, Gurung JM, Cheng AT, Sjöström AE, Yildiz FH, Uhlin BE, Wai SN., PLoS One 9(7), 2014
PMID: 25054332
MicroRNA-204, a direct negative regulator of ezrin gene expression, inhibits glioma cell migration and invasion.
Mao J, Zhang M, Zhong M, Zhang Y, Lv K., Mol Cell Biochem 396(1-2), 2014
PMID: 25055875
An intronic microRNA links Rb/E2F and EGFR signaling.
Truscott M, Islam AB, Lightfoot J, López-Bigas N, Frolov MV., PLoS Genet 10(7), 2014
PMID: 25058496
Expression profiling of RNA transcripts during neuronal maturation and ischemic injury.
Kaur P, Karolina DS, Sepramaniam S, Armugam A, Jeyaseelan K., PLoS One 9(7), 2014
PMID: 25061880
Regulation of human growth hormone receptor expression by microRNAs.
Elzein S, Goodyer CG., Mol Endocrinol 28(9), 2014
PMID: 25073105
Effects of genetic variations on microRNA: target interactions.
Liu C, Rennie WA, Carmack CS, Kanoria S, Cheng J, Lu J, Ding Y., Nucleic Acids Res 42(15), 2014
PMID: 25081214
Ensemble learning can significantly improve human microRNA target prediction.
Yu S, Kim J, Min H, Yoon S., Methods 69(3), 2014
PMID: 25088780
Regulation of microRNA-mediated gene silencing by microRNA precursors.
Roy-Chaudhuri B, Valdmanis PN, Zhang Y, Wang Q, Luo QJ, Kay MA., Nat Struct Mol Biol 21(9), 2014
PMID: 25086740
Hsa-miR-195 targets PCMT1 in hepatocellular carcinoma that increases tumor life span.
Amer M, Elhefnawi M, El-Ahwany E, Awad AF, Gawad NA, Zada S, Tawab FM., Tumour Biol 35(11), 2014
PMID: 25119594
CPuORF correlates with miRNA responsive elements on protein evolutionary rates.
Hu W, Wang T, Yang Y, Zheng S., Biochem Biophys Res Commun 452(1), 2014
PMID: 25148940
Target repression induced by endogenous microRNAs: large differences, small effects.
Kozomara A, Hunt S, Ninova M, Griffiths-Jones S, Ronshaugen M., PLoS One 9(8), 2014
PMID: 25141277
MicroRNA-7 protects against 1-methyl-4-phenylpyridinium-induced cell death by targeting RelA.
Choi DC, Chae YJ, Kabaria S, Chaudhuri AD, Jain MR, Li H, Mouradian MM, Junn E., J Neurosci 34(38), 2014
PMID: 25232110
MiR-7 promotes epithelial cell transformation by targeting the tumor suppressor KLF4.
Meza-Sosa KF, Pérez-García EI, Camacho-Concha N, López-Gutiérrez O, Pedraza-Alva G, Pérez-Martínez L., PLoS One 9(9), 2014
PMID: 25181544
Role of microRNA-93 in regulation of angiogenesis.
Li F, Liang X, Chen Y, Li S, Liu J., Tumour Biol 35(11), 2014
PMID: 25217985
The small RNA RyhB contributes to siderophore production and virulence of uropathogenic Escherichia coli.
Porcheron G, Habib R, Houle S, Caza M, Lépine F, Daigle F, Massé E, Dozois CM., Infect Immun 82(12), 2014
PMID: 25245805
Epstein-Barr virus encoded microRNAs target SUMO-regulated cellular functions.
Callegari S, Gastaldello S, Faridani OR, Masucci MG., FEBS J 281(21), 2014
PMID: 25205475
MicroRNAs as predictive biomarkers and therapeutic targets in prostate cancer.
Wen X, Deng FM, Wang J., Am J Clin Exp Urol 2(3), 2014
PMID: 25374924
Mmu-miR-615-3p regulates lipoapoptosis by inhibiting C/EBP homologous protein.
Miyamoto Y, Mauer AS, Kumar S, Mott JL, Malhi H., PLoS One 9(10), 2014
PMID: 25314137
MiR-101 induces senescence and prevents apoptosis in the background of DNA damage in MCF7 cells.
Manvati S, Mangalhara KC, Kalaiarasan P, Srivastava N, Kumar B, Bamezai RN., PLoS One 9(10), 2014
PMID: 25353636
A microRNA network dysregulated in asthma controls IL-6 production in bronchial epithelial cells.
Martinez-Nunez RT, Bondanese VP, Louafi F, Francisco-Garcia AS, Rupani H, Bedke N, Holgate S, Howarth PH, Davies DE, Sanchez-Elsner T., PLoS One 9(10), 2014
PMID: 25360780
MicroRNA-214 controls skin and hair follicle development by modulating the activity of the Wnt pathway.
Ahmed MI, Alam M, Emelianov VU, Poterlowicz K, Patel A, Sharov AA, Mardaryev AN, Botchkareva NV., J Cell Biol 207(4), 2014
PMID: 25422376
Hunting the needle in the haystack: a guide to obtain biologically meaningful microRNA targets.
Karbiener M, Glantschnig C, Scheideler M., Int J Mol Sci 15(11), 2014
PMID: 25383673
Regulation of coagulation factor XI expression by microRNAs in the human liver.
Salloum-Asfar S, Teruel-Montoya R, Arroyo AB, García-Barberá N, Chaudhry A, Schuetz E, Luengo-Gil G, Vicente V, González-Conejero R, Martínez C., PLoS One 9(11), 2014
PMID: 25379760
A common polymorphism in pre-miR-146a underlies Hirschsprung disease risk in Han Chinese.
Zhu H, Cai P, Zhu D, Xu C, Li H, Tang J, Xie H, Qin Y, Sharan A, Tang W, Xia Y., Exp Mol Pathol 97(3), 2014
PMID: 25445498
Loss of microRNA-106b-25 cluster promotes atrial fibrillation by enhancing ryanodine receptor type-2 expression and calcium release.
Chiang DY, Kongchan N, Beavers DL, Alsina KM, Voigt N, Neilson JR, Jakob H, Martin JF, Dobrev D, Wehrens XH, Li N., Circ Arrhythm Electrophysiol 7(6), 2014
PMID: 25389315
Neuroligin-associated microRNA-932 targets actin and regulates memory in the honeybee.
Cristino AS, Barchuk AR, Freitas FC, Narayanan RK, Biergans SD, Zhao Z, Simoes ZL, Reinhard J, Claudianos C., Nat Commun 5(), 2014
PMID: 25409902
MiR-520d-5p directly targets TWIST1 and downregulates the metastamiR miR-10b.
Tsukerman P, Yamin R, Seidel E, Khawaled S, Schmiedel D, Bar-Mag T, Mandelboim O., Oncotarget 5(23), 2014
PMID: 25426550
MiR-143 and MiR-145 regulate IGF1R to suppress cell proliferation in colorectal cancer.
Su J, Liang H, Yao W, Wang N, Zhang S, Yan X, Feng H, Pang W, Wang Y, Wang X, Fu Z, Liu Y, Zhao C, Zhang J, Zhang CY, Zen K, Chen X, Wang Y., PLoS One 9(12), 2014
PMID: 25474488
Improving miRNA-mRNA interaction predictions.
Tabas-Madrid D, Muniategui A, Sánchez-Caballero I, Martínez-Herrera DJ, Sorzano CO, Rubio A, Pascual-Montano A., BMC Genomics 15 Suppl 10(), 2014
PMID: 25559987
Protein tyrosine phosphatase PTPRJ is negatively regulated by microRNA-328.
Paduano F, Dattilo V, Narciso D, Bilotta A, Gaudio E, Menniti M, Agosti V, Palmieri C, Perrotti N, Fusco A, Trapasso F, Iuliano R., FEBS J 280(2), 2013
PMID: 22564856
A reversed framework for the identification of microRNA-target pairs in plants.
Shao C, Chen M, Meng Y., Brief Bioinform 14(3), 2013
PMID: 22811545
Association of the miR-146aC>G, miR-149T>C, miR-196a2T>C, and miR-499A>G polymorphisms with gastric cancer risk and survival in the Korean population.
Ahn DH, Rah H, Choi YK, Jeon YJ, Min KT, Kwack K, Hong SP, Hwang SG, Kim NK., Mol Carcinog 52 Suppl 1(), 2013
PMID: 23001871
Differential membrane type 1 matrix metalloproteinase substrate processing with ischemia-reperfusion: relationship to interstitial microRNA dynamics and myocardial function.
Eckhouse SR, Akerman AW, Logdon CB, Oelsen JM, O'Quinn EC, Nadeau EK, Stroud RE, Mukherjee R, Jones JA, Spinale FG., J Thorac Cardiovasc Surg 145(1), 2013
PMID: 23102905
miR-125b promotes cell death by targeting spindle assembly checkpoint gene MAD1 and modulating mitotic progression.
Bhattacharjya S, Nath S, Ghose J, Maiti GP, Biswas N, Bandyopadhyay S, Panda CK, Bhattacharyya NP, Roychoudhury S., Cell Death Differ 20(3), 2013
PMID: 23099851
Insect microRNAs: biogenesis, expression profiling and biological functions.
Lucas K, Raikhel AS., Insect Biochem Mol Biol 43(1), 2013
PMID: 23165178
HomoTarget: a new algorithm for prediction of microRNA targets in Homo sapiens.
Ahmadi H, Ahmadi A, Azimzadeh-Jamalkandi S, Shoorehdeli MA, Salehzadeh-Yazdi A, Bidkhori G, Masoudi-Nejad A., Genomics 101(2), 2013
PMID: 23174671
Identifying mammalian MicroRNA targets based on supervised distance metric learning.
Liu H, Zhou S, Guan J., IEEE J Biomed Health Inform 17(2), 2013
PMID: 23192603
DIANA-LncBase: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs.
Paraskevopoulou MD, Georgakilas G, Kostoulas N, Reczko M, Maragkakis M, Dalamagas TM, Hatzigeorgiou AG., Nucleic Acids Res 41(database issue), 2013
PMID: 23193281
Multiple microRNAs may regulate the DNA repair enzyme uracil-DNA glycosylase.
Hegre SA, Sætrom P, Aas PA, Pettersen HS, Otterlei M, Krokan HE., DNA Repair (Amst) 12(1), 2013
PMID: 23228472
Stabilization of human interferon-α1 mRNA by its antisense RNA.
Kimura T, Jiang S, Nishizawa M, Yoshigai E, Hashimoto I, Nishikawa M, Okumura T, Yamada H., Cell Mol Life Sci 70(8), 2013
PMID: 23224365
Islet-1 is a dual regulator of fibrogenic epithelial-to-mesenchymal transition in epicardial mesothelial cells.
Brønnum H, Andersen DC, Schneider M, Nossent AY, Nielsen SB, Sheikh SP., Exp Cell Res 319(4), 2013
PMID: 23270756
Refinement of chromosome 3p22.3 region and identification of a susceptibility gene for bipolar affective disorder.
Secolin R, Banzato CE, Mella LF, Santos ML, Dalgalarrondo P, Lopes-Cendes I., Am J Med Genet B Neuropsychiatr Genet 162B(2), 2013
PMID: 23280964
Strikingly bacteria-like and gene-rich mitochondrial genomes throughout jakobid protists.
Burger G, Gray MW, Forget L, Lang BF., Genome Biol Evol 5(2), 2013
PMID: 23335123
SNPs in microRNA binding sites as prognostic and predictive cancer biomarkers.
Preskill C, Weidhaas JB., Crit Rev Oncog 18(4), 2013
PMID: 23614619
microRNA-9 targets the long non-coding RNA MALAT1 for degradation in the nucleus.
