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Items: 1 to 50 of 80

1.

High-Quality Overlapping Paired-End Reads for the Detection of A-to-I Editing on Small RNA.

Galipon J, Ishii R, Ishiguro S, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K.

Methods Mol Biol. 2018;1823:167-183. doi: 10.1007/978-1-4939-8624-8_13.

PMID:
29959681
2.

Base-pairing probability in the microRNA stem region affects the binding and editing specificity of human A-to-I editing enzymes ADAR1-p110 and ADAR2.

Ishiguro S, Galipon J, Ishii R, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K.

RNA Biol. 2018 Jun 27. doi: 10.1080/15476286.2018.1486658. [Epub ahead of print]

PMID:
29950133
3.

LGP2 virus sensor regulates gene expression network mediated by TRBP-bound microRNAs.

Takahashi T, Nakano Y, Onomoto K, Murakami F, Komori C, Suzuki Y, Yoneyama M, Ui-Tei K.

Nucleic Acids Res. 2018 Jun 25. doi: 10.1093/nar/gky575. [Epub ahead of print]

PMID:
29939295
4.

Chemical Modification of the siRNA Seed Region Suppresses Off-Target Effects by Steric Hindrance to Base-Pairing with Targets.

Iribe H, Miyamoto K, Takahashi T, Kobayashi Y, Leo J, Aida M, Ui-Tei K.

ACS Omega. 2017 May 31;2(5):2055-2064. doi: 10.1021/acsomega.7b00291. Epub 2017 May 12.

5.

Ouabagenin is a naturally occurring LXR ligand without causing hepatic steatosis as a side effect.

Tamura S, Okada M, Kato S, Shinoda Y, Shioda N, Fukunaga K, Ui-Tei K, Ueda M.

Sci Rep. 2018 Feb 2;8(1):2305. doi: 10.1038/s41598-018-20663-z.

6.

Computational Prediction of CRISPR/Cas9 Target Sites Reveals Potential Off-Target Risks in Human and Mouse.

Wang Q, Ui-Tei K.

Methods Mol Biol. 2017;1630:43-53. doi: 10.1007/978-1-4939-7128-2_4.

PMID:
28643248
7.

Comprehensive Identification of Nuclear and Cytoplasmic TNRC6A-Associating Proteins.

Suzawa M, Noguchi K, Nishi K, Kozuka-Hata H, Oyama M, Ui-Tei K.

J Mol Biol. 2017 Oct 27;429(21):3319-3333. doi: 10.1016/j.jmb.2017.04.017. Epub 2017 May 3.

PMID:
28478284
8.

Differential Binding of Three Major Human ADAR Isoforms to Coding and Long Non-Coding Transcripts.

Galipon J, Ishii R, Suzuki Y, Tomita M, Ui-Tei K.

Genes (Basel). 2017 Feb 11;8(2). pii: E68. doi: 10.3390/genes8020068.

9.

Enhancement of single guide RNA transcription for efficient CRISPR/Cas-based genomic engineering.

Ui-Tei K, Maruyama S, Nakano Y.

Genome. 2017 Jun;60(6):537-545. doi: 10.1139/gen-2016-0127. Epub 2017 Jan 26.

PMID:
28177825
10.

RNAi-mediated knockdown of mouse melanocortin-4 receptor in vitro and in vivo, using an siRNA expression construct based on the mir-187 precursor.

Kato M, Huang YY, Matsuo M, Takashina Y, Sasaki K, Horai Y, Juni A, Kamijo SI, Saigo K, Ui-Tei K, Tei H.

Exp Anim. 2017 Jan 27;66(1):41-50. doi: 10.1538/expanim.16-0065. Epub 2016 Sep 30.

11.

Is the Efficiency of RNA Silencing Evolutionarily Regulated?

Ui-Tei K.

Int J Mol Sci. 2016 May 12;17(5). pii: E719. doi: 10.3390/ijms17050719. Review.

12.

The siRNA Non-seed Region and Its Target Sequences Are Auxiliary Determinants of Off-Target Effects.

Kamola PJ, Nakano Y, Takahashi T, Wilson PA, Ui-Tei K.

PLoS Comput Biol. 2015 Dec 11;11(12):e1004656. doi: 10.1371/journal.pcbi.1004656. eCollection 2015 Dec.

13.

