Methods
[Construction of an expression vector for high expression of siRNA]
Li HJ, Zheng XJ, Zhang WF, Bian Y, Wang DY, Zhao JL, Xia HB.
Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 2007 Dec;23(12):1117-8.
Construction and identification of a human liver specific microRNA eukaryotic expression vector.
Chen S, Ni M, Yu B, Lv T, Lu M, Gong F.
Cell Mol Immunol. 2007 Dec;4(6):473-7.
Endogenous microRNA can be broadly exploited to regulate transgene expression according to tissue, lineage and differentiation state.
Brown BD, Gentner B, Cantore A, Colleoni S, Amendola M, Zingale A, Baccarini A, Lazzari G, Galli C, Naldini L.
Nat Biotechnol. 2007 Dec;25(12):1457-67.
Primer extension-based method for the generation of a siRNA/miRNA expression vector.
Gou D, Zhang H, Baviskar PS, Liu L.
Physiol Genomics. 2007 Nov 14;31(3):554-62.
Functional screening identifies miR-315 as a potent activator of Wingless signaling.
Silver SJ, Hagen JW, Okamura K, Perrimon N, Lai EC.
Proc Natl Acad Sci U S A. 2007 Nov 13;104(46):18151-6.
Transgenic inhibitors of RNA interference in Drosophila.
Chou YT, Tam B, Linay F, Lai EC.
Fly (Austin). 2007 Nov-Dec;1(6):311-6.
A versatile approach to multiple gene RNA interference using microRNA-based short hairpin RNAs.
Zhu X, Santat LA, Chang MS, Liu J, Zavzavadjian JR, Wall EA, Kivork C, Simon MI, Fraser ID.
BMC Mol Biol. 2007 Oct 30;8:98.
Analysis of microRNA effector functions in vitro.
Wang B, Doench JG, Novina CD.
Methods. 2007 Oct;43(2):91-104.
In vitro analysis of microRNA processing using recombinant Dicer and cytoplasmic extracts of HeLa cells.
Leuschner PJ, Martinez J.
Methods. 2007 Oct;43(2):105-9.
Construction of small RNA cDNA libraries for deep sequencing.
Lu C, Meyers BC, Green PJ.
Methods. 2007 Oct;43(2):110-7.
mRAP, a sensitive method for determination of microRNA expression profiles.
Mano H, Takada S.
Methods. 2007 Oct;43(2):118-22.
Identifying expression of new small RNAs by microarrays.
Yin JQ, Zhao RC.
Methods. 2007 Oct;43(2):123-30.
Computational approaches for the discovery of bacterial small RNAs.
Kulkarni RV, Kulkarni PR.
Methods. 2007 Oct;43(2):131-9.
Detection of microRNAs by Northern blot analyses using LNA probes.
Várallyay E, Burgyán J, Havelda Z.
Methods. 2007 Oct;43(2):140-5.
miChip: a microarray platform for expression profiling of microRNAs based on locked nucleic acid (LNA) oligonucleotide capture probes.
Castoldi M, Benes V, Hentze MW, Muckenthaler MU.
Methods. 2007 Oct;43(2):146-52.
Analysis of microRNA expression by in situ hybridization with RNA oligonucleotide probes.
Thompson RC, Deo M, Turner DL.
Methods. 2007 Oct;43(2):153-61.
Isolation of microRNA targets using biotinylated synthetic microRNAs.
Orom UA, Lund AH.
Methods. 2007 Oct;43(2):162-5.
A simple array platform for microRNA analysis and its application in mouse tissues.
Tang X, Gal J, Zhuang X, Wang W, Zhu H, Tang G.
RNA. 2007 Oct;13(10):1803-22.
Systematic analysis of microRNA expression of RNA extracted from fresh frozen and formalin-fixed paraffin-embedded samples.
Xi Y, Nakajima G, Gavin E, Morris CG, Kudo K, Hayashi K, Ju J.
RNA. 2007 Oct;13(10):1668-74.
Isolation of microarray-grade total RNA, microRNA, and DNA from a single PAXgene blood RNA tube.
Kruhøffer M, Dyrskjøt L, Voss T, Lindberg RL, Wyrich R, Thykjaer T, Orntoft TF.
J Mol Diagn. 2007 Sep;9(4):452-8.
MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells.
Ebert MS, Neilson JR, Sharp PA.
Nat Methods. 2007 Sep;4(9):721-6.
[Progress of RNA amplification]
Li YN, Hu YK, Zhang ZF.
Yi Chuan. 2007 Aug;29(8):907-14.