Leucci E, Patella F, Waage J, Holmstrøm K, Lindow M, Porse B, Kauppinen S, Lund AH., Sci Rep 3(), 2013
PMID: 23985560
MiR-1 and miR-206 target different genes to have opposing roles during angiogenesis in zebrafish embryos.
Lin CY, Lee HC, Fu CY, Ding YY, Chen JS, Lee MH, Huang WJ, Tsai HJ., Nat Commun 4(), 2013
PMID: 24264597
mirTarPri: improved prioritization of microRNA targets through incorporation of functional genomics data.
Wang P, Ning S, Wang Q, Li R, Ye J, Zhao Z, Li Y, Huang T, Li X., PLoS One 8(1), 2013
PMID: 23326485
A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets.
Khorshid M, Hausser J, Zavolan M, van Nimwegen E., Nat Methods 10(3), 2013
PMID: 23334102
Minireview: miRomics in endocrinology: a novel approach for modeling endocrine diseases.
Szabó PM, Butz H, Igaz P, Rácz K, Hunyady L, Patócs A., Mol Endocrinol 27(4), 2013
PMID: 23349525
T cell post-transcriptional miRNA-mRNA interaction networks identify targets associated with susceptibility/resistance to collagen-induced arthritis.
Donate PB, Fornari TA, Macedo C, Cunha TM, Nascimento DC, Sakamoto-Hojo ET, Donadi EA, Cunha FQ, Passos GA., PLoS One 8(1), 2013
PMID: 23359619
miRNA-target prediction based on transcriptional regulation.
Fujiwara T, Yada T., BMC Genomics 14 Suppl 2(), 2013
PMID: 23445489
Differentially expressed miRNAs after GnRH treatment and their potential roles in FSH regulation in porcine anterior pituitary cell.
Ye RS, Xi QY, Qi Q, Cheng X, Chen T, Li H, Kallon S, Shu G, Wang SB, Jiang QY, Zhang YL., PLoS One 8(2), 2013
PMID: 23451171
An extraribosomal function of ribosomal protein L13a in macrophages resolves inflammation.
Poddar D, Basu A, Baldwin WM, Kondratov RV, Barik S, Mazumder B., J Immunol 190(7), 2013
PMID: 23460747
MicroRNA-200b downregulates oxidation resistance 1 (Oxr1) expression in the retina of type 1 diabetes model.
Murray AR, Chen Q, Takahashi Y, Zhou KK, Park K, Ma JX., Invest Ophthalmol Vis Sci 54(3), 2013
PMID: 23404117
Characterization and differential expression of microRNAs in the ovaries of pregnant and non-pregnant goats (Capra hircus).
Zhang XD, Zhang YH, Ling YH, Liu Y, Cao HG, Yin ZJ, Ding JP, Zhang XR., BMC Genomics 14(), 2013
PMID: 23497306
Where we stand, where we are moving: Surveying computational techniques for identifying miRNA genes and uncovering their regulatory role.
Kleftogiannis D, Korfiati A, Theofilatos K, Likothanassis S, Tsakalidis A, Mavroudi S., J Biomed Inform 46(3), 2013
PMID: 23501016
Bacterial infection activates the immune system response and dysregulates microRNA expression in honey bees.
Lourenço AP, Guidugli-Lazzarini KR, Freitas FC, Bitondi MM, Simões ZL., Insect Biochem Mol Biol 43(5), 2013
PMID: 23499934
miRNA-93 inhibits GLUT4 and is overexpressed in adipose tissue of polycystic ovary syndrome patients and women with insulin resistance.
Chen YH, Heneidi S, Lee JM, Layman LC, Stepp DW, Gamboa GM, Chen BS, Chazenbalk G, Azziz R., Diabetes 62(7), 2013
PMID: 23493574
Lipoxins attenuate renal fibrosis by inducing let-7c and suppressing TGFβR1.
Brennan EP, Nolan KA, Börgeson E, Gough OS, McEvoy CM, Docherty NG, Higgins DF, Murphy M, Sadlier DM, Ali-Shah ST, Guiry PJ, Savage DA, Maxwell AP, Martin F, Godson C, GENIE Consortium., J Am Soc Nephrol 24(4), 2013
PMID: 23520204
c-Myc-mediated overexpression of miR-17-92 suppresses replication of hepatitis B virus in human hepatoma cells.
Jung YJ, Kim JW, Park SJ, Min BY, Jang ES, Kim NY, Jeong SH, Shin CM, Lee SH, Park YS, Hwang JH, Kim N, Lee DH., J Med Virol 85(6), 2013
PMID: 23532756
Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis.
Papenfort K, Sun Y, Miyakoshi M, Vanderpool CK, Vogel J., Cell 153(2), 2013
PMID: 23582330
Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding.
Helwak A, Kudla G, Dudnakova T, Tollervey D., Cell 153(3), 2013
PMID: 23622248
Mobile genetic element SCCmec-encoded psm-mec RNA suppresses translation of agrA and attenuates MRSA virulence.
Kaito C, Saito Y, Ikuo M, Omae Y, Mao H, Nagano G, Fujiyuki T, Numata S, Han X, Obata K, Hasegawa S, Yamaguchi H, Inokuchi K, Ito T, Hiramatsu K, Sekimizu K., PLoS Pathog 9(4), 2013
PMID: 23592990
MicroRNA-324-3p regulates nasopharyngeal carcinoma radioresistance by directly targeting WNT2B.
Li G, Liu Y, Su Z, Ren S, Zhu G, Tian Y, Qiu Y., Eur J Cancer 49(11), 2013
PMID: 23583221
De-repression of FOXO3a death axis by microRNA-132 and -212 causes neuronal apoptosis in Alzheimer's disease.
Wong HK, Veremeyko T, Patel N, Lemere CA, Walsh DM, Esau C, Vanderburg C, Krichevsky AM., Hum Mol Genet 22(15), 2013
PMID: 23585551
Discovery of pluripotency-associated microRNAs in rabbit preimplantation embryos and embryonic stem-like cells.
Maraghechi P, Hiripi L, Tóth G, Bontovics B, Bősze Z, Gócza E., Reproduction 145(4), 2013
PMID: 23426804
Advances in the techniques for the prediction of microRNA targets.
Zheng H, Fu R, Wang JT, Liu Q, Chen H, Jiang SW., Int J Mol Sci 14(4), 2013
PMID: 23591837
MicroRNA-1291-mediated silencing of IRE1α enhances Glypican-3 expression.
Maurel M, Dejeans N, Taouji S, Chevet E, Grosset CF., RNA 19(6), 2013
PMID: 23598528
Reformulated Kemeny optimal aggregation with application in consensus ranking of microRNA targets.
Sengupta D, Pyne A, Maulik U, Bandyopadhyay S., IEEE/ACM Trans Comput Biol Bioinform 10(3), 2013
PMID: 24091406
Evidence for miR-181 involvement in neuroinflammatory responses of astrocytes.
Hutchison ER, Kawamoto EM, Taub DD, Lal A, Abdelmohsen K, Zhang Y, Wood WH, Lehrmann E, Camandola S, Becker KG, Gorospe M, Mattson MP., Glia 61(7), 2013
PMID: 23650073
Phenethyl isothiocyanate inhibits androgen receptor-regulated transcriptional activity in prostate cancer cells through suppressing PCAF.
Yu C, Gong AY, Chen D, Solelo Leon D, Young CY, Chen XM., Mol Nutr Food Res 57(10), 2013
PMID: 23661605
Effect of avian influenza A H5N1 infection on the expression of microRNA-141 in human respiratory epithelial cells.
Lam WY, Yeung AC, Ngai KL, Li MS, To KF, Tsui SK, Chan PK., BMC Microbiol 13(), 2013
PMID: 23663545
Antiviral Stratagems Against HIV-1 Using RNA Interference (RNAi) Technology.
Vlachakis D, Tsiliki G, Pavlopoulou A, Roubelakis MG, Tsaniras SC, Kossida S., Evol Bioinform Online 9(), 2013
PMID: 23761954
Cross-kingdom sequence similarities between human micro-RNAs and plant viruses.
Rebolledo-Mendez JD, Vaishnav RA, Cooper NG, Friedland RP., Commun Integr Biol 6(5), 2013
PMID: 24228136
MicroRNA-185 oscillation controls circadian amplitude of mouse Cryptochrome 1 via translational regulation.
Lee KH, Kim SH, Lee HR, Kim W, Kim DY, Shin JC, Yoo SH, Kim KT., Mol Biol Cell 24(14), 2013
PMID: 23699394
CLIP-based prediction of mammalian microRNA binding sites.
Liu C, Mallick B, Long D, Rennie WA, Wolenc A, Carmack CS, Ding Y., Nucleic Acids Res 41(14), 2013
PMID: 23703212
Altered microRNA expression profile in Amyotrophic Lateral Sclerosis: a role in the regulation of NFL mRNA levels.
Campos-Melo D, Droppelmann CA, He Z, Volkening K, Strong MJ., Mol Brain 6(), 2013
PMID: 23705811
Mechanosensitive microRNAs-role in endothelial responses to shear stress and redox state.
Marin T, Gongol B, Chen Z, Woo B, Subramaniam S, Chien S, Shyy JY., Free Radic Biol Med 64(), 2013
PMID: 23727269
MtvR is a global small noncoding regulatory RNA in Burkholderia cenocepacia.
Ramos CG, Grilo AM, da Costa PJ, Feliciano JR, Leitão JH., J Bacteriol 195(16), 2013
PMID: 23729649
miR-124 controls male reproductive success in Drosophila.
Weng R, Chin JS, Yew JY, Bushati N, Cohen SM., Elife 2(), 2013
PMID: 23795292
The interplay of HuR and miR-3134 in regulation of AU rich transcriptome.
Sharma S, Verma S, Vasudevan M, Samanta S, Thakur JK, Kulshreshtha R., RNA Biol 10(8), 2013
PMID: 23823647
Intestinal Salmonella typhimurium infection leads to miR-29a induced caveolin 2 regulation.
Hoeke L, Sharbati J, Pawar K, Keller A, Einspanier R, Sharbati S., PLoS One 8(6), 2013
PMID: 23826261
2D meets 4G: G-quadruplexes in RNA secondary structure prediction.
Lorenz R, Bernhart SH, Qin J, Höner zu Siederdissen C, Tanzer A, Amman F, Hofacker IL, Stadler PF., IEEE/ACM Trans Comput Biol Bioinform 10(4), 2013
PMID: 24334379
miR-1915 and miR-1225-5p regulate the expression of CD133, PAX2 and TLR2 in adult renal progenitor cells.
Sallustio F, Serino G, Costantino V, Curci C, Cox SN, De Palma G, Schena FP., PLoS One 8(7), 2013
PMID: 23861881
miR-29b and miR-29c are involved in Toll-like receptor control of glucocorticoid-induced apoptosis in human plasmacytoid dendritic cells.
Hong Y, Wu J, Zhao J, Wang H, Liu Y, Chen T, Kan X, Tao Q, Shen X, Yan K, Zhai Z., PLoS One 8(7), 2013
PMID: 23894561
GRF: A Greedy Rank Fusion Algorithm for Combining MicroRNA Target Orderings.
Bandyopadhyay S, Sengupta D, Maulik U., Mol Inform 32(8), 2013
PMID: 27480061
An RpoS-dependent sRNA regulates the expression of a chaperone involved in protein folding.
Silva IJ, Ortega AD, Viegas SC, García-Del Portillo F, Arraiano CM., RNA 19(9), 2013
PMID: 23893734
Sequencing and characterisation of an extensive Atlantic salmon (Salmo salar L.) microRNA repertoire.
Bekaert M, Lowe NR, Bishop SC, Bron JE, Taggart JB, Houston RD., PLoS One 8(7), 2013
PMID: 23922936
Involvement of miRNAs in equine follicle development.
Schauer SN, Sontakke SD, Watson ED, Esteves CL, Donadeu FX., Reproduction 146(3), 2013
PMID: 23813447
MicroRNA-3906 regulates fast muscle differentiation through modulating the target gene homer-1b in zebrafish embryos.
