|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
LINK
Contact
Aomi 2-4-7, Koto-ku,
Tokyo 135-0064, JAPAN
Biomedicinal Information Research Center (BIRC)
Tel：+81-3-3599-8100
FAX：+81-3-3599-2064
mail：birc_webmaster_e@m.aist.go.jp
|
|
Functional RNomics Team
Functional RNomics Team is studying non-protein-coding RNAs, so-called ncRNAs,
which have been found in recent transcriptome analyses.
The aim of our group is to establish the bsic principle of
ncRNA functions and to identify the functional RNA species for medial application.
Our approach to the functionally unknown ncRNAs involves the development of novel bioinformatics tools and of new analytical technology,
and also the functional analyses utilizing such new technologies.
Functional RNA Research
ncRNAs, the transcripts lacking protein-coding potential,
are targeted for the research to discover novel functions of RNA with respect to physiological roles and regulatory mechanisms in gene expression.
Functional ncRNAs involved in various diseases or cell differentiation / regeneration are expected to be identified through our versatile approaches.
Basic information regarding intracellular localization and expression pattern of human ncRNAs has been obtained.
A novel gene knockdown system for functional analyses of the nuclear ncRNAs has been developed.
|
2011
|
Taurine-containing uridine modifications in tRNA anticodons are required to decipher non-universal genetic codes in ascidian mitochondria.
J Biol Chem. 286, pp.35494-35498.
Suzuki T, Miyauchi K, Suzuki T, Yokobori S, Shigi N, Kondow A, Takeuchi N, Yamagishi A, Watanabe K.
|
Architectural roles of long noncoding RNAs in the intranuclear formation of functional paraspeckles.
Frontier in Bioscience. in press.
Kawaguchi, T., Hirose, T.
|
Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice.
J. Cell Biol. 193, 31-39.
Nakagawa, S., Naganuma, T., Shioi, G., Hirose, T.
|
Gas5 gene. version 2.
Encyclopedia on Human Genome. e1-5.
Hirose, T.
|
|
2010
|
Thymus-specific noncoding RNA, Thy-ncR1, is a cytoplasmic riboregulator that facilitates hUPF1-dependent degradation of MFAP4 mRNA in specific T-cell leukemia cells.
BMC Mol Biol. 11, 99.
Aoki, K., Harashima, A., Sano, M. Yokoi, T., Nakamura, S., Kibata, M. Hirose, T.
|
Emerging roles of noncoding RNAs in subcellular architecture and gene expression. RNA technologies & Their applications.
RNA technologies & Their applications. Springer, 369-391.
Hirose, T.
|
|
2009
|
Efficient oligonucleotide-mediated degradation of nuclear noncoding RNAs in mammalian cultured cells.
RNA. 15, 1578-1587.
Ideue, T., Hino, K., Kitao, S., Yokoi, T., Hirose, T.
|
MEN ε / β noncoding RNAs are strucutural integrator of the nuclear body, paraspeckle.
Proc. Natl. Acad. Sci. USA. 106, 2525-2530.
Sasaki, Y.T., Ideue, T., Sano, M., Mitsuyama, T., Hirose, T.
|
How to build paraspeckles?
Genome Biol. 10, 227.1-227.5.
Sasaki, YT., Hirose, T.
|
Transcripts of unknown function in multiple-signaling pathways involved in human stem cell differentiation.
Nucleic Acid Res. 37, 4987-5000.
Kikuchi, K., Fukuda, M., Ito, T., Inoue, M., Yokoi, T., Chiku, S., Mitsuyama, T., Asai, K., Hirose, T., Aizawa, Y.
|
Biogenesis and functions of thio-compounds in transfer RNA: comparison of bacterial and eukaryotic thiolation machineries.
DNA and RNA modification enzymes. Landes Bioscience, 395-408
Noma A., Shigi N., Suzuki T.
|
|
2008
|
Common thiolation mechanism in the biosynthesis of tRNA thiouridine and sulphur-containing cofactors.
EMBO J. 27, 3267-3278.
Shigi, N., Sakaguchi, Y., Asai, S., Suzuki, T., Watanabe, K.
|
|
2007
|
Introns play an essential role in splicing-dependent formation of the exon junction complex.
Genes & Dev. 21, 1993-1998.
Ideue, T., Sasaki, Y.T., Hagiwara, M., Hirose, T.
|
Tissue-specific splicing regulator Fox-1 induces exon skipping by interfering E complex formation on the downstream intron of human F1γ gene.
Nucleic Acids Res. 35, 5303-5311.
Fukumura, K., Kato, A., Jin, Y., Ideue, T., Hirose, T., Kataoka, N., Fujiwara, T., Sakamoto, H., and Inoue K.
|
The Interaction between Cap-binding Complex and RNA Export Factor Is Required for Intronless mRNA Export.
J Biol Chem. 282, 15645-15651.
Nojima, T., Hirose, T., Kimura, H., Hagiwara M.
|
Identification and characterization of human non-coding RNAs with tissue-specific expression.
Biochem Biophys Res Commun. 357, 991-996.
Sasaki, Y.T., Sano, M., Ideue, T., Kin, T., Asai, K., Hirose, T.
|
Coordinated expression of ncRNAs and HOX mRNAs in the human HOXA locus.
Biochem Biophys Res Commun. 357, 724-730.
Sasaki, Y.T., Sano, M., Kin, T., Asai, K., Hirose, T.
|
Translation of psbC mRNAs starts from the downstream GUG, not the upstream AUG, and requires the extended Shine-Dalgarno sequence in tobacco chloroplasts.
Plant Cell Physiol. 48, 1374-1378.
Kuroda, H., Suzuki, H., Kusumegi, T., Hirose, T., Yukawa, Y., Sugiura, M.
|
|
2006
|
A spliceosomal intron binding protein, IBP160, links position-dependent assembly of intron-encoded box C/D snoRNP to pre-mRNA splicing.
Mol Cell. 23, 673-684.
Hirose, T., Ideue, T., Nagai, M., Hagiwara, M., Shu, M-D., Steitz, J.A.
|
Identification of two tRNA thiolation genes required for cell growth at extremely high temperatures.
J Biol Chem. 281, 14296-14306.
Shigi, N., Sakaguchi, Y., Suzuki, T., Watanabe, K.
|
Temperature-dependent biosynthesis of 2-thioribothymidine of Thermus thermophilus tRNA.
J Biol Chem. 281, 2104-2113.
Shigi, N., Suzuki, T., Terada, T., Shirouzu, M., Yokoyama, S., Watanabe, K.
|
Mechanistic insights into sulfur relay by multiple sulfur mediators involved in thiouridine biosynthesis at tRNA wobble positions.
Mol Cell. 21, 97-108.
Ikeuchi Y., Shigi N., Kato J., Nishimura A., Suzuki T.
|
|