Control of the localization and function of a miRNA silencing component TNRC6A by Argonaute protein.

Nishi K, Takahashi T, Suzawa M, Miyakawa T, Nagasawa T, Ming Y, Tanokura M, Ui-Tei K.

Nucleic Acids Res. 2015 Nov 16;43(20):9856-73. doi: 10.1093/nar/gkv1026. Epub 2015 Oct 7.

14.

Fc gamma receptor IIb participates in maternal IgG trafficking of human placental endothelial cells.

Ishikawa T, Takizawa T, Iwaki J, Mishima T, Ui-Tei K, Takeshita T, Matsubara S, Takizawa T.

Int J Mol Med. 2015 May;35(5):1273-89. doi: 10.3892/ijmm.2015.2141. Epub 2015 Mar 17.

15.

CRISPRdirect: software for designing CRISPR/Cas guide RNA with reduced off-target sites.

Naito Y, Hino K, Bono H, Ui-Tei K.

Bioinformatics. 2015 Apr 1;31(7):1120-3. doi: 10.1093/bioinformatics/btu743. Epub 2014 Nov 20.

16.

A-to-I editing in the miRNA seed region regulates target mRNA selection and silencing efficiency.

Kume H, Hino K, Galipon J, Ui-Tei K.

Nucleic Acids Res. 2014 Sep;42(15):10050-60. doi: 10.1093/nar/gku662. Epub 2014 Jul 23.

17.

Interactions between the non-seed region of siRNA and RNA-binding RLC/RISC proteins, Ago and TRBP, in mammalian cells.

Takahashi T, Zenno S, Ishibashi O, Takizawa T, Saigo K, Ui-Tei K.

Nucleic Acids Res. 2014 Apr;42(8):5256-69. doi: 10.1093/nar/gku153. Epub 2014 Feb 20.

18.

Fluctuation of Rac1 activity is associated with the phenotypic and transcriptional heterogeneity of glioma cells.

Yukinaga H, Shionyu C, Hirata E, Ui-Tei K, Nagashima T, Kondo S, Okada-Hatakeyama M, Naoki H, Matsuda M.

J Cell Sci. 2014 Apr 15;127(Pt 8):1805-15. doi: 10.1242/jcs.139733. Epub 2014 Feb 12.

19.

Optimal choice of functional and off-target effect-reduced siRNAs for RNAi therapeutics.

Ui-Tei K.

Front Genet. 2013 Jun 11;4:107. doi: 10.3389/fgene.2013.00107. eCollection 2013. No abstract available.

20.

Fluctuation of global gene expression by endogenous miRNA response to the introduction of an exogenous miRNA.

Nagata Y, Shimizu E, Hibio N, Ui-Tei K.

Int J Mol Sci. 2013 May 27;14(6):11171-89. doi: 10.3390/ijms140611171.

21.

Distinguishable in vitro binding mode of monomeric TRBP and dimeric PACT with siRNA.

Takahashi T, Miyakawa T, Zenno S, Nishi K, Tanokura M, Ui-Tei K.

PLoS One. 2013 May 2;8(5):e63434. doi: 10.1371/journal.pone.0063434. Print 2013.

22.

Stability of miRNA 5'terminal and seed regions is correlated with experimentally observed miRNA-mediated silencing efficacy.

Hibio N, Hino K, Shimizu E, Nagata Y, Ui-Tei K.

Sci Rep. 2012;2:996. doi: 10.1038/srep00996. Epub 2012 Dec 18.

23.

IFPA Meeting 2012 Workshop Report I: comparative placentation and animal models, advanced techniques in placental histopathology, human pluripotent stem cells as a model for trophoblast differentiation.

Ackerman WE 4th, Carter AM, De Mestre AM, Golos TG, Jeschke U, Kusakabe K, Laurent LC, Parast MM, Roberts RM, Robinson JM, Rutherford J, Soma H, Takizawa T, Ui-Tei K, Lash GE.

Placenta. 2013 Mar;34 Suppl:S3-5. doi: 10.1016/j.placenta.2012.11.006. Epub 2012 Dec 1.

PMID:
23206905
24.

Human TNRC6A is an Argonaute-navigator protein for microRNA-mediated gene silencing in the nucleus.

Nishi K, Nishi A, Nagasawa T, Ui-Tei K.