Lin CY, Chen JS, Loo MR, Hsiao CC, Chang WY, Tsai HJ., PLoS One 8(7), 2013
PMID: 23936160
Correlated mRNAs and miRNAs from co-expression and regulatory networks affect porcine muscle and finally meat properties.
Ponsuksili S, Du Y, Hadlich F, Siengdee P, Murani E, Schwerin M, Wimmers K., BMC Genomics 14(), 2013
PMID: 23915301
The tumour suppressor miR-34c targets MET in prostate cancer cells.
Hagman Z, Haflidadottir BS, Ansari M, Persson M, Bjartell A, Edsjö A, Ceder Y., Br J Cancer 109(5), 2013
PMID: 23922103
ProteoMirExpress: inferring microRNA and protein-centered regulatory networks from high-throughput proteomic and mRNA expression data.
Qin J, Li MJ, Wang P, Wong NS, Wong MP, Xia Z, Tsao GS, Zhang MQ, Wang J., Mol Cell Proteomics 12(11), 2013
PMID: 23924514
Identification of neglected cestode Taenia multiceps microRNAs by illumina sequencing and bioinformatic analysis.
Wu X, Fu Y, Yang D, Xie Y, Zhang R, Zheng W, Nie H, Yan N, Wang N, Wang J, Gu X, Wang S, Peng X, Yang G., BMC Vet Res 9(), 2013
PMID: 23941076
MiR-101 inhibits melanoma cell invasion and proliferation by targeting MITF and EZH2.
Luo C, Merz PR, Chen Y, Dickes E, Pscherer A, Schadendorf D, Eichmüller SB., Cancer Lett 341(2), 2013
PMID: 23962556
MiR-210 is induced by Oct-2, regulates B cells, and inhibits autoantibody production.
Mok Y, Schwierzeck V, Thomas DC, Vigorito E, Rayner TF, Jarvis LB, Prosser HM, Bradley A, Withers DR, Mårtensson IL, Corcoran LM, Blenkiron C, Miska EA, Lyons PA, Smith KGC., J Immunol 191(6), 2013
PMID: 23960236
Regulation of atrophin by both strands of the mir-8 precursor.
Rubio M, Montañez R, Perez L, Milan M, Belles X., Insect Biochem Mol Biol 43(11), 2013
PMID: 23974011
Identification of microRNA-like RNAs in mycelial and yeast phases of the thermal dimorphic fungus Penicillium marneffei.
Lau SK, Chow WN, Wong AY, Yeung JM, Bao J, Zhang N, Lok S, Woo PC, Yuen KY., PLoS Negl Trop Dis 7(8), 2013
PMID: 23991243
Comparative genomics boosts target prediction for bacterial small RNAs.
Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, Hess WR, Backofen R, Georg J., Proc Natl Acad Sci U S A 110(37), 2013
PMID: 23980183
SIV replication is directly downregulated by four antiviral miRNAs.
Sisk JM, Witwer KW, Tarwater PM, Clements JE., Retrovirology 10(), 2013
PMID: 23988154
Pro-apoptotic miRNA-128-2 modulates ABCA1, ABCG1 and RXRα expression and cholesterol homeostasis.
Adlakha YK, Khanna S, Singh R, Singh VP, Agrawal A, Saini N., Cell Death Dis 4(), 2013
PMID: 23990020
Crucial role for early growth response-1 in the transcriptional regulation of miR-20b in breast cancer.
Li D, Ilnytskyy Y, Kovalchuk A, Khachigian LM, Bronson RT, Wang B, Kovalchuk O., Oncotarget 4(9), 2013
PMID: 23945289
Hematological malignancies: role of miRNAs and their in silico aspects.
Omer A, Yadav NK, Singh P, Singh RK., Expert Rev Anticancer Ther 13(9), 2013
PMID: 24053209
Mmu-miR-702 functions as an anti-apoptotic mirtron by mediating ATF6 inhibition in mice.
Zhang WG, Chen L, Dong Q, He J, Zhao HD, Li FL, Li H., Gene 531(2), 2013
PMID: 24035931
Identification of novel MicroRNA signatures linked to experimental autoimmune myasthenia gravis pathogenesis: down-regulated miR-145 promotes pathogenetic Th17 cell response.
Wang J, Zheng S, Xin N, Dou C, Fu L, Zhang X, Chen J, Zhang Y, Geng D, Xiao C, Cui G, Shen X, Lu Y, Wang J, Dong R, Qiao Y, Zhang Y., J Neuroimmune Pharmacol 8(5), 2013
PMID: 24043548
miR-31 promotes oncogenesis in intrahepatic cholangiocarcinoma cells via the direct suppression of RASA1.
Hu C, Huang F, Deng G, Nie W, Huang W, Zeng X., Exp Ther Med 6(5), 2013
PMID: 24223656
Regulation of the unfolded protein response by microRNAs.
Bartoszewska S, Kochan K, Madanecki P, Piotrowski A, Ochocka R, Collawn JF, Bartoszewski R., Cell Mol Biol Lett 18(4), 2013
PMID: 24092331
CDKN2B expression in adipose tissue of familial combined hyperlipidemia patients.
Horswell SD, Fryer LG, Hutchison CE, Zindrou D, Speedy HE, Town MM, Duncan EJ, Sivapackianathan R, Patel HN, Jones EL, Braithwaite A, Salm MP, Neuwirth CK, Potter E, Anderson JR, Taylor KM, Seed M, Betteridge DJ, Crook MA, Wierzbicki AS, Scott J, Naoumova RP, Shoulders CC., J Lipid Res 54(12), 2013
PMID: 24103848
Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots.
Vidal EA, Moyano TC, Krouk G, Katari MS, Tanurdzic M, McCombie WR, Coruzzi GM, Gutiérrez RA., BMC Genomics 14(), 2013
PMID: 24119003
A computational method for predicting regulation of human microRNAs on the influenza virus genome.
Zhang H, Li Z, Li Y, Liu Y, Liu J, Li X, Shen T, Duan Y, Hu M, Xu D., BMC Syst Biol 7 Suppl 2(), 2013
PMID: 24565017
Identification of novel microRNA regulatory pathways associated with heterogeneous prostate cancer.
Tang Y, Yan W, Chen J, Luo C, Kaipia A, Shen B., BMC Syst Biol 7 Suppl 3(), 2013
PMID: 24555436
Identification of microRNAs in wool follicles during anagen, catagen, and telogen phases in Tibetan sheep.
Liu G, Liu R, Li Q, Tang X, Yu M, Li X, Cao J, Zhao S., PLoS One 8(10), 2013
PMID: 24204975
A small RNA activates CFA synthase by isoform-specific mRNA stabilization.
Fröhlich KS, Papenfort K, Fekete A, Vogel J., EMBO J 32(22), 2013
PMID: 24141880
MicroRNA-22 is a master regulator of bone morphogenetic protein-7/6 homeostasis in the kidney.
Long J, Badal SS, Wang Y, Chang BH, Rodriguez A, Danesh FR., J Biol Chem 288(51), 2013
PMID: 24163368
Continuing analysis of microRNA origins: Formation from transposable element insertions and noncoding RNA mutations.
Roberts JT, Cooper EA, Favreau CJ, Howell JS, Lane LG, Mills JE, Newman DC, Perry TJ, Russell ME, Wallace BM, Borchert GM., Mob Genet Elements 3(6), 2013
PMID: 24475369
An integrative meta-analysis of microRNAs in hepatocellular carcinoma.
ElHefnawi M, Soliman B, Abu-Shahba N, Amer M., Genomics Proteomics Bioinformatics 11(6), 2013
PMID: 24287119
MicroRNAs -the next generation therapeutic targets in human diseases.
Srinivasan S, Selvan ST, Archunan G, Gulyas B, Padmanabhan P., Theranostics 3(12), 2013
PMID: 24396504
Unraveling the characteristics of microRNA regulation in the developmental and aging process of the human brain.
Li W, Chen L, Li W, Qu X, He W, He Y, Feng C, Jia X, Zhou Y, Lv J, Liang B, Chen B, Jiang J., BMC Med Genomics 6(), 2013
PMID: 24321625
Identifying novel glioma associated pathways based on systems biology level meta-analysis.
Hu Y, Li J, Yan W, Chen J, Li Y, Hu G, Shen B., BMC Syst Biol 7 Suppl 2(), 2013
PMID: 24565222
Systematic microRNA analysis identifies ATP6V0C as an essential host factor for human cytomegalovirus replication.
Pavelin J, Reynolds N, Chiweshe S, Wu G, Tiribassi R, Grey F., PLoS Pathog 9(12), 2013
PMID: 24385903
Mouse miRNA-709 directly regulates miRNA-15a/16-1 biogenesis at the posttranscriptional level in the nucleus: evidence for a microRNA hierarchy system.
Tang R, Li L, Zhu D, Hou D, Cao T, Gu H, Zhang J, Chen J, Zhang CY, Zen K., Cell Res 22(3), 2012
PMID: 21862971
Molecular basis of differential target regulation by miR-96 and miR-182: the Glypican-3 as a model.
Jalvy-Delvaille S, Maurel M, Majo V, Pierre N, Chabas S, Combe C, Rosenbaum J, Sagliocco F, Grosset CF., Nucleic Acids Res 40(3), 2012
PMID: 22009679
West Nile virus encodes a microRNA-like small RNA in the 3' untranslated region which up-regulates GATA4 mRNA and facilitates virus replication in mosquito cells.
Hussain M, Torres S, Schnettler E, Funk A, Grundhoff A, Pijlman GP, Khromykh AA, Asgari S., Nucleic Acids Res 40(5), 2012
PMID: 22080551
The miR-143/-145 cluster regulates plasminogen activator inhibitor-1 in bladder cancer.
Villadsen SB, Bramsen JB, Ostenfeld MS, Wiklund ED, Fristrup N, Gao S, Hansen TB, Jensen TI, Borre M, Ørntoft TF, Dyrskjøt L, Kjems J., Br J Cancer 106(2), 2012
PMID: 22108519
MicroRNAs 296 and 298 are imprinted and part of the GNAS/Gnas cluster and miR-296 targets IKBKE and Tmed9.
Robson JE, Eaton SA, Underhill P, Williams D, Peters J., RNA 18(1), 2012
PMID: 22114321
A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD.
Fröhlich KS, Papenfort K, Berger AA, Vogel J., Nucleic Acids Res 40(8), 2012
PMID: 22180532
Intronic miR-26b controls neuronal differentiation by repressing its host transcript, ctdsp2.
Dill H, Linder B, Fehr A, Fischer U., Genes Dev 26(1), 2012
PMID: 22215807
Increased sensitivity of next generation sequencing-based expression profiling after globin reduction in human blood RNA.
Mastrokolias A, den Dunnen JT, van Ommen GB, 't Hoen PA, van Roon-Mom WM., BMC Genomics 13(), 2012
PMID: 22257641
The viral and cellular microRNA targetome in lymphoblastoid cell lines.
Skalsky RL, Corcoran DL, Gottwein E, Frank CL, Kang D, Hafner M, Nusbaum JD, Feederle R, Delecluse HJ, Luftig MA, Tuschl T, Ohler U, Cullen BR., PLoS Pathog 8(1), 2012
PMID: 22291592
Functional microRNA targets in protein coding sequences.
Reczko M, Maragkakis M, Alexiou P, Grosse I, Hatzigeorgiou AG., Bioinformatics 28(6), 2012
PMID: 22285563
Weighted Markov Chain Based Aggregation of Bio-molecule Orderings.
Sengupta D, Maulik U, Bandyopadhyay S., IEEE/ACM Trans Comput Biol Bioinform 9(3), 2012
PMID: 22331863
Dysregulation of global microRNA expression in splenic marginal zone lymphoma and influence of chronic hepatitis C virus infection.
