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Mr Yasuhiro Tomaru, Phd Researcher - LSA Technology Development Unit Phone: *81-45-5-8-7242 Email:  |
Link to OSC Main Activities: FANTOM Genome Network Functional RNA LSA
| Research Interest: |
Gene expression regulatory network analysis for understanding of differentiation and development with molecular level.
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Bibliography:
Nuclear pore complex protein mediated nuclear localization of dicer protein in human cells.
PLoS One 2011;6(8):e23385 Ando Y, Tomaru Y, Morinaga A, Burroughs AM, Kawaji H, Kubosaki A, Kimura R, Tagata M, Ino Y, Hirano H, Chiba J, Suzuki H, Carninci P, Hayashizaki Y
Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin.
RNA Biol 2011 Jan 1;8(1) Burroughs AM, Ando Y, Hoon ML, Tomaru Y, Suzuki H, Hayashizaki Y, Daub CO
Building promoter aware transcriptional regulatory networks using siRNA perturbation and deepCAGE.
Nucleic Acids Res 2010 Dec 1;38(22):8141-8 Vitezic M, Lassmann T, Forrest AR, Suzuki M, Tomaru Y, Kawai J, Carninci P, Suzuki H, Hayashizaki Y, Daub CO
Regulatory interdependence of myeloid transcription factors revealed by Matrix RNAi analysis.
Genome Biol 2009;10(11):R121 Tomaru Y, Simon C, Forrest AR, Miura H, Kubosaki A, Hayashizaki Y, Suzuki M
A comprehensive survey of 3' animal miRNA modification events and a possible role for 3' adenylation in modulating miRNA targeting effectiveness.
Genome Res 2010 Oct;20(10):1398-410 Burroughs AM, Ando Y, de Hoon MJ, Tomaru Y, Nishibu T, Ukekawa R, Funakoshi T, Kurokawa T, Suzuki H, Hayashizaki Y, Daub CO
The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells.
Mol Immunol 2010 Aug;47(14):2295-302 Kubosaki A, Lindgren G, Tagami M, Simon C, Tomaru Y, Miura H, Suzuki T, Arner E, Forrest AR, Irvine KM, Schroder K, Hasegawa Y, Kanamori-Katayama M, Rehli M, Hume DA, Kawai J, Suzuki M, Suzuki H, Hayashizaki Y
Induction of microRNAs, mir-155, mir-222, mir-424 and mir-503, promotes monocytic differentiation through combinatorial regulation.
Leukemia 2010 Feb;24(2):460-6 Forrest AR, Kanamori-Katayama M, Tomaru Y, Lassmann T, Ninomiya N, Takahashi Y, de Hoon MJ, Kubosaki A, Kaiho A, Suzuki M, Yasuda J, Kawai J, Hayashizaki Y, Hume DA, Suzuki H
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.
Nat Genet 2009 May;41(5):553-62 Suzuki H, Forrest AR, van Nimwegen E, Daub CO, Balwierz PJ, Irvine KM, Lassmann T, Ravasi T, Hasegawa Y, de Hoon MJ, Katayama S, Schroder K, Carninci P, Tomaru Y, Kanamori-Katayama M, Kubosaki A, Akalin A, Ando Y, Arner E, Asada M, Asahara H, Bailey T, Bajic VB, Bauer D, Beckhouse AG, Bertin N, Björkegren J, Brombacher F, Bulger E, Chalk AM, Chiba J, Cloonan N, Dawe A, Dostie J, Engström PG, Essack M, Faulkner GJ, Fink JL, Fredman D, Fujimori K, Furuno M, Gojobori T, Gough J, Grimmond SM, Gustafsson M, Hashimoto M, Hashimoto T, Hatakeyama M, Heinzel S, Hide W, Hofmann