RNA. 2013 Jan;19(1):17-35. doi: 10.1261/rna.034769.112. Epub 2012 Nov 13.

25.

Designing functional siRNA with reduced off-target effects.

Naito Y, Ui-Tei K.

Methods Mol Biol. 2013;942:57-68. doi: 10.1007/978-1-62703-119-6_3.

PMID:
23027045
26.

siRNA Design Software for a Target Gene-Specific RNA Interference.

Naito Y, Ui-Tei K.

Front Genet. 2012 Jun 11;3:102. doi: 10.3389/fgene.2012.00102. eCollection 2012.

27.

Thermodynamic Control of Small RNA-Mediated Gene Silencing.

Ui-Tei K, Nishi K, Takahashi T, Nagasawa T.

Front Genet. 2012 Jun 4;3:101. doi: 10.3389/fgene.2012.00101. eCollection 2012.

28.

E-cadherin is transcriptionally activated via suppression of ZEB1 transcriptional repressor by small RNA-mediated gene silencing.

Mazda M, Nishi K, Naito Y, Ui-Tei K.

PLoS One. 2011;6(12):e28688. doi: 10.1371/journal.pone.0028688. Epub 2011 Dec 21.

29.

Enhanced specificity of HPV16 E6E7 siRNA by RNA-DNA chimera modification.

Yamato K, Egawa N, Endo S, Ui-Tei K, Yamada T, Saigo K, Hyodo I, Kiyono T, Nakagawa I.

Cancer Gene Ther. 2011 Aug;18(8):587-97. doi: 10.1038/cgt.2011.28. Epub 2011 Jun 10.

PMID:
21660064
30.

LacdiNAc (GalNAcĪ²1-4GlcNAc) contributes to self-renewal of mouse embryonic stem cells by regulating leukemia inhibitory factor/STAT3 signaling.

Sasaki N, Shinomi M, Hirano K, Ui-Tei K, Nishihara S.

Stem Cells. 2011 Apr;29(4):641-50. doi: 10.1002/stem.615.

31.

Robust and photocontrollable DNA capsules using azobenzenes.

Tanaka F, Mochizuki T, Liang X, Asanuma H, Tanaka S, Suzuki K, Kitamura S, Nishikawa A, Ui-Tei K, Hagiya M.

Nano Lett. 2010 Sep 8;10(9):3560-5. doi: 10.1021/nl101829m.

PMID:
20669894
32.

Basic and clinical studies on functional RNA molecules for advanced medical technologies.

Takizawa T, Gemma A, Ui-Tei K, Aizawa Y, Sadovsky Y, Robinson JM, Seike M, Miyake K.

J Nippon Med Sch. 2010 Apr;77(2):71-9. Review.

33.

Sunspot, a link between Wingless signaling and endoreplication in Drosophila.

Taniue K, Nishida A, Hamada F, Sugie A, Oda T, Ui-Tei K, Tabata T, Akiyama T.

Development. 2010 May;137(10):1755-64. doi: 10.1242/dev.042077.

34.

Gene expression of Spag6 in chick central nervous system.

Hamada T, Teraoka M, Imaki J, Ui-Tei K, Ladher RK, Asahara T.

Anat Histol Embryol. 2010 Jun;39(3):227-32. doi: 10.1111/j.1439-0264.2010.01000.x. Epub 2010 Apr 6.

PMID:
20394600
35.

siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect.

Naito Y, Yoshimura J, Morishita S, Ui-Tei K.

BMC Bioinformatics. 2009 Nov 30;10:392. doi: 10.1186/1471-2105-10-392.

36.

Thermodynamic stability and Watson-Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect.

Ui-Tei K, Naito Y, Nishi K, Juni A, Saigo K.

Nucleic Acids Res. 2008 Dec;36(22):7100-9. doi: 10.1093/nar/gkn902. Epub 2008 Nov 6.

37.

Introduction of silencing-inducing transgene against Fgf19 does not affect expression of Tbx5 and beta3-tubulin in the developing chicken retina.

Okamoto M, Tomonari S, Naito Y, Saigo K, Noji S, Ui-Tei K, Ohuchi H.

Dev Growth Differ. 2008 Mar;50(3):159-68. doi: 10.1111/j.1440-169X.2008.00996.x. Epub 2008 Feb 27.