Peveling-Oberhag J, Crisman G, Schmidt A, Döring C, Lucioni M, Arcaini L, Rattotti S, Hartmann S, Piiper A, Hofmann WP, Paulli M, Küppers R, Zeuzem S, Hansmann ML., Leukemia 26(7), 2012
PMID: 22307176
Degradation of cellular mir-27 by a novel, highly abundant viral transcript is important for efficient virus replication in vivo.
Marcinowski L, Tanguy M, Krmpotic A, Rädle B, Lisnić VJ, Tuddenham L, Chane-Woon-Ming B, Ruzsics Z, Erhard F, Benkartek C, Babic M, Zimmer R, Trgovcich J, Koszinowski UH, Jonjic S, Pfeffer S, Dölken L., PLoS Pathog 8(2), 2012
PMID: 22346748
An alternative mode of microRNA target recognition.
Chi SW, Hannon GJ, Darnell RB., Nat Struct Mol Biol 19(3), 2012
PMID: 22343717
Identification of links between small molecules and miRNAs in human cancers based on transcriptional responses.
Jiang W, Chen X, Liao M, Li W, Lian B, Wang L, Meng F, Liu X, Chen X, Jin Y, Li X., Sci Rep 2(), 2012
PMID: 22355792
Targeting of csgD by the small regulatory RNA RprA links stationary phase, biofilm formation and cell envelope stress in Escherichia coli.
Mika F, Busse S, Possling A, Berkholz J, Tschowri N, Sommerfeldt N, Pruteanu M, Hengge R., Mol Microbiol 84(1), 2012
PMID: 22356413
Identification of microRNA-regulated gene networks by expression analysis of target genes.
Gennarino VA, D'Angelo G, Dharmalingam G, Fernandez S, Russolillo G, Sanges R, Mutarelli M, Belcastro V, Ballabio A, Verde P, Sardiello M, Banfi S., Genome Res 22(6), 2012
PMID: 22345618
A human 3' miR-499 mutation alters cardiac mRNA targeting and function.
Dorn GW, Matkovich SJ, Eschenbacher WH, Zhang Y., Circ Res 110(7), 2012
PMID: 22374132
MicroRNA-125b/Lin28 pathway contributes to the mesendodermal fate decision of embryonic stem cells.
Wang J, Cao N, Yuan M, Cui H, Tang Y, Qin L, Huang X, Shen N, Yang HT., Stem Cells Dev 21(9), 2012
PMID: 22277001
The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair.
Papenfort K, Podkaminski D, Hinton JC, Vogel J., Proc Natl Acad Sci U S A 109(13), 2012
PMID: 22383560
A global investigation of the Bacillus subtilis iron-sparing response identifies major changes in metabolism.
Smaldone GT, Revelles O, Gaballa A, Sauer U, Antelmann H, Helmann JD., J Bacteriol 194(10), 2012
PMID: 22389480
Let-7b is a novel regulator of hepatitis C virus replication.
Cheng JC, Yeh YJ, Tseng CP, Hsu SD, Chang YL, Sakamoto N, Huang HD., Cell Mol Life Sci 69(15), 2012
PMID: 22391672
SoMART: a web server for plant miRNA, tasiRNA and target gene analysis.
Li F, Orban R, Baker B., Plant J 70(5), 2012
PMID: 22268718
MiRNA-mediated control of HLA-G expression and function.
Manaster I, Goldman-Wohl D, Greenfield C, Nachmani D, Tsukerman P, Hamani Y, Yagel S, Mandelboim O., PLoS One 7(3), 2012
PMID: 22438923
Superfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA.
Corcoran CP, Podkaminski D, Papenfort K, Urban JH, Hinton JC, Vogel J., Mol Microbiol 84(3), 2012
PMID: 22458297
In-silico and in-vivo analyses of EST databases unveil conserved miRNAs from Carthamus tinctorius and Cynara cardunculus.
Catalano D, Pignone D, Sonnante G, Finetti-Sialer MM., BMC Bioinformatics 13 Suppl 4(), 2012
PMID: 22536958
MicroRNAs in inner ear biology and pathogenesis.
Patel M, Hu BH., Hear Res 287(1-2), 2012
PMID: 22484222
Ssa miRNAs DB: Online repository of in silico predicted miRNAs in Salmo salar.
Reyes D, Cepeda V, González R, Vidal R., Bioinformation 8(6), 2012
PMID: 22493538
Attenuation of microRNA-22 derepressed PTEN to effectively protect rat cardiomyocytes from hypertrophy.
Xu XD, Song XW, Li Q, Wang GK, Jing Q, Qin YW., J Cell Physiol 227(4), 2012
PMID: 21618527
miR-290 cluster modulates pluripotency by repressing canonical NF-κB signaling.
Lüningschrör P, Stöcker B, Kaltschmidt B, Kaltschmidt C., Stem Cells 30(4), 2012
PMID: 22232084
Inhibition of lamina outgrowth following Solanum lycopersicum AUXIN RESPONSE FACTOR 10 (SlARF10) derepression.
Hendelman A, Buxdorf K, Stav R, Kravchik M, Arazi T., Plant Mol Biol 78(6), 2012
PMID: 22287097
Behavioral plasticity in honey bees is associated with differences in brain microRNA transcriptome.
Greenberg JK, Xia J, Zhou X, Thatcher SR, Gu X, Ament SA, Newman TC, Green PJ, Zhang W, Robinson GE, Ben-Shahar Y., Genes Brain Behav 11(6), 2012
PMID: 22409512
MicroRNA-22 can reduce parathymosin expression in transdifferentiated hepatocytes.
Chen HL, Huang JY, Chen CM, Chu TH, Shih C., PLoS One 7(4), 2012
PMID: 22493679
MicroRNAs as components of regulatory networks controlling erythropoiesis.
Azzouzi I, Schmugge M, Speer O., Eur J Haematol 89(1), 2012
PMID: 22372390
Small non-coding RNA SraG regulates the operon YPK_1206-1205 in Yersinia pseudotuberculosis.
Lu P, Zhang Y, Li L, Hu Y, Huang L, Li Y, Rayner S, Chen S., FEMS Microbiol Lett 331(1), 2012
PMID: 22428705
Human POLB gene is mutated in high percentage of colorectal tumors.
Donigan KA, Sun KW, Nemec AA, Murphy DL, Cong X, Northrup V, Zelterman D, Sweasy JB., J Biol Chem 287(28), 2012
PMID: 22577134
Computational identification and experimental validation of microRNAs binding to the Alzheimer-related gene ADAM10.
Augustin R, Endres K, Reinhardt S, Kuhn PH, Lichtenthaler SF, Hansen J, Wurst W, Trümbach D., BMC Med Genet 13(), 2012
PMID: 22594617
Dicer-1 is a key enzyme in the regulation of oogenesis in panoistic ovaries.
Tanaka ED, Piulachs MD., Biol Cell 104(8), 2012
PMID: 22462497
MicroRNAs as putative mediators of treatment response in prostate cancer.
O'Kelly F, Marignol L, Meunier A, Lynch TH, Perry AS, Hollywood D., Nat Rev Urol 9(7), 2012
PMID: 22613932
Genome-wide search for miRNA-target interactions in Arabidopsis thaliana with an integrated approach.
Ding J, Li D, Ohler U, Guan J, Zhou S., BMC Genomics 13 Suppl 3(), 2012
PMID: 22759612
MicroRNA expression signature in human abdominal aortic aneurysms.
Pahl MC, Derr K, Gäbel G, Hinterseher I, Elmore JR, Schworer CM, Peeler TC, Franklin DP, Gray JL, Carey DJ, Tromp G, Kuivaniemi H., BMC Med Genomics 5(), 2012
PMID: 22704053
Myelin basic protein synthesis is regulated by small non-coding RNA 715.
Bauer NM, Moos C, van Horssen J, Witte M, van der Valk P, Altenhein B, Luhmann HJ, White R., EMBO Rep 13(9), 2012
PMID: 22744314
Identification of new microRNA-regulated genes by conserved targeting in plant species.
Chorostecki U, Crosa VA, Lodeyro AF, Bologna NG, Martin AP, Carrillo N, Schommer C, Palatnik JF., Nucleic Acids Res 40(18), 2012
PMID: 22772987
Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels.
Tippmann SC, Ivanek R, Gaidatzis D, Schöler A, Hoerner L, van Nimwegen E, Stadler PF, Stadler MB, Schübeler D., Mol Syst Biol 8(), 2012
PMID: 22806141
MicroRNA-122 plays a critical role in liver homeostasis and hepatocarcinogenesis.
Tsai WC, Hsu SD, Hsu CS, Lai TC, Chen SJ, Shen R, Huang Y, Chen HC, Lee CH, Tsai TF, Hsu MT, Wu JC, Huang HD, Shiao MS, Hsiao M, Tsou AP., J Clin Invest 122(8), 2012
PMID: 22820290
MicroRNA-7 inhibits epithelial-to-mesenchymal transition and metastasis of breast cancer cells via targeting FAK expression.
Kong X, Li G, Yuan Y, He Y, Wu X, Zhang W, Wu Z, Chen T, Wu W, Lobie PE, Zhu T., PLoS One 7(8), 2012
PMID: 22876288
MicroRNA-181a* Targets Nanog in a Subpopulation of CD34(+) Cells Isolated From Peripheral Blood.
Mintz PJ, Sætrom P, Reebye V, Lundbæk MB, Lao K, Rossi JJ, Gaensler KM, Kasahara N, Nicholls JP, Jensen S, Haoudi A, Emara MM, Gordon MY, Habib NA., Mol Ther Nucleic Acids 1(), 2012
PMID: 23344176
Molecular dynamics simulations of Ago silencing complexes reveal a large repertoire of admissible 'seed-less' targets.
Xia Z, Clark P, Huynh T, Loher P, Zhao Y, Chen HW, Ren P, Rigoutsos I, Zhou R., Sci Rep 2(), 2012
PMID: 22888400
RIsearch: fast RNA-RNA interaction search using a simplified nearest-neighbor energy model.
Wenzel A, Akbasli E, Gorodkin J., Bioinformatics 28(21), 2012
PMID: 22923300
LIFR is a breast cancer metastasis suppressor upstream of the Hippo-YAP pathway and a prognostic marker.
Chen D, Sun Y, Wei Y, Zhang P, Rezaeian AH, Teruya-Feldstein J, Gupta S, Liang H, Lin HK, Hung MC, Ma L., Nat Med 18(10), 2012
PMID: 23001183
MiRmap: comprehensive prediction of microRNA target repression strength.
Vejnar CE, Zdobnov EM., Nucleic Acids Res 40(22), 2012
PMID: 23034802
The novel cis-encoded small RNA h2cR is a negative regulator of hfq2 in Burkholderia cenocepacia.
Ramos CG, da Costa PJ, Döring G, Leitão JH., PLoS One 7(10), 2012
PMID: 23082228
Predicting sRNAs and their targets in bacteria.
Li W, Ying X, Lu Q, Chen L., Genomics Proteomics Bioinformatics 10(5), 2012
PMID: 23200137
MicroRNA-223 is neuroprotective by targeting glutamate receptors.
Harraz MM, Eacker SM, Wang X, Dawson TM, Dawson VL., Proc Natl Acad Sci U S A 109(46), 2012
PMID: 23112146
A self-limiting switch based on translational control regulates the transition from proliferation to differentiation in an adult stem cell lineage.
Insco ML, Bailey AS, Kim J, Olivares GH, Wapinski OL, Tam CH, Fuller MT., Cell Stem Cell 11(5), 2012
PMID: 23122292
The functions of microRNAs in pluripotency and reprogramming.
Leonardo TR, Schultheisz HL, Loring JF, Laurent LC., Nat Cell Biol 14(11), 2012
PMID: 23131918
Prediction of altered 3'- UTR miRNA-binding sites from RNA-Seq data: the swine leukocyte antigen complex (SLA) as a model region.