O, Hörnquist M, Huminiecki L, Ikeo K, Imamoto N, Inoue S, Inoue Y, Ishihara R, Iwayanagi T, Jacobsen A, Kaur M, Kawaji H, Kerr MC, Kimura R, Kimura S, Kimura Y, Kitano H, Koga H, Kojima T, Kondo S, Konno T, Krogh A, Kruger A, Kumar A, Lenhard B, Lennartsson A, Lindow M, Lizio M, Macpherson C, Maeda N, Maher CA, Maqungo M, Mar J, Matigian NA, Matsuda H, Mattick JS, Meier S, Miyamoto S, Miyamoto-Sato E, Nakabayashi K, Nakachi Y, Nakano M, Nygaard S, Okayama T, Okazaki Y, Okuda-Yabukami H, Orlando V, Otomo J, Pachkov M, Petrovsky N, Plessy C, Quackenbush J, Radovanovic A, Rehli M, Saito R, Sandelin A, Schmeier S, Schönbach C, Schwartz AS, Semple CA, Sera M, Severin J, Shirahige K, Simons C, St Laurent G, Suzuki M, Suzuki T, Sweet MJ, Taft RJ, Takeda S, Takenaka Y, Tan K, Taylor MS, Teasdale RD, Tegnér J, Teichmann S, Valen E, Wahlestedt C, Waki K, Waterhouse A, Wells CA, Winther O, Wu L, Yamaguchi K, Yanagawa H, Yasuda J, Zavolan M, Hume DA, Arakawa T, Fukuda S, Imamura K, Kai C, Kaiho A, Kawashima T, Kawazu C, Kitazume Y, Kojima M, Miura H, Murakami K, Murata M, Ninomiya N, Nishiyori H, Noma S, Ogawa C, Sano T, Simon C, Tagami M, Takahashi Y, Kawai J, Hayashizaki Y
Genome-wide investigation of in vivo EGR-1 binding sites in monocytic differentiation.
Genome Biol 2009;10(4):R41 Kubosaki A, Tomaru Y, Tagami M, Arner E, Miura H, Suzuki T, Suzuki M, Suzuki H, Hayashizaki Y
Identification of an inter-transcription factor regulatory network in human hepatoma cells by Matrix RNAi.
Nucleic Acids Res 2009 Mar;37(4):1049-60 Tomaru Y, Nakanishi M, Miura H, Kimura Y, Ohkawa H, Ohta Y, Hayashizaki Y, Suzuki M
Identification of DNA regions and a set of transcriptional regulatory factors involved in transcriptional regulation of several human liver-enriched transcription factor genes.
Nucleic Acids Res 2009 Feb;37(3):778-92 Miura H, Tomaru Y, Nakanishi M, Kondo S, Hayashizaki Y, Suzuki M
Rapid screening assay for KRAS mutations by the modified smart amplification process.
J Mol Diagn 2008 Nov;10(6):520-6 Tatsumi K, Mitani Y, Watanabe J, Takakura H, Hoshi K, Kawai Y, Kikuchi T, Kogo Y, Oguchi-Katayama A, Tomaru Y, Kanamori H, Baba M, Ishidao T, Usui K, Itoh M, Cizdziel PE, Lezhava A, Ueda M, Ichikawa Y, Endo I, Togo S, Shimada H, Hayashizaki Y
Identification of transcriptional regulatory cascades in retinoic acid-induced growth arrest of HepG2 cells.
Nucleic Acids Res 2008 Jun;36(10):3443-54 Nakanishi M, Tomaru Y, Miura H, Hayashizaki Y, Suzuki M
Cancer research with non-coding RNA.
Cancer Sci 2006 Dec;97(12):1285-90 Tomaru Y, Hayashizaki Y
Comparative analysis of expression of histone H2a genes in mouse.
BMC Genomics 2005 Aug 13;6:108 Nishida H, Suzuki T, Ookawa H, Tomaru Y, Hayashizaki Y
Naturally occurring antisense RNA of histone H2a in mouse cultured cell lines.
BMC Genet 2005 May 14;6:23 Nishida H, Tomaru Y, Oho Y, Hayashizaki Y
A novel replication-independent histone H2a gene in mouse.
