Systematic analysis of expression and function of developmental genes of model organisms towards computer simulation

• Project/Area Number: 12202003
• Research Category: Grant-in-Aid for Scientific Research on Priority Areas
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: National Institute of Genetics
• Principal Investigator: KOHARA Yuji National Institute of Genetics, Center for Genetic resourese infomation, Professor, 生物遺伝資源情報総合センター, 教授 (70135292)
• Co-Investigator(Kenkyū-buntansha): KONDOU Shigeru Nagoya University, Graduate School of Science, Professor, 大学院理学研究科, 教授 (10252503)
• Project Period (FY): 2000 – 2004
• Project Status: Completed (Fiscal Year 2004)
• Budget Amount: ¥383,400,000 (Direct Cost: ¥383,400,000); Fiscal Year 2004: ¥96,000,000 (Direct Cost: ¥96,000,000); Fiscal Year 2003: ¥88,000,000 (Direct Cost: ¥88,000,000); Fiscal Year 2002: ¥96,000,000 (Direct Cost: ¥96,000,000); Fiscal Year 2001: ¥103,400,000 (Direct Cost: ¥103,400,000)
• Keywords: Nematode / Cell lineage / EST / whole mount in situ Hybridization / RNAi / Clustering analysis / Computer simulation / Reaction-diffusion system / EST / whole mount in situ ハイブリダイゼーション / コンピュータシミュレーション / 4D顕微鏡 / 発生 / cDNA / alternative splicing / in situハイブリダイゼーション / in silico生物学

Research Abstract

1) We obtained 130,000 ESTs of the nematode C.elegans, from which we identified the gene structures of 14,000 unique cDNAs. We performed whole mount in situ hybridization with the unique cDNA set. All the information together with the description of RNAi phenotypes of 900 genes was stored and opened at our WWW-based database "NEXTDB" <http://nematode.lab.nig.ac.jp>. We have performed many collaborations based on the data in the database.
2) We studied on the translational control mechanism of maternal mRNAs, finding the combinatorial regulation of the translation of glp-1 mRNA by gld-1, pos-1 and spn-4 gene products and the fine tuning by poly-A length.
3) We performed EST/genome analysis of another nematode Diploscapter sp., which has a different cell cleavage and arrangement pattern until gastrulation stage. We are interested to compare gene expression and function between these different developmental systems. From 70,000 cDNA clones, 10,000 EST clusters were identified, of which 5,800 clusters had homologs to C.elegans. We also performed a low coverage (1X) whole-genome shotgun sequencing of this worm and found additional 1,000 homologs. All the results were also incorporated to NEXTDB.
4) Cellular arrangements are important for cell-fate determination in development. We constructed a physical model for C.elegans embryo up to gastrulation stage (28 cell stage) using deformable and dividable polyhedrons. We further implemented microtubles and centrosomes, and we performed computer simulation analysis to get the parameters that reproduced the phenotype of wild type and mutant embryos.
5) Based on the reaction-diffusion model, a mechanism for autonomous pattern formation in the animal skin has been elucidated.