Endale Ahanda ML, Fritz ER, Estellé J, Hu ZL, Madsen O, Groenen MA, Beraldi D, Kapetanovic R, Hume DA, Rowland RR, Lunney JK, Rogel-Gaillard C, Reecy JM, Giuffra E., PLoS One 7(11), 2012
PMID: 23139801
The expression levels of microRNA-361-5p and its target VEGFA are inversely correlated in human cutaneous squamous cell carcinoma.
Kanitz A, Imig J, Dziunycz PJ, Primorac A, Galgano A, Hofbauer GF, Gerber AP, Detmar M., PLoS One 7(11), 2012
PMID: 23166713
Differential microRNA epression in asthma and the role of miR-1248 in regulation of IL-5.
Panganiban RP, Pinkerton MH, Maru SY, Jefferson SJ, Roff AN, Ishmael FT., Am J Clin Exp Immunol 1(2), 2012
PMID: 23885321
Expression of small RNA in Aphis gossypii and its potential role in the resistance interaction with melon.
Sattar S, Addo-Quaye C, Song Y, Anstead JA, Sunkar R, Thompson GA., PLoS One 7(11), 2012
PMID: 23173035
Cyclooxygenase-2 is a target of microRNA-16 in human hepatoma cells.
Agra Andrieu N, Motiño O, Mayoral R, Llorente Izquierdo C, Fernández-Alvarez A, Boscá L, Casado M, Martín-Sanz P., PLoS One 7(11), 2012
PMID: 23226427
Comprehensive analysis of microRNAs in breast cancer.
Chang HT, Li SC, Ho MR, Pan HW, Ger LP, Hu LY, Yu SY, Li WH, Tsai KW., BMC Genomics 13 Suppl 7(), 2012
PMID: 23281739
Bioinformatics of Cancer ncRNA in High Throughput Sequencing: Present State and Challenges.
Jorge NA, Ferreira CG, Passetti F., Front Genet 3(), 2012
PMID: 23251139
A Bayesian decision fusion approach for microRNA target prediction.
Yue D, Guo M, Chen Y, Huang Y., BMC Genomics 13 Suppl 8(), 2012
PMID: 23282032
Characterization of microRNAs from sheep (Ovis aries) using computational and experimental analyses.
Sheng X, Song X, Yu Y, Niu L, Li S, Li H, Wei C, Liu T, Zhang L, Du L., Mol Biol Rep 38(5), 2011
PMID: 20140706
Efficient use of accessibility in microRNA target prediction.
Marín RM, Vanícek J., Nucleic Acids Res 39(1), 2011
PMID: 20805242
p53 activates the PANK1/miRNA-107 gene leading to downregulation of CDK6 and p130 cell cycle proteins.
Böhlig L, Friedrich M, Engeland K., Nucleic Acids Res 39(2), 2011
PMID: 20833636
MiRNA-miRNA synergistic network: construction via co-regulating functional modules and disease miRNA topological features.
Xu J, Li CX, Li YS, Lv JY, Ma Y, Shao TT, Xu LD, Wang YY, Du L, Zhang YP, Jiang W, Li CQ, Xiao Y, Li X., Nucleic Acids Res 39(3), 2011
PMID: 20929877
Zebrafish microRNA-126 determines hematopoietic cell fate through c-Myb.
Grabher C, Payne EM, Johnston AB, Bolli N, Lechman E, Dick JE, Kanki JP, Look AT., Leukemia 25(3), 2011
PMID: 21079614
PETcofold: predicting conserved interactions and structures of two multiple alignments of RNA sequences.
Seemann SE, Richter AS, Gesell T, Backofen R, Gorodkin J., Bioinformatics 27(2), 2011
PMID: 21088024
Targets for human encoded microRNAs in HBV genes.
Wu FL, Jin WB, Li JH, Guo AG., Virus Genes 42(2), 2011
PMID: 21113793
MiR-124 regulates early neurogenesis in the optic vesicle and forebrain, targeting NeuroD1.
Liu K, Liu Y, Mo W, Qiu R, Wang X, Wu JY, He R., Nucleic Acids Res 39(7), 2011
PMID: 21131276
Two functional microRNA-126s repress a novel target gene p21-activated kinase 1 to regulate vascular integrity in zebrafish.
Zou J, Li WQ, Li Q, Li XQ, Zhang JT, Liu GQ, Chen J, Qiu XX, Tian FJ, Wang ZZ, Zhu N, Qin YW, Shen B, Liu TX, Jing Q., Circ Res 108(2), 2011
PMID: 21148433
Functional homogeneity in microRNA target heterogeneity--a new sight into human microRNomics.
Wang Y, Du L, Li X, Zhang S, Xiao Y, Gong B, Wang Q, Zhou M, Xu C, Chen X, Lv S, Rao S., OMICS 15(1-2), 2011
PMID: 21194299
Gene-centered regulatory network mapping.
Walhout AJ., Methods Cell Biol 106(), 2011
PMID: 22118281
Accurate microRNA Target Prediction Using Detailed Binding Site Accessibility and Machine Learning on Proteomics Data.
Reczko M, Maragkakis M, Alexiou P, Papadopoulos GL, Hatzigeorgiou AG., Front Genet 2(), 2011
PMID: 22303397
MicroRNA-1258 suppresses breast cancer brain metastasis by targeting heparanase.
Zhang L, Sullivan PS, Goodman JC, Gunaratne PH, Marchetti D., Cancer Res 71(3), 2011
PMID: 21266359
MicroRNAs profiling in murine models of acute and chronic asthma: a relationship with mRNAs targets.
Garbacki N, Di Valentin E, Huynh-Thu VA, Geurts P, Irrthum A, Crahay C, Arnould T, Deroanne C, Piette J, Cataldo D, Colige A., PLoS One 6(1), 2011
PMID: 21305051
Virus-encoded microRNAs.
Grundhoff A, Sullivan CS., Virology 411(2), 2011
PMID: 21277611
Mapping studies of the Peach latent mosaic viroid reveal novel structural features.
Dubé A, Bolduc F, Bisaillon M, Perreault JP., Mol Plant Pathol 12(7), 2011
PMID: 21726370
Predicting microRNA modulation in human prostate cancer using a simple String IDentifier (SID1.0).
Albertini MC, Olivieri F, Lazzarini R, Pilolli F, Galli F, Spada G, Accorsi A, Rippo MR, Procopio AD., J Biomed Inform 44(4), 2011
PMID: 21334455
Low-level expression of let-7a in gastric cancer and its involvement in tumorigenesis by targeting RAB40C.
Yang Q, Jie Z, Cao H, Greenlee AR, Yang C, Zou F, Jiang Y., Carcinogenesis 32(5), 2011
PMID: 21349817
MicroRNA expression analysis: clinical advantage of propranolol reveals key microRNAs in myocardial infarction.
Zhu W, Yang L, Shan H, Zhang Y, Zhou R, Su Z, Du Z., PLoS One 6(2), 2011
PMID: 21386882
Identification of microRNA target genes in vivo.
Zheng W, Zou HW, Tan YG, Cai WS., Mol Biotechnol 47(3), 2011
PMID: 20844985
miR-21 downregulates the tumor suppressor P12 CDK2AP1 and stimulates cell proliferation and invasion.
Zheng J, Xue H, Wang T, Jiang Y, Liu B, Li J, Liu Y, Wang W, Zhang B, Sun M., J Cell Biochem 112(3), 2011
PMID: 21328460
Small RNA-mediated control of the Agrobacterium tumefaciens GABA binding protein.
Wilms I, Voss B, Hess WR, Leichert LI, Narberhaus F., Mol Microbiol 80(2), 2011
PMID: 21320185
Activation of a microRNA response in trans reveals a new role for poly(A) in translational repression.
Ricci EP, Limousin T, Soto-Rifo R, Allison R, Pöyry T, Decimo D, Jackson RJ, Ohlmann T., Nucleic Acids Res 39(12), 2011
PMID: 21385827
A novel microRNA mmu-miR-466h affects apoptosis regulation in mammalian cells.
Druz A, Chu C, Majors B, Santuary R, Betenbaugh M, Shiloach J., Biotechnol Bioeng 108(7), 2011
PMID: 21337326
SplamiR--prediction of spliced miRNAs in plants.
Thieme CJ, Gramzow L, Lobbes D, Theissen G., Bioinformatics 27(9), 2011
PMID: 21421552
miR-365, a novel negative regulator of interleukin-6 gene expression, is cooperatively regulated by Sp1 and NF-kappaB.
Xu Z, Xiao SB, Xu P, Xie Q, Cao L, Wang D, Luo R, Zhong Y, Chen HC, Fang LR., J Biol Chem 286(24), 2011
PMID: 21518763
Dopamine transporter gene variant affecting expression in human brain is associated with bipolar disorder.
Pinsonneault JK, Han DD, Burdick KE, Kataki M, Bertolino A, Malhotra AK, Gu HH, Sadee W., Neuropsychopharmacology 36(8), 2011
PMID: 21525861
Comprehensive analysis of microRNA genomic loci identifies pervasive repetitive-element origins.
Borchert GM, Holton NW, Williams JD, Hernan WL, Bishop IP, Dembosky JA, Elste JE, Gregoire NS, Kim JA, Koehler WW, Lengerich JC, Medema AA, Nguyen MA, Ower GD, Rarick MA, Strong BN, Tardi NJ, Tasker NM, Wozniak DJ, Gatto C, Larson ED., Mob Genet Elements 1(1), 2011
PMID: 22016841
miRWalk--database: prediction of possible miRNA binding sites by "walking" the genes of three genomes.
Dweep H, Sticht C, Pandey P, Gretz N., J Biomed Inform 44(5), 2011
PMID: 21605702
Tooth evolution and dental defects: from genetic regulation network to micro-RNA fine-tuning.
Michon F., Birth Defects Res A Clin Mol Teratol 91(8), 2011
PMID: 21591243
Fast accessibility-based prediction of RNA-RNA interactions.
Tafer H, Amman F, Eggenhofer F, Stadler PF, Hofacker IL., Bioinformatics 27(14), 2011
PMID: 21593134
MicroRNA-21 orchestrates high glucose-induced signals to TOR complex 1, resulting in renal cell pathology in diabetes.
Dey N, Das F, Mariappan MM, Mandal CC, Ghosh-Choudhury N, Kasinath BS, Choudhury GG., J Biol Chem 286(29), 2011
PMID: 21613227
MicroRNA expression profiling reveals miRNA families regulating specific biological pathways in mouse frontal cortex and hippocampus.
Juhila J, Sipilä T, Icay K, Nicorici D, Ellonen P, Kallio A, Korpelainen E, Greco D, Hovatta I., PLoS One 6(6), 2011
PMID: 21731767
Deregulated miR-155 promotes Fas-mediated apoptosis in human intervertebral disc degeneration by targeting FADD and caspase-3.
Wang HQ, Yu XD, Liu ZH, Cheng X, Samartzis D, Jia LT, Wu SX, Huang J, Chen J, Luo ZJ., J Pathol 225(2), 2011
PMID: 21706480
A study of neural-related microRNAs in the developing amphioxus.
Candiani S, Moronti L, De Pietri Tonelli D, Garbarino G, Pestarino M., Evodevo 2(), 2011
PMID: 21722366
MicroRNA-7 inhibits the growth of human non-small cell lung cancer A549 cells through targeting BCL-2.
Xiong S, Zheng Y, Jiang P, Liu R, Liu X, Chu Y., Int J Biol Sci 7(6), 2011
PMID: 21750649
Viruses and microRNAs: a toolbox for systematic analysis.
Lieber D, Haas J., Wiley Interdiscip Rev RNA 2(6), 2011
PMID: 21976283
Small RNAs endow a transcriptional activator with essential repressor functions for single-tier control of a global stress regulon.
