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Items: 15

1.

Analysis of a novel gene, Sdgc, reveals sex chromosome-dependent differences of medaka germ cells prior to gonad formation.

Nishimura T, Herpin A, Kimura T, Hara I, Kawasaki T, Nakamura S, Yamamoto Y, Saito TL, Yoshimura J, Morishita S, Tsukahara T, Kobayashi S, Naruse K, Shigenobu S, Sakai N, Schartl M, Tanaka M.

Development. 2014 Sep;141(17):3363-9. doi: 10.1242/dev.106864. Epub 2014 Jul 30.

2.

Large hypomethylated domains serve as strong repressive machinery for key developmental genes in vertebrates.

Nakamura R, Tsukahara T, Qu W, Ichikawa K, Otsuka T, Ogoshi K, Saito TL, Matsushima K, Sugano S, Hashimoto S, Suzuki Y, Morishita S, Takeda H.

Development. 2014 Jul;141(13):2568-80. doi: 10.1242/dev.108548. Epub 2014 Jun 12.

3.

The transcription start site landscape of C. elegans.

Saito TL, Hashimoto S, Gu SG, Morton JJ, Stadler M, Blumenthal T, Fire A, Morishita S.

Genome Res. 2013 Aug;23(8):1348-61. doi: 10.1101/gr.151571.112. Epub 2013 May 1.

4.

ATF6α/β-mediated adjustment of ER chaperone levels is essential for development of the notochord in medaka fish.

Ishikawa T, Okada T, Ishikawa-Fujiwara T, Todo T, Kamei Y, Shigenobu S, Tanaka M, Saito TL, Yoshimura J, Morishita S, Toyoda A, Sakaki Y, Taniguchi Y, Takeda S, Mori K.

Mol Biol Cell. 2013 May;24(9):1387-95. doi: 10.1091/mbc.E12-11-0830. Epub 2013 Feb 27.

5.

The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies.

Katayama T, Wilkinson MD, Micklem G, Kawashima S, Yamaguchi A, Nakao M, Yamamoto Y, Okamoto S, Oouchida K, Chun HW, Aerts J, Afzal H, Antezana E, Arakawa K, Aranda B, Belleau F, Bolleman J, Bonnal RJ, Chapman B, Cock PJ, Eriksson T, Gordon PM, Goto N, Hayashi K, Horn H, Ishiwata R, Kaminuma E, Kasprzyk A, Kawaji H, Kido N, Kim YJ, Kinjo AR, Konishi F, Kwon KH, Labarga A, Lamprecht AL, Lin Y, Lindenbaum P, McCarthy L, Morita H, Murakami K, Nagao K, Nishida K, Nishimura K, Nishizawa T, Ogishima S, Ono K, Oshita K, Park KJ, Prins P, Saito TL, Samwald M, Satagopam VP, Shigemoto Y, Smith R, Splendiani A, Sugawara H, Taylor J, Vos RA, Withers D, Yamasaki C, Zmasek CM, Kawamoto S, Okubo K, Asai K, Takagi T.

J Biomed Semantics. 2013 Feb 11;4(1):6. doi: 10.1186/2041-1480-4-6.

6.

CSF1R mutations identified in three families with autosomal dominantly inherited leukoencephalopathy.

Mitsui J, Matsukawa T, Ishiura H, Higasa K, Yoshimura J, Saito TL, Ahsan B, Takahashi Y, Goto J, Iwata A, Niimi Y, Riku Y, Goto Y, Mano K, Yoshida M, Morishita S, Tsuji S.

Am J Med Genet B Neuropsychiatr Genet. 2012 Dec;159B(8):951-7. doi: 10.1002/ajmg.b.32100. Epub 2012 Oct 4.

PMID:
23038421
7.

Extremely slow rate of evolution in the HOX cluster revealed by comparison between Tanzanian and Indonesian coelacanths.

Higasa K, Nikaido M, Saito TL, Yoshimura J, Suzuki Y, Suzuki H, Nishihara H, Aibara M, Ngatunga BP, Kalombo HW, Sugano S, Morishita S, Okada N.

Gene. 2012 Sep 1;505(2):324-32. doi: 10.1016/j.gene.2012.05.047. Epub 2012 Jun 12.

PMID:
22698790
8.

Genome-wide genetic variations are highly correlated with proximal DNA methylation patterns.

Qu W, Hashimoto S, Shimada A, Nakatani Y, Ichikawa K, Saito TL, Ogoshi K, Matsushima K, Suzuki Y, Sugano S, Takeda H, Morishita S.

Genome Res. 2012 Aug;22(8):1419-25. doi: 10.1101/gr.140236.112. Epub 2012 Jun 11.

9.

UTGB toolkit for personalized genome browsers.

Saito TL, Yoshimura J, Sasaki S, Ahsan B, Sasaki A, Kuroshu R, Morishita S.

Bioinformatics. 2009 Aug 1;25(15):1856-61. doi: 10.1093/bioinformatics/btp350. Epub 2009 Jun 3.

10.

MachiBase: a Drosophila melanogaster 5'-end mRNA transcription database.

Ahsan B, Saito TL, Hashimoto S, Muramatsu K, Tsuda M, Sasaki A, Matsushima K, Aigaki T, Morishita S.

Nucleic Acids Res. 2009 Jan;37(Database issue):D49-53. doi: 10.1093/nar/gkn694. Epub 2008 Oct 8.

11.

UTGB/medaka: genomic resource database for medaka biology.

Ahsan B, Kobayashi D, Yamada T, Kasahara M, Sasaki S, Saito TL, Nagayasu Y, Doi K, Nakatani Y, Qu W, Jindo T, Shimada A, Naruse K, Toyoda A, Kuroki Y, Fujiyama A, Sasaki T, Shimizu A, Asakawa S, Shimizu N, Hashimoto S, Yang J, Lee Y, Matsushima K, Sugano S, Sakaizumi M, Narita T, Ohishi K, Haga S, Ohta F, Nomoto H, Nogata K, Morishita T, Endo T, Shin-I T, Takeda H, Kohara Y, Morishita S.

Nucleic Acids Res. 2008 Jan;36(Database issue):D747-52. Epub 2007 Oct 11.

12.

Evaluation of image processing programs for accurate measurement of budding and fission yeast morphology.

Suzuki G, Sawai H, Ohtani M, Nogami S, Sano-Kumagai F, Saka A, Yukawa M, Saito TL, Sese J, Hirata D, Morishita S, Ohya Y.

Curr Genet. 2006 Apr;49(4):237-47. Epub 2006 Jan 6.

PMID:
16397764
13.

High-dimensional and large-scale phenotyping of yeast mutants.

Ohya Y, Sese J, Yukawa M, Sano F, Nakatani Y, Saito TL, Saka A, Fukuda T, Ishihara S, Oka S, Suzuki G, Watanabe M, Hirata A, Ohtani M, Sawai H, Fraysse N, Latgé JP, François JM, Aebi M, Tanaka S, Muramatsu S, Araki H, Sonoike K, Nogami S, Morishita S.

Proc Natl Acad Sci U S A. 2005 Dec 27;102(52):19015-20. Epub 2005 Dec 19.

14.

Data mining tools for the Saccharomyces cerevisiae morphological database.

Saito TL, Sese J, Nakatani Y, Sano F, Yukawa M, Ohya Y, Morishita S.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W753-7.

15.

SCMD: Saccharomyces cerevisiae Morphological Database.

Saito TL, Ohtani M, Sawai H, Sano F, Saka A, Watanabe D, Yukawa M, Ohya Y, Morishita S.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D319-22.

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