Research Products

• [Journal Article] Graphical gaussian modeling for gene association stuctures based on expression deviation patterns induced by various chemical stimuli. (2006)
  • Author(s): Tetsuya Matsuno, Nobuyuki Tominaga, Koji Arizono, Taisen Iguchi, Yuji Kohara
  • Journal Title: IEICE Trans. Inf. ＆ Syst. E89-D,No.4 Pages: 1563-1574
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Graphical gaussian modeling for gene association structures based on expression deviation patterns induced by various chemical stimuli. (2006)
  • Author(s): Tetsuya Matsuno, Nobuyuki Tominaga, Koji Arizono, Taisen Iguchi, Yuji Kohara
  • Journal Title: IEICE Trans. Inf. ＆ Syst. E89-D, No.4 Pages: 1563-1574
  • NAID: 110007504509
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Identification of ciliated sensory neuron-expressed genes in Caenorhabditis elegans using targeted pull-down of poly(A) tails. (2005)
  • Author(s): Hirofumi Kunitomo, Hiroko Uesugi, Yuji Kohara, Yuichi Iino
  • Journal Title: Genome Biol. 6(2)
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] The C.elegans RUNX transcription factor MAB-2/RNT-1 is required for asymmetrical cell division of the T blast cell. (2005)
  • Author(s): Hiroshi KAGOSHIMA, Hitoshi SAWA, Shohei MITANI, Thomas R. BURGLIN, Katsuya SHIGESADA, Yuji KOHARA
  • Journal Title: Developmental Biol. 287 Pages: 262-273
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] nfi-1 affects behavior and life-span in C. elegans but is not essential for DNA replication or survival. (2005)
  • Author(s): Elena Lazakovitch, John M Kalb, Reiko Matsumoto, Keiko Hirono, Yuji Kohara, Richard M Gronostajski
  • Journal Title: BMC Developmental Biology 5 Pages: 24-24
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Cell-cell interaction network that generates the skin pattern of animal. (2005)
  • Author(s): Kondo-S
  • Journal Title: Genome Informatics 16 Pages: 287-291
  • NAID: 130003997434
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Identification of ciliated sensory neuron-expressed genes in Caenorhabditis elegans using targeted pull-down of poly(A) tails. (2005)
  • Author(s): Hirofumi Kunitomo, Hiroko Uesugi, Yuji Kohara, Yuichi lino
  • Journal Title: Genome Biol 6(2)
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] The C. elegans RUNX transcription factor MAB-2/RNT-1 is required for asymmetrical cell division of the T blast cell. (2005)
  • Author(s): Hiroshi KAGOSHIMA, Hitoshi SAWA, Shohei MITANI, Thomas R. Bワ RGLIN, Katsuya SHIGESADA, Yuji KOHARA
  • Journal Title: Developmental Biol. 287 Pages: 262-273
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Identification of ciliated sensory neuron-expressed genes in Caenorhabditis elegans using targeted pull-down of poly(A) tails. (2005)
  • Author(s): Hirofumi Kunitomo, Hiroko Uesugi, Yuji Kohara, Yuichi lino
  • Journal Title: Genome Biol.http://genomebiology.com/2005/6/2/R17 6(2)
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] nfi-1 affects behavior and life-span in C. elegans but is not essential for DNA replication or survival. (2005)
  • Author(s): Elena Lazakovitch, John M Kalb, Reiko Matsumoto, Keiko Hirono, Yuji Kohara, Richard M Gronostajski
  • Journal Title: BMC Developmental Biology2005 5:24
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Identification of ciliated sensory neuron-expressed genes in Caenorhabditis elegans using targeted pull-down of poly(A) tails. (2005)
  • Author(s): Hirofumi Kunitomo
  • Journal Title: Genome Biol. 6(2)
• [Journal Article] TLR-independent control of innate immunity in C.elegans by the human SARM homolog, TIR-1, a TIR-domain adaptor protein. (2004)
  • Author(s): Carole Couillault, Nathalie Pujol, Jerome Reboul, Laurence Sabatier, Jean-Francois Guichou, Yuji Kohara, Jonathan J. Ewbank
  • Journal Title: Nature Immunology 5 Pages: 488-494
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] SPI : A tool for incorporating gene expression data into a four-dimensional database of C. elegans embryogenesis (2004)