Gogol EB, Rhodius VA, Papenfort K, Vogel J, Gross CA., Proc Natl Acad Sci U S A 108(31), 2011
PMID: 21768388
miRTar: an integrated system for identifying miRNA-target interactions in human.
Hsu JB, Chiu CM, Hsu SD, Huang WY, Chien CH, Lee TY, Huang HD., BMC Bioinformatics 12(), 2011
PMID: 21791068
MicroRNA-96 directly inhibits γ-globin expression in human erythropoiesis.
Azzouzi I, Moest H, Winkler J, Fauchère JC, Gerber AP, Wollscheid B, Stoffel M, Schmugge M, Speer O., PLoS One 6(7), 2011
PMID: 21829531
Identifying transcriptional start sites of human microRNAs based on high-throughput sequencing data.
Chien CH, Sun YM, Chang WC, Chiang-Hsieh PY, Lee TY, Tsai WC, Horng JT, Tsou AP, Huang HD., Nucleic Acids Res 39(21), 2011
PMID: 21821656
miR-107 promotes tumor progression by targeting the let-7 microRNA in mice and humans.
Chen PS, Su JL, Cha ST, Tarn WY, Wang MY, Hsu HC, Lin MT, Chu CY, Hua KT, Chen CN, Kuo TC, Chang KJ, Hsiao M, Chang YW, Chen JS, Yang PC, Kuo ML., J Clin Invest 121(9), 2011
PMID: 21841313
Antagomirbase- a putative antagomir database.
Ganguli S, Mitra S, Datta A., Bioinformation 7(1), 2011
PMID: 21904438
MicroRNAs coordinately regulate protein complexes.
Sass S, Dietmann S, Burk UC, Brabletz S, Lutter D, Kowarsch A, Mayer KF, Brabletz T, Ruepp A, Theis FJ, Wang Y., BMC Syst Biol 5(), 2011
PMID: 21867514
Regulation of miR-146a by RelA/NFkB and p53 in STHdh(Q111)/Hdh(Q111) cells, a cell model of Huntington's disease.
Ghose J, Sinha M, Das E, Jana NR, Bhattacharyya NP., PLoS One 6(8), 2011
PMID: 21887328
Multiple amino acid substitutions involved in enhanced pathogenicity of LPAI H9N2 in mice.
Zhang Z, Hu S, Li Z, Wang X, Liu M, Guo Z, Li S, Xiao Y, Bi D, Jin H., Infect Genet Evol 11(7), 2011
PMID: 21896338
Human cytomegalovirus microRNA miR-US4-1 inhibits CD8(+) T cell responses by targeting the aminopeptidase ERAP1.
Kim S, Lee S, Shin J, Kim Y, Evnouchidou I, Kim D, Kim YK, Kim YE, Ahn JH, Riddell SR, Stratikos E, Kim VN, Ahn K., Nat Immunol 12(10), 2011
PMID: 21892175
Human cytomegalovirus US7 is regulated synergistically by two virally encoded microRNAs and by two distinct mechanisms.
Tirabassi R, Hook L, Landais I, Grey F, Meyers H, Hewitt H, Nelson J., J Virol 85(22), 2011
PMID: 21900172
A wide repertoire of miRNA binding sites: prediction and functional implications.
Elefant N, Altuvia Y, Margalit H., Bioinformatics 27(22), 2011
PMID: 21953484
Differential profiles of microRNAs in retinoblastoma cell lines of different proliferation and adherence patterns.
Jo DH, Kim JH, Park WY, Kim KW, Yu YS, Kim JH., J Pediatr Hematol Oncol 33(7), 2011
PMID: 21941147
Molecular characterization of the microRNA-138-Fos-like antigen 1 (FOSL1) regulatory module in squamous cell carcinoma.
Jin Y, Wang C, Liu X, Mu W, Chen Z, Yu D, Wang A, Dai Y, Zhou X., J Biol Chem 286(46), 2011
PMID: 21969367
The association between common genetic variant of microRNA-146a and cancer susceptibility.
Qiu LX, He J, Wang MY, Zhang RX, Shi TY, Zhu ML, Mao C, Sun S, Lv FF, Zheng CL, Zhu XD., Cytokine 56(3), 2011
PMID: 21978540
Convergence of miRNA expression profiling, α-synuclein interacton and GWAS in Parkinson's disease.
Martins M, Rosa A, Guedes LC, Fonseca BV, Gotovac K, Violante S, Mestre T, Coelho M, Rosa MM, Martin ER, Vance JM, Outeiro TF, Wang L, Borovecki F, Ferreira JJ, Oliveira SA., PLoS One 6(10), 2011
PMID: 22003392
myMIR: a genome-wide microRNA targets identification and annotation tool.
Corrada D, Viti F, Merelli I, Battaglia C, Milanesi L., Brief Bioinform 12(6), 2011
PMID: 22021901
A COMT gene haplotype associated with methamphetamine abuse.
Jugurnauth SK, Chen CK, Barnes MR, Li T, Lin SK, Liu HC, Collier DA, Breen G., Pharmacogenet Genomics 21(11), 2011
PMID: 21934638
Dynamic modulation of thymic microRNAs in response to stress.
Belkaya S, Silge RL, Hoover AR, Medeiros JJ, Eitson JL, Becker AM, de la Morena MT, Bassel-Duby RS, van Oers NS., PLoS One 6(11), 2011
PMID: 22110677
ViennaRNA Package 2.0.
Lorenz R, Bernhart SH, Höner Zu Siederdissen C, Tafer H, Flamm C, Stadler PF, Hofacker IL., Algorithms Mol Biol 6(), 2011
PMID: 22115189
MicroRNA and AU-rich element regulation of prostaglandin synthesis.
Moore AE, Young LE, Dixon DA., Cancer Metastasis Rev 30(3-4), 2011
PMID: 22005950
Using binding profiles to predict binding sites of target RNAs.
Poolsap U, Kato Y, Sato K, Akutsu T., J Bioinform Comput Biol 9(6), 2011
PMID: 22084009
Insulin-like growth factor-1 receptor is regulated by microRNA-133 during skeletal myogenesis.
Huang MB, Xu H, Xie SJ, Zhou H, Qu LH., PLoS One 6(12), 2011
PMID: 22195016
Comparative genomics of the anopheline glutathione S-transferase epsilon cluster.
Ayres CF, Müller P, Dyer N, Wilding CS, Rigden DJ, Donnelly MJ., PLoS One 6(12), 2011
PMID: 22206003
Computational identification and characteristics of novel microRNAs from the silkworm (Bombyx mori L.).
Huang Y, Zou Q, Tang SM, Wang LG, Shen XJ., Mol Biol Rep 37(7), 2010
PMID: 19823945
Human CYP2E1 is regulated by miR-378.
Mohri T, Nakajima M, Fukami T, Takamiya M, Aoki Y, Yokoi T., Biochem Pharmacol 79(7), 2010
PMID: 19945440
A sequence similar to tRNA 3 Lys gene is embedded in HIV-1 U3-R and promotes minus-strand transfer.
Piekna-Przybylska D, DiChiacchio L, Mathews DH, Bambara RA., Nat Struct Mol Biol 17(1), 2010
PMID: 19966801
Computational approaches for microRNA studies: a review.
Li L, Xu J, Yang D, Tan X, Wang H., Mamm Genome 21(1-2), 2010
PMID: 20012966
Predicting miRNA's target from primary structure by the nearest neighbor algorithm.
Lin K, Qian Z, Lu L, Lu L, Lai L, Gu J, Zeng Z, Li H, Cai Y., Mol Divers 14(4), 2010
PMID: 20041294
Fast prediction of RNA-RNA interaction.
Salari R, Backofen R, Sahinalp SC., Algorithms Mol Biol 5(), 2010
PMID: 20047661
Downregulation of miR-21 inhibits EGFR pathway and suppresses the growth of human glioblastoma cells independent of PTEN status.
Zhou X, Ren Y, Moore L, Mei M, You Y, Xu P, Wang B, Wang G, Jia Z, Pu P, Zhang W, Kang C., Lab Invest 90(2), 2010
PMID: 20048743
The snoRNA MBII-52 (SNORD 115) is processed into smaller RNAs and regulates alternative splicing.
Kishore S, Khanna A, Zhang Z, Hui J, Balwierz PJ, Stefan M, Beach C, Nicholls RD, Zavolan M, Stamm S., Hum Mol Genet 19(7), 2010
PMID: 20053671
Computational methods to identify miRNA targets.
Hammell M., Semin Cell Dev Biol 21(7), 2010
PMID: 20079866
MTar: a computational microRNA target prediction architecture for human transcriptome.
Chandra V, Girijadevi R, Nair AS, Pillai SS, Pillai RM., BMC Bioinformatics 11 Suppl 1(), 2010
PMID: 20122191
Tooth morphogenesis and ameloblast differentiation are regulated by micro-RNAs.
Michon F, Tummers M, Kyyrönen M, Frilander MJ, Thesleff I., Dev Biol 340(2), 2010
PMID: 20102707
MicroRNAs in ovarian carcinomas.
Dahiya N, Morin PJ., Endocr Relat Cancer 17(1), 2010
PMID: 19903743
Computational prediction and experimental validation of evolutionarily conserved microRNA target genes in bilaterian animals.
Takane K, Fujishima K, Watanabe Y, Sato A, Saito N, Tomita M, Kanai A., BMC Genomics 11(), 2010
PMID: 20144220
Numerous conserved and divergent microRNAs expressed by herpes simplex viruses 1 and 2.
Jurak I, Kramer MF, Mellor JC, van Lint AL, Roth FP, Knipe DM, Coen DM., J Virol 84(9), 2010
PMID: 20181707
Unified translation repression mechanism for microRNAs and upstream AUGs.
Ajay SS, Athey BD, Lee I., BMC Genomics 11(), 2010
PMID: 20205738
Modulation of mismatch repair and genomic stability by miR-155.
Valeri N, Gasparini P, Fabbri M, Braconi C, Veronese A, Lovat F, Adair B, Vannini I, Fanini F, Bottoni A, Costinean S, Sandhu SK, Nuovo GJ, Alder H, Gafa R, Calore F, Ferracin M, Lanza G, Volinia S, Negrini M, McIlhatton MA, Amadori D, Fishel R, Croce CM., Proc Natl Acad Sci U S A 107(15), 2010
PMID: 20351277
A functional polymorphism in Pre-miR-146a gene is associated with prostate cancer risk and mature miR-146a expression in vivo.
Xu B, Feng NH, Li PC, Tao J, Wu D, Zhang ZD, Tong N, Wang JF, Song NH, Zhang W, Hua LX, Wu HF., Prostate 70(5), 2010
PMID: 19902466
Dysregulation of kallikrein-related peptidases in renal cell carcinoma: potential targets of miRNAs.
White NM, Bui A, Mejia-Guerrero S, Chao J, Soosaipillai A, Youssef Y, Mankaruos M, Honey RJ, Stewart R, Pace KT, Sugar L, Diamandis EP, Doré J, Yousef GM., Biol Chem 391(4), 2010
PMID: 20180642
Systematic analysis of viral and cellular microRNA targets in cells latently infected with human gamma-herpesviruses by RISC immunoprecipitation assay.
Dölken L, Malterer G, Erhard F, Kothe S, Friedel CC, Suffert G, Marcinowski L, Motsch N, Barth S, Beitzinger M, Lieber D, Bailer SM, Hoffmann R, Ruzsics Z, Kremmer E, Pfeffer S, Zimmer R, Koszinowski UH, Grässer F, Meister G, Haas J., Cell Host Microbe 7(4), 2010
PMID: 20413099
Dual-targeting siRNAs.
Tiemann K, Höhn B, Ehsani A, Forman SJ, Rossi JJ, Saetrom P., RNA 16(6), 2010
PMID: 20410240
TAPIR, a web server for the prediction of plant microRNA targets, including target mimics.