PMID:
18312426
38.

Functional dissection of siRNA sequence by systematic DNA substitution: modified siRNA with a DNA seed arm is a powerful tool for mammalian gene silencing with significantly reduced off-target effect.

Ui-Tei K, Naito Y, Zenno S, Nishi K, Yamato K, Takahashi F, Juni A, Saigo K.

Nucleic Acids Res. 2008 Apr;36(7):2136-51. doi: 10.1093/nar/gkn042. Epub 2008 Feb 11.

39.

New highly potent and specific E6 and E7 siRNAs for treatment of HPV16 positive cervical cancer.

Yamato K, Yamada T, Kizaki M, Ui-Tei K, Natori Y, Fujino M, Nishihara T, Ikeda Y, Nasu Y, Saigo K, Yoshinouchi M.

Cancer Gene Ther. 2008 Mar;15(3):140-53. Epub 2007 Dec 21.

PMID:
18157144
40.

Heparan sulfate regulates self-renewal and pluripotency of embryonic stem cells.

Sasaki N, Okishio K, Ui-Tei K, Saigo K, Kinoshita-Toyoda A, Toyoda H, Nishimura T, Suda Y, Hayasaka M, Hanaoka K, Hitoshi S, Ikenaka K, Nishihara S.

J Biol Chem. 2008 Feb 8;283(6):3594-606. Epub 2007 Nov 16.

41.

Optimal design and validation of antiviral siRNA for targeting HIV-1.

Naito Y, Nohtomi K, Onogi T, Uenishi R, Ui-Tei K, Saigo K, Takebe Y.

Retrovirology. 2007 Nov 8;4:80.

42.

17beta-estradiol at physiological concentrations augments Ca(2+) -activated K+ currents via estrogen receptor beta in the gonadotropin-releasing hormone neuronal cell line GT1-7.

Nishimura I, Ui-Tei K, Saigo K, Ishii H, Sakuma Y, Kato M.

Endocrinology. 2008 Feb;149(2):774-82. Epub 2007 Oct 25.

PMID:
17962348
43.

LARK activates posttranscriptional expression of an essential mammalian clock protein, PERIOD1.

Kojima S, Matsumoto K, Hirose M, Shimada M, Nagano M, Shigeyoshi Y, Hoshino S, Ui-Tei K, Saigo K, Green CB, Sakaki Y, Tei H.

Proc Natl Acad Sci U S A. 2007 Feb 6;104(6):1859-64. Epub 2007 Jan 30.

44.

Guidelines for the selection of effective short-interfering RNA sequences for functional genomics.

Ui-Tei K, Naito Y, Saigo K.

Methods Mol Biol. 2007;361:201-16.

PMID:
17172713
45.

Essential notes regarding the design of functional siRNAs for efficient mammalian RNAi.

Ui-Tei K, Naito Y, Saigo K.

J Biomed Biotechnol. 2006;2006(4):65052.

46.

siVirus: web-based antiviral siRNA design software for highly divergent viral sequences.

Naito Y, Ui-Tei K, Nishikawa T, Takebe Y, Saigo K.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W448-50.

47.

Molecular cloning and characterization of a novel 3'-phosphoadenosine 5'-phosphosulfate transporter, PAPST2.

Kamiyama S, Sasaki N, Goda E, Ui-Tei K, Saigo K, Narimatsu H, Jigami Y, Kannagi R, Irimura T, Nishihara S.

J Biol Chem. 2006 Apr 21;281(16):10945-53. Epub 2006 Feb 21.

48.

[Designing functional siRNA sequences].

Yamada T, Naito Y, Ui-Tei K, Morishita S, Saigo K.

Seikagaku. 2005 Dec;77(12):1519-25. Review. Japanese. No abstract available.

PMID:
16440758
49.

dsCheck: highly sensitive off-target search software for double-stranded RNA-mediated RNA interference.

Naito Y, Yamada T, Matsumiya T, Ui-Tei K, Saigo K, Morishita S.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W589-91.

50.

Requirements of genetic interactions between Src42A, armadillo and shotgun, a gene encoding E-cadherin, for normal development in Drosophila.

Takahashi M, Takahashi F, Ui-Tei K, Kojima T, Saigo K.

Development. 2005 Jun;132(11):2547-59. Epub 2005 Apr 27.

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