  • Author(s): Yohei Minakuchi, Masahiro Ito, Yuji Kohara
  • Journal Title: Bioinformatics 20 Pages: 1097-1109
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] TLR-independent control of innate immunity in C. elegans by the human SARM homolog, TIR-1, a TIR-domain adaptor protein. (2004)
  • Author(s): Carole Couillault, Nathalie Pujol, Jゾェパme Reboul, Laurence Sabatier, Jean-FranXois Guichou, Yuji Kohara, Jonathan J. Ewbank
  • Journal Title: Nature Immunology 8 Pages: 488-494
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] A tool for incorporating gene expression data into a four-dimensional database of C. elegans embryogenesis. (2004)
  • Author(s): Yohei Minakuchi, Masahiro Ito, Yuji Kohara: SPI
  • Journal Title: Bioinformatics 20 Pages: 1097-1109
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] TLR-independent control of innate immunity in C.elegans by the human SARM homolog, TIR-1, a TIR-domain adaptor protein. (2004)
  • Author(s): Carole Couillault
  • Journal Title: Nature Immunology 5 Pages: 488-494
• [Journal Article] SPI : A tool for incorporating gene expression data into a four-dimensional database of C.elegans embryogenesis. (2004)
  • Author(s): Yohei Minakuchi
  • Journal Title: Bioinformatics 20 Pages: 1097-1109
• [Journal Article] VBP-1 is necessary for morphogenesis in Caenorhabditis elegans. (2003)
  • Author(s): Harumi Ichimiya, Okio Hino, Yuji Kohara, Naoaki Ishii
  • Journal Title: Oncology Reports 10 Pages: 293-295
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Computer Simulation of the Cellular Arrangement in Early Cleavage of the Nematode C.elegans (2003)
  • Author(s): Atsushi Kajita, Masayuki Yamamura, Yuji Kohara
  • Journal Title: Bioinformatics 19 Pages: 704-716
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Translational control of maternal glp-1 mRNA by POS-1 and its interacting protein SPN-4 in Caenorhabditis elegans. (2003)
  • Author(s): Ken-ichi Ogura, Norihito Kishimoto, Shohei Mitani, Keiko Gengyo-Ando, Yuji Kohara
  • Journal Title: Development 130 Pages: 2495-2503
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Caenorhabditis elegans RBX1 is essential for meiosis, mitotic chromosomal condensation and segregation, and cytokinesis. (2003)
  • Author(s): Yohei Sasagawa, Takeshi Urano, Yuji Kohara, Hideyuki Takahashi, Atsushi Higashitani
  • Journal Title: Genes to Cells 8 Pages: 857-872
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Characterization of a novel C.elegans RGS protein with a C2 domain : evidence for direct association between C2 domain and G? q subunit. (2003)
  • Author(s): Motoko Sato, Kayoko Moroi, Mariko Nishiyama, Jing Zhou, Hirokazu Usui, Yoshitoshi Kasuya, Mitsunori Fukuda, Yuji Kohara, Issei Komuro, Sadao Kimura
  • Journal Title: Life Sciences 73 Pages: 917-932
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Pigment cell organization in zebrafish stripe. (2003)
  • Author(s): Hirata, M., Kanemaru, T., Shibata, Y., Nakamura, K-I., Kondo, S
  • Journal Title: Developmental Dynamics 227 Pages: 497-503
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Traveling stripes on the skin of a mutant mouse. (2003)
  • Author(s): Suzuki, N., Hirata, M, Kondo, S
  • Journal Title: Proc. Natl. Acad. Sci. USA. 17 Pages: 9680-9685
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Stripes, spots or reversed spots in two-dimentional Turing systems (2003)
  • Author(s): Shoji-H, Iwasa-Y, Kondo-S
  • Journal Title: J. Theor. Biol 224 Pages: 339-350
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Pigment cell distributions in different tissues of the Zebrafish, with special reference to the striped pigment pattern. organiza. (2003)
  • Author(s): Hirata, M., Nakamura, K-I., Kondo, S
  • Journal Title: Developmental Dynamics 234 Pages: 293-300
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Origin of the directionality in the fish stripe pattern. (2003)
  • Author(s): Shoji, H., Mochizuki, A., Iwasa, Y., Hirata, M., Hioki, K., Kondo.S.