Bonnet E, He Y, Billiau K, Van de Peer Y., Bioinformatics 26(12), 2010
PMID: 20430753
Gene bi-targeting by viral and human miRNAs.
Veksler-Lublinsky I, Shemer-Avni Y, Kedem K, Ziv-Ukelson M., BMC Bioinformatics 11(), 2010
PMID: 20465802
MAGIA, a web-based tool for miRNA and Genes Integrated Analysis.
Sales G, Coppe A, Bisognin A, Biasiolo M, Bortoluzzi S, Romualdi C., Nucleic Acids Res 38(web server issue), 2010
PMID: 20484379
Prediction of human targets for viral-encoded microRNAs by thermodynamics and empirical constraints.
Laganà A, Forte S, Russo F, Giugno R, Pulvirenti A, Ferro A., J RNAi Gene Silencing 6(1), 2010
PMID: 20628498
VrrA mediates Hfq-dependent regulation of OmpT synthesis in Vibrio cholerae.
Song T, Sabharwal D, Wai SN., J Mol Biol 400(4), 2010
PMID: 20595045
Next Generation Sequencing of miRNAs - Strategies, Resources and Methods.
Motameny S, Wolters S, Nürnberg P, Schumacher B., Genes (Basel) 1(1), 2010
PMID: 24710011
miR-29 modulates Wnt signaling in human osteoblasts through a positive feedback loop.
Kapinas K, Kessler C, Ricks T, Gronowicz G, Delany AM., J Biol Chem 285(33), 2010
PMID: 20551325
Correlation between pre-miR-146a C/G polymorphism and gastric cancer risk in Chinese population.
Zeng Y, Sun QM, Liu NN, Dong GH, Chen J, Yang L, Wang B., World J Gastroenterol 16(28), 2010
PMID: 20653068
Rapid match-searching for gene silencing assessment.
Horn ME, Waterhouse PM., Bioinformatics 26(16), 2010
PMID: 20601440
Cell-specific regulation of the pro-survival Brn-3b transcription factor by microRNAs.
Calissano M, Latchman DS., Mol Cell Neurosci 45(4), 2010
PMID: 20609388
Identification and characterization of a novel miR159 target not related to MYB in tomato.
Buxdorf K, Hendelman A, Stav R, Lapidot M, Ori N, Arazi T., Planta 232(5), 2010
PMID: 20661587
microRNA: a master regulator of cellular processes for bioengineering systems.
Sun W, Julie Li YS, Huang HD, Shyy JY, Chien S., Annu Rev Biomed Eng 12(), 2010
PMID: 20415587
MicroRNA-132-mediated loss of p120RasGAP activates the endothelium to facilitate pathological angiogenesis.
Anand S, Majeti BK, Acevedo LM, Murphy EA, Mukthavaram R, Scheppke L, Huang M, Shields DJ, Lindquist JN, Lapinski PE, King PD, Weis SM, Cheresh DA., Nat Med 16(8), 2010
PMID: 20676106
Sizing up the future of microRNA analysis.
Qavi AJ, Kindt JT, Bailey RC., Anal Bioanal Chem 398(6), 2010
PMID: 20680616
MicroRNAs and lung cancer: Biology and applications in diagnosis and prognosis.
Mallick R, Patnaik SK, Yendamuri S., J Carcinog 9(), 2010
PMID: 20808843
Folding and finding RNA secondary structure.
Mathews DH, Moss WN, Turner DH., Cold Spring Harb Perspect Biol 2(12), 2010
PMID: 20685845
Computational analysis of microRNA function in heart development.
Liu G, Ding M, Chen J, Huang J, Wang H, Jing Q, Shen B., Acta Biochim Biophys Sin (Shanghai) 42(9), 2010
PMID: 20716610
Strong inverse correlation between microRNA-125b and human papillomavirus DNA in productive infection.
Nuovo GJ, Wu X, Volinia S, Yan F, di Leva G, Chin N, Nicol AF, Jiang J, Otterson G, Schmittgen TD, Croce C., Diagn Mol Pathol 19(3), 2010
PMID: 20736742
RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming.
Kato Y, Sato K, Hamada M, Watanabe Y, Asai K, Akutsu T., Bioinformatics 26(18), 2010
PMID: 20823308
MicroRNA binding site polymorphisms as biomarkers of cancer risk.
Pelletier C, Weidhaas JB., Expert Rev Mol Diagn 10(6), 2010
PMID: 20843204
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.
Dalloul RA, Long JA, Zimin AV, Aslam L, Beal K, Blomberg Le Ann, Bouffard P, Burt DW, Crasta O, Crooijmans RP, Cooper K, Coulombe RA, De S, Delany ME, Dodgson JB, Dong JJ, Evans C, Frederickson KM, Flicek P, Florea L, Folkerts O, Groenen MA, Harkins TT, Herrero J, Hoffmann S, Megens HJ, Jiang A, de Jong P, Kaiser P, Kim H, Kim KW, Kim S, Langenberger D, Lee MK, Lee T, Mane S, Marcais G, Marz M, McElroy AP, Modise T, Nefedov M, Notredame C, Paton IR, Payne WS, Pertea G, Prickett D, Puiu D, Qioa D, Raineri E, Ruffier M, Salzberg SL, Schatz MC, Scheuring C, Schmidt CJ, Schroeder S, Searle SM, Smith EJ, Smith J, Sonstegard TS, Stadler PF, Tafer H, Tu ZJ, Van Tassell CP, Vilella AJ, Williams KP, Yorke JA, Zhang L, Zhang HB, Zhang X, Zhang Y, Reed KM., PLoS Biol 8(9), 2010
PMID: 20838655
Improving performance of mammalian microRNA target prediction.
Liu H, Yue D, Chen Y, Gao SJ, Huang Y., BMC Bioinformatics 11(), 2010
PMID: 20860840
Functional genetic variants in the 3'-untranslated region of sulfotransferase isoform 1A1 (SULT1A1) and their effect on enzymatic activity.
Yu X, Dhakal IB, Beggs M, Edavana VK, Williams S, Zhang X, Mercer K, Ning B, Lang NP, Kadlubar FF, Kadlubar S., Toxicol Sci 118(2), 2010
PMID: 20881232
MicroRNA expression profiles of porcine skeletal muscle.
Zhou B, Liu HL, Shi FX, Wang JY., Anim Genet 41(5), 2010
PMID: 20331612
MicroSNiPer: a web tool for prediction of SNP effects on putative microRNA targets.
Barenboim M, Zoltick BJ, Guo Y, Weinberger DR., Hum Mutat 31(11), 2010
PMID: 20809528
Computational approaches for RNA energy parameter estimation.
Andronescu M, Condon A, Hoos HH, Mathews DH, Murphy KP., RNA 16(12), 2010
PMID: 20940338
MicroRNAs are dynamically regulated in hypertrophic hearts, and miR-199a is essential for the maintenance of cell size in cardiomyocytes.
Song XW, Li Q, Lin L, Wang XC, Li DF, Wang GK, Ren AJ, Wang YR, Qin YW, Yuan WJ, Jing Q., J Cell Physiol 225(2), 2010
PMID: 20458739
Toward a complete in silico, multi-layered embryonic stem cell regulatory network.
Xu H, Schaniel C, Lemischka IR, Ma'ayan A., Wiley Interdiscip Rev Syst Biol Med 2(6), 2010
PMID: 20890967
A study of miRNAs targets prediction and experimental validation.
Huang Y, Zou Q, Song H, Song F, Wang L, Zhang G, Shen X., Protein Cell 1(11), 2010
PMID: 21153515
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Papenfort K, Bouvier M, Mika F, Sharma CM, Vogel J., Proc Natl Acad Sci U S A 107(47), 2010
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Involvement of microRNAs in physiological and pathological processes in the lung.
Tomankova T, Petrek M, Kriegova E., Respir Res 11(), 2010
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Characterization of plant miRNAs and small RNAs derived from potato spindle tuber viroid (PSTVd) in infected tomato.
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MicroRNA-298 and microRNA-328 regulate expression of mouse beta-amyloid precursor protein-converting enzyme 1.
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Hausser J, Berninger P, Rodak C, Jantscher Y, Wirth S, Zavolan M., Nucleic Acids Res 37(web server issue), 2009
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Reexamining microRNA site accessibility in Drosophila: a population genomics study.
Chen K, Maaskola J, Siegal ML, Rajewsky N., PLoS One 4(5), 2009
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Transcriptome-wide prediction of miRNA targets in human and mouse using FASTH.
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Interfering ribonucleic acids that suppress expression of multiple unrelated genes.
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Human microRNA target analysis and gene ontology clustering by GOmir, a novel stand-alone application.
Roubelakis MG, Zotos P, Papachristoudis G, Michalopoulos I, Pappa KI, Anagnou NP, Kossida S., BMC Bioinformatics 10 Suppl 6(), 2009
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MicroRNAs and apoptosis: implications in the molecular therapy of human disease.
Yang BF, Lu YJ, Wang ZG., Clin Exp Pharmacol Physiol 36(10), 2009
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Down-regulation of miR-133a contributes to up-regulation of Rhoa in bronchial smooth muscle cells.
Chiba Y, Tanabe M, Goto K, Sakai H, Misawa M., Am J Respir Crit Care Med 180(8), 2009
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Down-regulation of miR-17 family expression in response to retinoic acid induced neuronal differentiation.
Beveridge NJ, Tooney PA, Carroll AP, Tran N, Cairns MJ., Cell Signal 21(12), 2009
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The role of miR-124a in early development of the Xenopus eye.
Qiu R, Liu K, Liu Y, Mo W, Flynt AS, Patton JG, Kar A, Wu JY, He R., Mech Dev 126(10), 2009
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Incomplete penetrance and variable expressivity: is there a microRNA connection?
Ahluwalia JK, Hariharan M, Bargaje R, Pillai B, Brahmachari V., Bioessays 31(9), 2009
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Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA.
Papenfort K, Said N, Welsink T, Lucchini S, Hinton JCD, Vogel J., Mol Microbiol 74(1), 2009
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Accurate microRNA target prediction correlates with protein repression levels.
Maragkakis M, Alexiou P, Papadopoulos GL, Reczko M, Dalamagas T, Giannopoulos G, Goumas G, Koukis E, Kourtis K, Simossis VA, Sethupathy P, Vergoulis T, Koziris N, Sellis T, Tsanakas P, Hatzigeorgiou AG., BMC Bioinformatics 10(), 2009
PMID: 19765283
Activation of gene expression by small RNA.
Fröhlich KS, Vogel J., Curr Opin Microbiol 12(6), 2009
PMID: 19880344
Modulation of LMP2A expression by a newly identified Epstein-Barr virus-encoded microRNA miR-BART22.
Lung RW, Tong JH, Sung YM, Leung PS, Ng DC, Chau SL, Chan AW, Ng EK, Lo KW, To KF., Neoplasia 11(11), 2009
PMID: 19881953
A trans-acting riboswitch controls expression of the virulence regulator PrfA in Listeria monocytogenes.
Loh E, Dussurget O, Gripenland J, Vaitkevicius K, Tiensuu T, Mandin P, Repoila F, Buchrieser C, Cossart P, Johansson J., Cell 139(4), 2009
PMID: 19914169
Survey of Computational Algorithms for MicroRNA Target Prediction.
Yue D, Liu H, Huang Y., Curr Genomics 10(7), 2009
PMID: 20436875
Transgenic microRNA inhibition with spatiotemporal specificity in intact organisms.
Loya CM, Lu CS, Van Vactor D, Fulga TA., Nat Methods 6(12), 2009
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Role of microRNAs in the regulation of drug metabolism and disposition.
Yu AM., Expert Opin Drug Metab Toxicol 5(12), 2009
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Progress in miRNA target prediction and identification.