BMC Genet 2005 Feb 19;6:10 Nishida H, Suzuki T, Tomaru Y, Hayashizaki Y
Comprehensive search for HNF-1beta-regulated genes in mouse hepatoma cells perturbed by transcription regulatory factor-targeted RNAi.
Nucleic Acids Res 2004;32(9):2740-50 Tanaka T, Tomaru Y, Nomura Y, Miura H, Suzuki M, Hayashizaki Y
EICO (Expression-based Imprint Candidate Organizer): finding disease-related imprinted genes.
Nucleic Acids Res 2004 Jan 1;32(Database issue):D548-51 Nikaido I, Saito C, Wakamoto A, Tomaru Y, Arakawa T, Hayashizaki Y, Okazaki Y
A comprehensive search for HNF-3alpha-regulated genes in mouse hepatoma cells by 60K cDNA microarray and chromatin immunoprecipitation/PCR analysis.
Biochem Biophys Res Commun 2003 Oct 17;310(2):667-74 Tomaru Y, Kondo S, Suzuki M, Hayashizaki Y
Mechanism of postoperative liver failure after excessive hepatectomy investigated using a cDNA microarray.
J Hepatobiliary Pancreat Surg 2002;9(3):352-9 Morita T, Togo S, Kubota T, Kamimukai N, Nishizuka I, Kobayashi T, Ichikawa Y, Ishikawa T, Takahashi S, Matsuo K, Tomaru Y, Okazaki Y, Hayashizaki Y, Shimada H
Analysis of gene expression involved in brain metastasis from breast cancer using cDNA microarray.
Breast Cancer 2002;9(1):26-32 Nishizuka I, Ishikawa T, Hamaguchi Y, Kamiyama M, Ichikawa Y, Kadota K, Miki R, Tomaru Y, Mizuno Y, Tominaga N, Yano R, Goto H, Nitanda H, Togo S, Okazaki Y, Hayashizaki Y, Shimada H
Identification of seven loci for static glucokinesis and dynamic glucokinesis in mice.
Mamm Genome 2002 Jun;13(6):293-8 Komatsu S, Kiyosawa H, Yoshiki A, Okazaki Y, Yoshino M, Tomaru Y, Watanabe S, Muramatsu M, Kusakabe M, Hayashizaki Y
Asb4, Ata3, and Dcn are novel imprinted genes identified by high-throughput screening using RIKEN cDNA microarray.
Biochem Biophys Res Commun 2002 Feb 8;290(5):1499-505 Mizuno Y, Sotomaru Y, Katsuzawa Y, Kono T, Meguro M, Oshimura M, Kawai J, Tomaru Y, Kiyosawa H, Nikaido I, Amanuma H, Hayashizaki Y, Okazaki Y
Molecular cloning, genetic mapping, and expression of the mouse Sf3b1 (SAP155) gene for the U2 snRNP component of spliceosome.
Mamm Genome 2001 Mar;12(3):192-8 Isono K, Abe K, Tomaru Y, Okazaki Y, Hayashizaki Y, Koseki H
Delineating developmental and metabolic pathways in vivo by expression profiling using the RIKEN set of 18,816 full-length enriched mouse cDNA arrays.
Proc Natl Acad Sci U S A 2001 Feb 27;98(5):2199-204 Miki R, Kadota K, Bono H, Mizuno Y, Tomaru Y, Carninci P, Itoh M, Shibata K, Kawai J, Konno H, Watanabe S, Sato K, Tokusumi Y, Kikuchi N, Ishii Y, Hamaguchi Y, Nishizuka I, Goto H, Nitanda H, Satomi S, Yoshiki A, Kusakabe M, DeRisi JL, Eisen MB, Iyer VR, Brown PO, Muramatsu M, Shimada H, Okazaki Y, Hayashizaki Y
Automated filtration-based high-throughput plasmid preparation system.
Genome Res 1999 May;9(5):463-70 Itoh M, Kitsunai T, Akiyama J, Shibata K, Izawa M, Kawai J, Tomaru Y, Carninci P, Shibata Y, Ozawa Y, Muramatsu M, Okazaki Y, Hayashizaki Y