  • Journal Title: Developmental Dynamics 226 Pages: 627-633
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Computer Simulation of the Cellular Arrangement in Early Cleavage of the Nematode C. elegans. (2003)
  • Author(s): Atsushi Kajita, Masayuki Yamamura, Yuji Kohara
  • Journal Title: Bioinformatics 19, no6 Pages: 704-716
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Characterization of a novel C.elegans RGS protein with a C2 domain : evidence for direct association between C2 domain and G a q subunit. (2003)
  • Author(s): Motoko Sato, Kayoko Moroi, Mariko Nishiyama, Jing Zhou, Hirokazu Usui, Yoshitoshi Kasuya, Mitsunori Fukuda, Yuji Kohara, Issei Komuro, Sadao Kimura
  • Journal Title: Life Sciences 73 Pages: 917-932
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Pigment cell organization in zebrafish stripe. (2003)
  • Author(s): Hirata, M., Kanemaru, T., Shibata, Y., Nakamura, K-I., Kondo.S.
  • Journal Title: Developmental Dynamics 227 Pages: 497-503
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Traveling stripes on the skin of a mutant mouse. (2003)
  • Author(s): Suzuki, N.Hirata, M, Kondo.S.
  • Journal Title: Proc. Natl. Acad. Sci. USA. 17 Pages: 9680-9685
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Stripes, spots or reversed spots in two-dimentional Turing systems. (2003)
  • Author(s): Shoji-H, Iwasa-Y, Kondo-S
  • Journal Title: J. Theor. Biol 224 Pages: 339-350
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Pigment cell distributions in different tissues of the Zebrafish, with special reference to the striped pigment pattern. organiza. (2003)
  • Author(s): Hirata, M., Nakamura, K-I., Kondo, S.
  • Journal Title: Developmental Dynamics 234 Pages: 293-300
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Origin of the directionality in the fish stripe pattern. (2003)
  • Author(s): Shoji, H., Mochizuki, A., Iwasa, Y., Hirata, M., Hioki, K., Kondo, S.
  • Journal Title: Developmental Dynamics 226 Pages: 627-633
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] A C.elegans TGF- β,DBL-1, controls the expression of LON-1, a PR-related protein, that regulates polyploidization and body length. (2002)
  • Author(s): Kiyokazu Morita, Anthony J.Flemming, Yukiko Sugihara, Makoto Mochii, Yo Suzuki, Satoru Yoshida, William B.Wood, Yuji Kohara, Armand M.Leroi, Naoto Ueno
  • Journal Title: EMBO J. 21 Pages: 1063-1073
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Ewbank : Inducible Antibacterial Defence System in C.elegans (2002)
  • Author(s): Gustav V.Mallo, C.Leopold Kurz, Carole Couillault, Nathalie Pujol, Samuel Granjeaud, Yuji Kohara, Jonathan J.
  • Journal Title: Current Biology 12 Pages: 1209-1214
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Caenorhabditis elegans reticulon interacts with RME-1 during embryogenesis. (2002)
  • Author(s): Jun Iwahashi, Ichiro Kawasaki, Yuji Kohara, Keiko Gengyo-Ando, Shohei Mitani, Yasumi Ohshima, Nobuyuki Hamada, Koyu Hara, Takahito Kashiwagi, Tetsuya Toyoda
  • Journal Title: BBRC 293 Pages: 698-704
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Physical Modeling of the Cellular Arrangement in C.elegans Early Embryo : Effect of Rounding and Stiffening of the Cells (2002)
  • Author(s): Atsushi Kajita, Masayuki Yamamura, Yuji Kohara
  • Journal Title: Genome Informatics Workshop 13 Pages: 224-232
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Sensing of chemical substances using gene expression patterns in Caenorhabditis elegans (2002)
  • Author(s): Matsuno, T., Ura, K., Sonoda, R., Kohara.Y., Uesugi, H., Arizono, K., Iguchi, T, Tominaga, N
  • Journal Title: Sensors and Materials 14 No7 Pages: 395-406
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Directionality of stripe formed by anisotropic reaction-diffusion models. (2002)
  • Author(s): Shoji-H, Mochizuki-A, Iwasa-Y, Kondo-S
  • Journal Title: J. Theor. Biol 214 Pages: 549-561
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] The reaction-diffusion system : a mechanism for autonomous pattern formation in the animal skin (2002)
  • Author(s): Kondo-S
  • Journal Title: Genes to cells 7 Pages: 535-542
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Physical Modeling of the Cellular Arrangement in C. elegans Early Embryo : Effect of Rounding and Stiffening of the Cells. (2002)
  • Author(s): Atsushi Kajita, Masayuki Yamamura, Yuji Kohara
  • Journal Title: Genome Informatics Workshop 13 Pages: 224-232
  • NAID: 130003997157
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Sensing of chemical substances using gene expression patterns in Caenorhabditis elegans. (2002)
  • Author(s): Matsuno, T., Ura, K, Sonoda, R., Kohara.Y., Uesugi, H., Arizono, K., Iguchi, T, Tominaga, N.