Diverse ways to control p27Kip1 function: miRNAs come into play.
le Sage C, Nagel R, Agami R.
Cell Cycle. 2007 Aug;6(22):2742-9.
Novel approaches for gene-specific interference via manipulating actions of microRNAs: examination on the pacemaker channel genes
HCN2 and HCN4.
Xiao J, Yang B, Lin H, Lu Y, Luo X, Wang Z.
J Cell Physiol. 2007 Aug;212(2):285-92.
Isolation of microRNA targets by miRNP immunopurification.
Easow G, Teleman AA, Cohen SM.
RNA. 2007 Aug;13(8):1198-204.
A microarray for microRNA profiling in mouse testis tissues.
Yan N, Lu Y, Sun H, Tao D, Zhang S, Liu W, Ma Y.
Reproduction. 2007 Jul;134(1):73-9.
Comparison of miRNA expression patterns using total RNA extracted from matched samples of formalin-fixed paraffin-embedded (FFPE)
cells and snap frozen cells.
Li J, Smyth P, Flavin R, Cahill S, Denning K, Aherne S, Guenther SM, O'Leary JJ, Sheils O.
BMC Biotechnol. 2007 Jun 29;7:36.
A rapid, quantitative assay for direct detection of microRNAs and other small RNAs using splinted ligation.
Maroney PA, Chamnongpol S, Souret F, Nilsen TW.
RNA. 2007 Jun;13(6):930-6.
Detection of MicroRNAs using target-guided formation of conducting polymer nanowires in nanogaps.
Fan Y, Chen X, Trigg AD, Tung CH, Kong J, Gao Z.
J Am Chem Soc. 2007 May 2;129(17):5437-43.
A facile lentiviral vector system for expression of doxycycline-inducible shRNAs: knockdown of the pre-miRNA processing enzyme Drosha.
Aagaard L, Amarzguioui M, Sun G, Santos LC, Ehsani A, Prydz H, Rossi JJ.
Mol Ther. 2007 May;15(5):938-45.
Double-stranded regions are essential design components of potent inhibitors of RISC function.
Vermeulen A, Robertson B, Dalby AB, Marshall WS, Karpilow J, Leake D, Khvorova A, Baskerville S.
RNA. 2007 May;13(5):723-30.
Hydrophobization and bioconjugation for enhanced siRNA delivery and targeting.
De Paula D, Bentley MV, Mahato RI.
RNA. 2007 Apr;13(4):431-56.
In situ detection of animal and plant microRNAs.
Wheeler G, Valoczi A, Havelda Z, Dalmay T.
DNA Cell Biol. 2007 Apr;26(4):251-5.
Computing the partition function and sampling for saturated secondary structures of RNA, with respect to the Turner energy model.
Waldispuhl J, Clote P.
J Comput Biol. 2007 Mar;14(2):190-215.
Instability of miRNA and cDNAs derivatives in RNA preparations.
Bravo V, Rosero S, Ricordi C, Pastori RL.
Biochem Biophys Res Commun. 2007 Feb 23;353(4):1052-5.
[Real-time quantification of microRNAs by RNA-tailing and primer-extension RT-PCR]
Zhang Q, He XJ, Pan XY.
Beijing Da Xue Xue Bao. 2007 Feb 18;39(1):87-91.
Direct labeling microRNA with an electrocatalytic moiety and its application in ultrasensitive microRNA assays.
Gao Z, Yu YH.
Biosens Bioelectron. 2007 Jan 15;22(6):933-40.
Regulation of microRNA by antagomirs: a new class of pharmacological antagonists for the specific regulation of gene function?
Mattes J, Yang M, Foster PS.
Am J Respir Cell Mol Biol. 2007 Jan;36(1):8-12.
Direct and sensitive miRNA profiling from low-input total RNA.
Wang H, Ach RA, Curry B.
RNA. 2007 Jan;13(1):151-9.
Real time PCR profiling of 330 human micro-RNAs.
Lao K, Xu NL, Sun YA, Livak KJ, Straus NA.
Biotechnol J. 2007 Jan;2(1):33-5.
GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and
microRNA encoding genes conserved between mouse and human gene orthologs.
Jegga AG, Chen J, Gowrisankar S, Deshmukh MA, Gudivada R, Kong S, Kaimal V, Aronow BJ.
Nucleic Acids Res. 2007 Jan;35(Database issue):D116-21.
In vitro and in vivo assays for the activity of Drosha complex.
Lee Y, Kim VN.
Methods Enzymol. 2007;427:89-106.
Microarray analysis of miRNA gene expression.
Thomson JM, Parker JS, Hammond SM.
Methods Enzymol. 2007;427:107-22.