Xia W, Cao G, Shao N., Sci China C Life Sci 52(12), 2009
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Vir-Mir db: prediction of viral microRNA candidate hairpins.
Li SC, Shiau CK, Lin WC., Nucleic Acids Res 36(database issue), 2008
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Prediction of both conserved and nonconserved microRNA targets in animals.
Wang X, El Naqa IM., Bioinformatics 24(3), 2008
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The microRNA.org resource: targets and expression.
Betel D, Wilson M, Gabow A, Marks DS, Sander C., Nucleic Acids Res 36(database issue), 2008
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Distinctive microRNA signature of acute myeloid leukemia bearing cytoplasmic mutated nucleophosmin.
Garzon R, Garofalo M, Martelli MP, Briesewitz R, Wang L, Fernandez-Cymering C, Volinia S, Liu CG, Schnittger S, Haferlach T, Liso A, Diverio D, Mancini M, Meloni G, Foa R, Martelli MF, Mecucci C, Croce CM, Falini B., Proc Natl Acad Sci U S A 105(10), 2008
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The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
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Systematic deletion of Salmonella small RNA genes identifies CyaR, a conserved CRP-dependent riboregulator of OmpX synthesis.
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RNAplex: a fast tool for RNA-RNA interaction search.
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GeneFisher-P: variations of GeneFisher as processes in Bio-jETI.
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MicroRNA-9 directs late organizer activity of the midbrain-hindbrain boundary.
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Common SNP in pre-miR-146a decreases mature miR expression and predisposes to papillary thyroid carcinoma.
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TargetRNA: a tool for predicting targets of small RNA action in bacteria.
Tjaden B., Nucleic Acids Res 36(web server issue), 2008
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MicroRNA switches in Trypanosoma brucei.
Mallick B, Ghosh Z, Chakrabarti J., Biochem Biophys Res Commun 372(3), 2008
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Identification and characteristics of microRNAs from Bombyx mori.
He PA, Nie Z, Chen J, Chen J, Lv Z, Sheng Q, Zhou S, Gao X, Kong L, Wu X, Jin Y, Zhang Y., BMC Genomics 9(), 2008
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MicroRNA 21 promotes glioma invasion by targeting matrix metalloproteinase regulators.
Gabriely G, Wurdinger T, Kesari S, Esau CC, Burchard J, Linsley PS, Krichevsky AM., Mol Cell Biol 28(17), 2008
PMID: 18591254
Mouse let-7 miRNA populations exhibit RNA editing that is constrained in the 5'-seed/ cleavage/anchor regions and stabilize predicted mmu-let-7a:mRNA duplexes.
Reid JG, Nagaraja AK, Lynn FC, Drabek RB, Muzny DM, Shaw CA, Weiss MK, Naghavi AO, Khan M, Zhu H, Tennakoon J, Gunaratne GH, Corry DB, Miller J, McManus MT, German MS, Gibbs RA, Matzuk MM, Gunaratne PH., Genome Res 18(10), 2008
PMID: 18614752
A set of differentially expressed miRNAs, including miR-30a-5p, act as post-transcriptional inhibitors of BDNF in prefrontal cortex.
Mellios N, Huang HS, Grigorenko A, Rogaev E, Akbarian S., Hum Mol Genet 17(19), 2008
PMID: 18632683
A new Vibrio cholerae sRNA modulates colonization and affects release of outer membrane vesicles.
Song T, Mika F, Lindmark B, Liu Z, Schild S, Bishop A, Zhu J, Camilli A, Johansson J, Vogel J, Wai SN., Mol Microbiol 70(1), 2008
PMID: 18681937
miR-122 targets an anti-apoptotic gene, Bcl-w, in human hepatocellular carcinoma cell lines.
Lin CJ, Gong HY, Tseng HC, Wang WL, Wu JL., Biochem Biophys Res Commun 375(3), 2008
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A C. elegans genome-scale microRNA network contains composite feedback motifs with high flux capacity.
Martinez NJ, Ow MC, Barrasa MI, Hammell M, Sequerra R, Doucette-Stamm L, Roth FP, Ambros VR, Walhout AJ., Genes Dev 22(18), 2008
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mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts.
Hammell M, Long D, Zhang L, Lee A, Carmack CS, Han M, Ding Y, Ambros V., Nat Methods 5(9), 2008
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The microRNA miR-8 is a conserved negative regulator of Wnt signaling.
Kennell JA, Gerin I, MacDougald OA, Cadigan KM., Proc Natl Acad Sci U S A 105(40), 2008
PMID: 18824696
An Epstein-Barr virus-encoded microRNA targets PUMA to promote host cell survival.
Choy EY, Siu KL, Kok KH, Lung RW, Tsang CM, To KF, Kwong DL, Tsao SW, Jin DY., J Exp Med 205(11), 2008
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Sequence conservation and differential expression of Marek's disease virus microRNAs.
Morgan R, Anderson A, Bernberg E, Kamboj S, Huang E, Lagasse G, Isaacs G, Parcells M, Meyers BC, Green PJ, Burnside J., J Virol 82(24), 2008
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Prediction of human miRNAs using tissue-selective motifs in 3' UTRs.
Chang YM, Juan HF, Lee TY, Chang YY, Yeh YM, Li WH, Shih AC., Proc Natl Acad Sci U S A 105(44), 2008
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Small RNA gene identification and mRNA target predictions in bacteria.
Pichon C, Felden B., Bioinformatics 24(24), 2008
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Small RNA binding to 5' mRNA coding region inhibits translational initiation.
Bouvier M, Sharma CM, Mika F, Nierhaus KH, Vogel J., Mol Cell 32(6), 2008
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Single nucleotide polymorphisms concordant with the horned/polled trait in Holsteins.
Cargill EJ, Nissing NJ, Grosz MD., BMC Res Notes 1(), 2008
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Investigation of G72 (DAOA) expression in the human brain.
Benzel I, Kew JN, Viknaraja R, Kelly F, de Belleroche J, Hirsch S, Sanderson TH, Maycox PR., BMC Psychiatry 8(), 2008
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MiRTif: a support vector machine-based microRNA target interaction filter.
Yang Y, Wang YP, Li KB., BMC Bioinformatics 9 Suppl 12(), 2008
PMID: 19091027
HuMiTar: a sequence-based method for prediction of human microRNA targets.
Ruan J, Chen H, Kurgan L, Chen K, Kang C, Pu P., Algorithms Mol Biol 3(), 2008
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microRNAs as oncogenes and tumor suppressors.
Zhang B, Pan X, Cobb GP, Anderson TA., Dev Biol 302(1), 2007
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Regulation of mRNA stability through a pentobarbital-responsive element.
Akgül B, Tu CP., Arch Biochem Biophys 459(1), 2007
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ViTa: prediction of host microRNAs targets on viruses.
Hsu PW, Lin LZ, Hsu SD, Hsu JB, Huang HD., Nucleic Acids Res 35(database issue), 2007
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The impact of small RNAs. Microsymposium on small RNAs.
Obernosterer G, Meister G, Poy MN, Kuras A., EMBO Rep 8(1), 2007
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MicroRNAs regulate the expression of the alternative splicing factor nPTB during muscle development.
Boutz PL, Chawla G, Stoilov P, Black DL., Genes Dev 21(1), 2007
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RNAs everywhere: genome-wide annotation of structured RNAs.
Athanasius F Bompfünewerer Consortium, Backofen R, Bernhart SH, Flamm C, Fried C, Fritzsch G, Hackermüller J, Hertel J, Hofacker IL, Missal K, Mosig A, Prohaska SJ, Rose D, Stadler PF, Tanzer A, Washietl S, Will S., J Exp Zool B Mol Dev Evol 308(1), 2007
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Comparative genomics of small RNAs in bacterial genomes.
Luban S, Kihara D., OMICS 11(1), 2007
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MicroRNAs and their regulatory roles in animals and plants.
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Retained introns increase putative microRNA targets within 3' UTRs of human mRNA.
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Evidence for the rapid expansion of microRNA-mediated regulation in early land plant evolution.
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Improving the prediction of human microRNA target genes by using ensemble algorithm.
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Principles and limitations of computational microRNA gene and target finding.
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The human angiotensin II type 1 receptor +1166 A/C polymorphism attenuates microRNA-155 binding.
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MicroRNA targeting specificity in mammals: determinants beyond seed pairing.
Grimson A, Farh KK, Johnston WK, Garrett-Engele P, Lim LP, Bartel DP., Mol Cell 27(1), 2007
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miRNomics-The bioinformatics of microRNA genes.
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Computational analysis of microRNA-mediated antiviral defense in humans.
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miRNA genetic alterations in human cancers.
Giannakakis A, Coukos G, Hatzigeorgiou A, Sandaltzopoulos R, Zhang L., Expert Opin Biol Ther 7(9), 2007
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MicroRNA regulation of cyclooxygenase-2 during embryo implantation.
Chakrabarty A, Tranguch S, Daikoku T, Jensen K, Furneaux H, Dey SK., Proc Natl Acad Sci U S A 104(38), 2007
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Kaposi's sarcoma-associated herpesvirus encodes an ortholog of miR-155.
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The role of site accessibility in microRNA target recognition.
Kertesz M, Iovino N, Unnerstall U, Gaul U, Segal E., Nat Genet 39(10), 2007
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How microRNAs choose their targets.
Hofacker IL., Nat Genet 39(10), 2007
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The conserved microRNA miR-8 tunes atrophin levels to prevent neurodegeneration in Drosophila.
Karres JS, Hilgers V, Carrera I, Treisman J, Cohen SM., Cell 131(1), 2007
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An RNA targeted to the HIV-1 LTR promoter modulates indiscriminate off-target gene activation.
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A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome.
Pfeiffer V, Sittka A, Tomer R, Tedin K, Brinkmann V, Vogel J., Mol Microbiol 66(5), 2007
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Computational prediction and experimental validation of Ciona intestinalis microRNA genes.
Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T., BMC Genomics 8(), 2007
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Computational identification of microRNAs and their targets.
Yoon S, De Micheli G., Birth Defects Res C Embryo Today 78(2), 2006
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CrossLink: visualization and exploration of sequence relationships between (micro) RNAs.
Dezulian T, Schaefer M, Wiese R, Weigel D, Huson DH., Nucleic Acids Res 34(web server issue), 2006
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RNAhybrid: microRNA target prediction easy, fast and flexible.
Krüger J, Rehmsmeier M., Nucleic Acids Res 34(web server issue), 2006
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Bioinformatic discovery of microRNA precursors from human ESTs and introns.
Li SC, Pan CY, Lin WC., BMC Genomics 7(), 2006
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A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes.
Miranda KC, Huynh T, Tay Y, Ang YS, Tam WL, Thomson AM, Lim B, Rigoutsos I., Cell 126(6), 2006
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Gene expression profiles distinguish the carcinogenic effects of aristolochic acid in target (kidney) and non-target (liver) tissues in rats.
Chen T, Guo L, Zhang L, Shi L, Fang H, Sun Y, Fuscoe JC, Mei N., BMC Bioinformatics 7 Suppl 2(), 2006
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miTarget: microRNA target gene prediction using a support vector machine.
Kim SK, Nam JW, Rhee JK, Lee WJ, Zhang BT., BMC Bioinformatics 7(), 2006
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Host-virus interaction: a new role for microRNAs.
Scaria V, Hariharan M, Maiti S, Pillai B, Brahmachari SK., Retrovirology 3(), 2006
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The blossoming of RNA biology: Novel insights from plant systems.
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Non coding RNA and brain.
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A guide through present computational approaches for the identification of mammalian microRNA targets.
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Computational identification of microRNAs and their targets.
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The role of microRNAs in cancer.
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MicroTar: predicting microRNA targets from RNA duplexes.
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MiRNA-directed regulation of VEGF and other angiogenic factors under hypoxia.
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AUTHOR UNKNOWN, 2003
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