  • Journal Title: Sensors and Materials 14 No7 Pages: 395-406
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] The C.elegans unc-32 gene encodes alternative forms of the 100-kDa a subunit of Vacuolar-ATPases. (2001)
  • Author(s): Nathalie Pujol, Claire Bonnerot, Jonathan Ewbank, Yuji Kohara, Danielle Thierry-Mieg
  • Journal Title: J. Biol. Chem. Vol. 276,Issue 15 Pages: 11913-11921
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Large-scale analysis of gene function in Caenorhabditis elegans by high-throughput RNAi. (2001)
  • Author(s): Maeda, I., Kohara.Y., Yamamoto, M., Sugimoto, A.
  • Journal Title: Current Biology 11 No.3 Pages: 171-176
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Open-reading-frame sequence tags (OSTs) support the existence of at least 17,300 genes in C.elegans. (2001)
  • Author(s): Reboul, J., Vaglio, P., Tzellas, N., Thierry-Mieg, N., Moore, T., Jackson, C., Shin-I, T., Kohara.Y., Thierry-Mieg, D., Thierry-Mieg, J., Lee, H., Hitti, J., Doucette-Stamm, L., Hartley, J., Temple, G., Brasch, M., Vandenhaute, J., Lamesch, Pl., Hill, D., Vidal,M
  • Journal Title: Nature Genetics 27 Pages: 332-336
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] cgh-1, a Conserved Predicted RNA Helicase Required for Gametogenesis and Protectionfrom Physiological Germline Apoptosis in C. elegans. (2001)
  • Author(s): Rosa E.Navarro, Eun, Yong Shim, Yuji Kohara, Andrew Singson, T.Keith Blackwell
  • Journal Title: Development 128 Pages: 3221-3232
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Use of cDNA subtraction and RNA interference screens in combination reveals genes required for germ-line development in Caenorhabditis elegans. (2001)
  • Author(s): Momoyo Hanazawa, Makoto Motii, Naoto Ueno, Yuji Kohara, Yuichi Iino
  • Journal Title: Proc. Natl. Acad. Sci. USA 98 Pages: 8686-8691
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] A regulatory cascade of three homeobox genes, ceh-10, ttx-3 and ceh-23,controls cellfate specification of a defined interneuron class in C.elegans. (2001)
  • Author(s): Zeynep Altun-Gultekin, Yoshiki Andachi, Ephraim L.Tsalik, David Pilgrim, Yuji Kohara, Oliver Hobert
  • Journal Title: Development 128 Pages: 1951-1969
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] An isoform of eIF4E is a component of germ granules and is required for spermatogenesis in C. elegans. (2001)
  • Author(s): Amiri, A., Keiper, B.D., Kawasaki, I., Fan, Y., Kohara, Y., Rhoads, R.E., Strome, S
  • Journal Title: Development 128 Pages: 3899-3912
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] Antibody fusions with fluorescent proteins : a versatile reagent for profiling protein expression (2001)
  • Author(s): Morino K, Katsumi H, Akahori Y, Iba Y, Shinohara M, Ukai Y, Kohara Y, Kurosawa Y
  • Journal Title: J. Immunol Methods. 257(1-2) Pages: 175-184
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] The C. elegans unc-32 gene encodes alternative forms of the 100-kDa a subunit of Vacuolar-ATPases. (2001)
  • Author(s): Nathalie Pujol, Claire Bonnerot, Jonathan Ewbank, Yuji Kohara, Danielle Thierry-Mieg
  • Journal Title: J. Biol. Chem. Vol. Vol. 276,Issue 15 Pages: 11913-11921
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Open-reading-frame sequence tags (OSTs) support the existence of at least 17,300 genes in C. elegans. (2001)
  • Author(s): Reboul, J., Vaglio, P., Tzellas, N., Thierry-Mieg, N., Moore, T., Jackson, C., Shin-I, T., Kohara.Y., Thierry-Mieg, D., Thierry-Mieg, J., Lee, H., Hitti, J., Doucette-Stamm, L, Hartley, J., Temple, G, Brasch, M., Vandenhaute, J., Lamesch, Pl., Hill, D., Vidal, M.