Cloning and detecting signature microRNAs from mammalian cells.
Sun G, Li H, Rossi JJ.
Methods Enzymol. 2007;427:123-38.
Approaches for studying microRNA and small interfering RNA methylation in vitro and in vivo.
Yang Z, Vilkaitis G, Yu B, Klimasauskas S, Chen X.
Methods Enzymol. 2007;427:139-54.
Chemical synthesis of a very long RNA oligomer, a 110mer precursor-miRNA candidate, with 2-cyanoethoxymethyl (CEM) as the
2'-O-protecting group.
Masuda H, Shiba Y, Watanabe N, Takagaki K, Ishiyama K, Ohgi T, Yano J.
Nucleic Acids Symp Ser (Oxf). 2007;(51):3-4.
Recognition of target chain-length by use of oligonucleotides having bulky substituents at the terminal bases.
Takaku Y, Mizuta M, Ohkubo A, Sekine M, Seio K.
Nucleic Acids Symp Ser (Oxf). 2007;(51):283-4.
Ribonomic and short hairpin RNA gene silencing methods to explore functional gene programs associated with tumor growth arrest.
Baroni TE, Lastro MT, Ranganathan AC, Tenenbaum SA, Conklin DS, Aguirre-Ghiso JA.
Methods Mol Biol. 2007;383:227-44.
Automatic analysis of microRNA microarray images using mathematical morphology.
Meyenhofer F, Schaad O, Descombes P, Kocher M.
Conf Proc IEEE Eng Med Biol Soc. 2007;2007:6236-9.
A microarray-based method to profile global microRNA expression in human and mouse.
Perera RJ.
Methods Mol Biol. 2007;382:137-48.
microParaflo biochip for nucleic acid and protein analysis.
Zhu Q, Hong A, Sheng N, Zhang X, Matejko A, Jun KY, Srivannavit O, Gulari E, Gao X, Zhou X.
Methods Mol Biol. 2007;382:287-312.
Profiling of microRNA expression by mRAP.
Takada S, Mano H.
Nat Protoc. 2007;2(12):3136-45.
Detection of microRNAs in frozen tissue sections by fluorescence in situ hybridization using locked nucleic acid probes and tyramide
signal amplification.
Silahtaroglu AN, Nolting D, Dyrskjøt L, Berezikov E, Møller M, Tommerup N, Kauppinen S.
Nat Protoc. 2007;2(10):2520-8.
Lentivirus-mediated antagomir expression for specific inhibition of miRNA function.
Scherr M, Venturini L, Battmer K, Schaller-Schoenitz M, Schaefer D, Dallmann I, Ganser A, Eder M.
Nucleic Acids Res. 2007;35(22):e149.
RNA as a versatile and powerful platform for engineering genetic regulatory tools.
Win MN, Smolke CD.
Biotechnol Genet Eng Rev. 2007;24:311-46.
Applications of RNA interference in mammalian systems.
Martin SE, Caplen NJ.
Annu Rev Genomics Hum Genet. 2007;8:81-108.
Methods to analyze microRNA-mediated control of mRNA translation.
Clancy JL, Nousch M, Humphreys DT, Westman BJ, Beilharz TH, Preiss T.
Methods Enzymol. 2007;431:83-111.
Rapid conditional knock-down-knock-in system for mammalian cells.
Holzel M, Rohrmoser M, Orban M, Homig C, Harasim T, Malamoussi A, Gruber-Eber A, Heissmeyer V, Bornkamm G, Eick D.
Nucleic Acids Res. 2007;35(3):e17.
Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot.
Pall GS, Codony-Servat C, Byrne J, Ritchie L, Hamilton A.
Nucleic Acids Res. 2007;35(8):e60.
Specificity, duplex degradation and subcellular localization of antagomirs.
Krutzfeldt J, Kuwajima S, Braich R, Rajeev KG, Pena J, Tuschl T, Manoharan M, Stoffel M.
Nucleic Acids Res. 2007;35(9):2885-92.
Chemical synthesis of a very long oligoribonucleotide with 2-cyanoethoxymethyl (CEM) as the 2'-O-protecting group: structural identification
and biological activity of a synthetic 110mer precursor-microRNA candidate.
Shiba Y, Masuda H, Watanabe N, Ego T, Takagaki K, Ishiyama K, Ohgi T, Yano J.
Nucleic Acids Res. 2007;35(10):3287-96.
Locked nucleic acid-based in situ detection of microRNAs in mouse tissue sections.
Obernosterer G, Martinez J, Alenius M.
Nat Protoc. 2007;2(6):1508-14.