  • Journal Title: Nature Genetics 27 Pages: 332-336
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Keith Blackwell cgh-1, a Conserved Predicted RNA Helicase Required for Gametogenesis and Protection from Physiological Germline Apoptosis in C. elegans. (2001)
  • Author(s): Rosa E.Navarro, Eun Yong Shim, Yuji Kohara, Andrew Singson, T.
  • Journal Title: Development 128 Pages: 3221-3232
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Use of cDNA subtraction and RNA interference screens in combination reveals genes required for germ-line development in Caenorhabditis elegans. (2001)
  • Author(s): Momoyo Hanazawa, Makoto Motii, Naoto Ueno, Yuji Kohara, Yuichi lino
  • Journal Title: Proc. Natl. Acad. Sci. USA 98 Pages: 8686-8691
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] A regulatory cascade of three homeobox genes, ceh-10, ttx-3 and ceh-23, controls cell fate specification of a defined interneuron class in C.elegans. (2001)
  • Author(s): Zeynep Altun-Gultekin, Yoshiki Andachi, Ephraim L.Tsalik, David Pilgrim, Yuji Kohara, Oliver Hobert
  • Journal Title: Development 128 Pages: 1951-1969
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] An isoform of eIF4E is a component of germ granules and is required for spermatogenesis in C. elegans. (2001)
  • Author(s): Amiri, A., Keiper, B.D., Kawasaki, I., Fan, Y, Kohara, Y., Rhoads, R.E., Strome, S.
  • Journal Title: Development 128 Pages: 3899-3912
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Antibody fusions with fluorescent proteins : a versatile reagent for profiling protein expression. (2001)
  • Author(s): Morino K, Katsumi H, Akahori Y, Iba Y, Shinohara M, Ukai Y, Kohara Y, Kurosawa Y.
  • Journal Title: J. Immunol Methods. Nov1;257(1-2) Pages: 175-84
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] A C. elegans TGF-D, DBL-1, controls the expression of LON-1, a PR-related protein, that regulates polyploidization and body length. (2001)
  • Author(s): Kiyokazu Morita, Anthony J.Flemming, Yukiko Sugihara, Makoto Mochii, Yo Suzuki, Satoru Yoshida, William B.Wood, Yuji Kohara, Armand M.Leroi, Naoto Ueno
  • Journal Title: EMBO J. 21 Pages: 1063-1073
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] Inducible Antibacterial Defence System in C.elegans. (2001)
  • Author(s): Gustav V.Mallo, C.Leopold Kurz, Carole Couillault, Nathalie Pujol, Samuel Granjeaud, Yuji Kohara, Jonathan J.Ewbank
  • Journal Title: Current Biology 21 Pages: 1209-1214
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] The Lim Homeobox Gene ceh-14 Confers Thermosensory Function to the AFD Neurons in Caenorhabditis elegans. (2000)
  • Author(s): Cassata, C., Kagoshima, H., Andachi, Y., Kohara, Y., Durenberger, M.B., Hall, D.H., Burglin, T.R
  • Journal Title: Neuron 25 Pages: 587-597
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] A member of the ancient nuclear receptor class Ftz-Fl is required for embryogenesis, molting and reproduction in Caenorhabditis elegans. (2000)
  • Author(s): Asahiha, M., Ishihara, T., Jindra, M., Kohara, Y., Katsura, I., Hirose, S.
  • Journal Title: Genes to Cells 5 Pages: 711-723
  • Description: 「研究成果報告書概要(和文)」より
• [Journal Article] The Lim Homeobox Gene ceh-14 Confers Thermosensory Function to the AFD Neurons in Caenorhabditis elegans. (2000)
  • Author(s): Cassata, C., Kagoshima, H., Andachi, Y., Kohara, Y., Durenberger, M.B., Hall, D.H., Burglin, T.R.
  • Journal Title: Neuron 25 Pages: 587-597
  • Description: 「研究成果報告書概要(欧文)」より
• [Journal Article] A. (2001). Large-scale analysis of gene function in Caenorhabditis elegans by high-throughput RNAi.
  • Author(s): Maeda, I., Kohara, Y., Yamamoto, M., Sugimoto
  • Journal Title: Current Biology 11 No.3 Pages: 171-176
  • Description: 「研究成果報告書概要(欧文)」より
• [Publications] Harumi Ichimiya: "VBP-1 is necessary for morphogenesis in Caenorhabditis elegans."Oncology Reports. 10. 293-295 (2003)
• [Publications] Atsushi Kajita: "Computer Simulation of the Cellular Arrangement in Early Cleavage of the Nematode C.elegans."Bioinformatics. 19. 704-716 (2003)
• [Publications] Ken-ichi Ogura: "Translational control of maternal glp-1 mRNA by POS-1 and its interacting protein SPN-4 in Caenorhabditis elegans."Development. 130. 2495-2503 (2003)
• [Publications] Yohei Sasagawa: "Caenorhabditis elegans RBX1 is essential for meiosis, mitotic chromosomal condensation and segregation, and cytokinesis."Genes to Cells. 8. 857-872 (2003)
• [Publications] Carole Couillault: "TLR-independent control of innate immunity in C.elegans by the human SARM homolog, TIR-1, a TIR-domain adaptor protein."Nature Immunology. in press. (2004)
• [Publications] Yohei Minakuchi: "SPI : A tool for incorporating gene expression data into a four-dimensional database of C.elegans embryogenesis"Bioinformatics. in press. (2004)
• [Publications] Suzuki, N.: "Traveling stripes on the skin of a mutant mouse."Proc.Natl.Acad.Sci.USA.. 17. 9680-9685 (2003)
• [Publications] Hirata, M.: "Pigment cell organization in zebrafish stripe."Developmental Dynamics. 227. 497-503 (2003)
• [Publications] Shoji, H.: "Origin of the directionality in the fish stripe pattern."Developmental Dynamics. 226. 627-633 (2003)
• [Publications] Morino K: "Antibody fusions with fluorescent proteins : a versatile reagent for profiling protein expression"J.Immunol Methods. Nov 1;257. 1-2 (2001)
• [Publications] Kiyokazu Morita: "A C. elegans TGF-b, DBL-1, controls the expression of LON-1, a PR-related protein, that regulates polyploidization and body length"EMBO J.. 21. 1063-1073 (2002)
• [Publications] Gustav V. Mallo: "Inducible Antibacterial Defence System in C.elegans"Current Biology. 12. 1209-1214 (2002)
• [Publications] Jun Iwahashi: "Caenorhabditis elegans reticulon interacts with RME-1 during embryogenesis"BBRC. 293. 698-704 (2002)
• [Publications] Harumi Ichimiya: "VBP-1 is necessary for morphogenesis in Caenorhabditis elegans"Oncology Reports. (in press). (2002)
• [Publications] Atsushi Kajita: "Computer Simulation of the Cellular Arrangement in Early Cleavage of the Nematode C. elegans"Bioinformatics. (in press). (2003)
• [Publications] Atsushi Kajita: "Physical Modeling of the Cellular Arrangement in C. elegans Early Embryo"Effect of Rounding and Stiffening of the Cells. Proceedings of the 13th International Conference on Genome Informatics. (2002)
• [Publications] Matsuno, T.: "Sensing of chemical substances using gene expression patterns in Caenorhabditis elegans"Sensors and Materials. 14 No7. 395-406 (2002)
• [Publications] Ken-ichi Ogura: "Translational control of maternal glp-1 mRNA by POS-1 and its interacting protein SPN-4 in Caenorhabditis elegans"Development. (in press). (2003)
• [Publications] Kondo-S: "The reaction-diffusion system : a mechanism for autonomous pattern formation in the animal skin"Genes to cells. 7. 535-542 (2002)
• [Publications] Shoji-H: "Directionality of stripe formed by anisotropic reaction-diffusion models"J.theor.Biol. 214. 549-561 (2002)
• [Publications] Nathalie Pujol: "The C.elegans unc-32 gene encodes alternative forms of the 100-kDa a subunit of Vacuolar-ATPases"J. Biol. Chem.. 276・15. 11913-11921 (2001)
• [Publications] Maeda I.: "Large-scale analysis of gene function in Caenorhabditis elegans by high-throughput RNAi"Current Biology. 11・3. 171-176 (2001)
• [Publications] Reboul J.: "Open-reading-frame sequence tags (OSTs) support the existence of at least 17,300 genes in C.elegans"Nature Genetics. 27. 332-336 (2001)
• [Publications] Rosa E.: "cgh-1, a Conserved Predicted RNA Helicase Required for Gametogenesis and Protection from Physiological Germline Apoptosis in C.elegans"Development. 128. 3221-3232 (2001)
• [Publications] Momoyo Hanazawa: "Use of cDNA subtraction and RNA interference screens in combination reveals genes required for germ-line development in Caenorhabditis elegans"Proc. Natl. Acad. Sci.. 98. 8686-8691 (2001)
• [Publications] Zeynep Altun-Gultekin: "A regulatory cascade of three homeobox genes, ceh-10, ttx-3 and ceh-23, controls cell fate specification of a defined interneuron class in C.elegans"Development. 128. 1951-1969 (2001)
• [Publications] Amiri A.: "An isoform of eIF4E is a component of germ granules and is required for spermatogenesis in C.elegans"Development. 128. 3899-3912 (2001)
• [Publications] Morino K.: "Antibody fusions with fluorescent proteins : a versatile reagent for profiling protein expression"J. Immunol Methods.. 257・1-2. 175-184 (2001)
• [Publications] Kiyokazu Morita: "A C.elegans TGF-β, DBL-1, controls the expression of LON-1, a PR-related protein, that regulates polyploidization and body length"EMBO J.. 21. 1063-1073 (2002)
• [Publications] 小原雄治: "システムバイオロジーの展開-生物学の新しいアプローチ-"シュプリンガー・フェアラーク東京. 226 (2001)
• [Publications] Cassata,C.: "The Lim Homeobox Gene ceh-14 Confers Thermosensory Function to the AFD Neurons in Caenorhabditis elegans."Neuron. 25. 587-597 (2000)
• [Publications] Asahiha,M.: "A member of the ancient nuclear receptor class Ftz-F1 is required for embryogenesis, molting and reproduction in Caenorhabditis elegans."Genes to Cells. 5. 711-723 (2000)
• [Publications] Pujol,N.: "The C. elegans unc-32 gene encodes alternative forms of the 100-kDa a subunit of Vacuolar-ATPases."J.Biol.Chem.. (in press).
• [Publications] Maeda,I.: "Large-scale analysis of gene function in Caenorhabditis elegans by high-throughput RNAi."Current Biology. 11No.3. 171-176 (2001)
• [Publications] Reboul,J.: "Open-reading-frame sequence tags (OSTs) support the existence of at least 17,300 genes in C.elegans."Nature Genetics. 27. 332-336 (2001)