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Items: 23

1.

ChIP-Atlas: a data-mining suite powered by full integration of public ChIP-seq data.

Oki S, Ohta T, Shioi G, Hatanaka H, Ogasawara O, Okuda Y, Kawaji H, Nakaki R, Sese J, Meno C.

EMBO Rep. 2018 Dec;19(12). pii: e46255. doi: 10.15252/embr.201846255. Epub 2018 Nov 9.

2.

DDBJ update: the Genomic Expression Archive (GEA) for functional genomics data.

Kodama Y, Mashima J, Kosuge T, Ogasawara O.

Nucleic Acids Res. 2019 Jan 8;47(D1):D69-D73. doi: 10.1093/nar/gky1002.

3.

MACON: a web tool for computing DNA methylation data obtained by the Illumina Infinium Human DNA methylation BeadArray.

Iida N, Okuda Y, Ogasawara O, Yamashita S, Takeshima H, Ushijima T.

Epigenomics. 2018 Mar;10(3):249-258. doi: 10.2217/epi-2017-0093. Epub 2018 Jan 18.

PMID:
29343101
4.

DNA Data Bank of Japan: 30th anniversary.

Kodama Y, Mashima J, Kosuge T, Kaminuma E, Ogasawara O, Okubo K, Nakamura Y, Takagi T.

Nucleic Acids Res. 2018 Jan 4;46(D1):D30-D35. doi: 10.1093/nar/gkx926.

5.

RefEx, a reference gene expression dataset as a web tool for the functional analysis of genes.

Ono H, Ogasawara O, Okubo K, Bono H.

Sci Data. 2017 Aug 29;4:170105. doi: 10.1038/sdata.2017.105.

6.

DNA Data Bank of Japan.

Mashima J, Kodama Y, Fujisawa T, Katayama T, Okuda Y, Kaminuma E, Ogasawara O, Okubo K, Nakamura Y, Takagi T.

Nucleic Acids Res. 2017 Jan 4;45(D1):D25-D31. doi: 10.1093/nar/gkw1001. Epub 2016 Oct 24.

7.

DNA data bank of Japan (DDBJ) progress report.

Mashima J, Kodama Y, Kosuge T, Fujisawa T, Katayama T, Nagasaki H, Okuda Y, Kaminuma E, Ogasawara O, Okubo K, Nakamura Y, Takagi T.

Nucleic Acids Res. 2016 Jan 4;44(D1):D51-7. doi: 10.1093/nar/gkv1105. Epub 2015 Nov 17.

8.

The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data.

Kodama Y, Mashima J, Kosuge T, Katayama T, Fujisawa T, Kaminuma E, Ogasawara O, Okubo K, Takagi T, Nakamura Y.

Nucleic Acids Res. 2015 Jan;43(Database issue):D18-22. doi: 10.1093/nar/gku1120. Epub 2014 Dec 3.

9.

DDBJ progress report: a new submission system for leading to a correct annotation.

Kosuge T, Mashima J, Kodama Y, Fujisawa T, Kaminuma E, Ogasawara O, Okubo K, Takagi T, Nakamura Y.

Nucleic Acids Res. 2014 Jan;42(Database issue):D44-9. doi: 10.1093/nar/gkt1066. Epub 2013 Nov 4.

10.

DDBJ new system and service refactoring.

Ogasawara O, Mashima J, Kodama Y, Kaminuma E, Nakamura Y, Okubo K, Takagi T.

Nucleic Acids Res. 2013 Jan;41(Database issue):D25-9. doi: 10.1093/nar/gks1152. Epub 2012 Nov 24.

11.

The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments.

Kodama Y, Mashima J, Kaminuma E, Gojobori T, Ogasawara O, Takagi T, Okubo K, Nakamura Y.

Nucleic Acids Res. 2012 Jan;40(Database issue):D38-42. doi: 10.1093/nar/gkr994. Epub 2011 Nov 22.

12.

DDBJ progress report.

Kaminuma E, Kosuge T, Kodama Y, Aono H, Mashima J, Gojobori T, Sugawara H, Ogasawara O, Takagi T, Okubo K, Nakamura Y.

Nucleic Acids Res. 2011 Jan;39(Database issue):D22-7. doi: 10.1093/nar/gkq1041. Epub 2010 Nov 9.

13.

On theoretical models of gene expression evolution with random genetic drift and natural selection.

Ogasawara O, Okubo K.

PLoS One. 2009 Nov 20;4(11):e7943. doi: 10.1371/journal.pone.0007943.

14.

DDBJ launches a new archive database with analytical tools for next-generation sequence data.

Kaminuma E, Mashima J, Kodama Y, Gojobori T, Ogasawara O, Okubo K, Takagi T, Nakamura Y.

Nucleic Acids Res. 2010 Jan;38(Database issue):D33-8. doi: 10.1093/nar/gkp847. Epub 2009 Oct 22.

15.

DDBJ with new system and face.

Sugawara H, Ogasawara O, Okubo K, Gojobori T, Tateno Y.

Nucleic Acids Res. 2008 Jan;36(Database issue):D22-4. Epub 2007 Oct 25.

16.

BodyMap-Xs: anatomical breakdown of 17 million animal ESTs for cross-species comparison of gene expression.

Ogasawara O, Otsuji M, Watanabe K, Iizuka T, Tamura T, Hishiki T, Kawamoto S, Okubo K.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D628-31.

17.

The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms.

Tanino M, Debily MA, Tamura T, Hishiki T, Ogasawara O, Murakawa K, Kawamoto S, Itoh K, Watanabe S, de Souza SJ, Imbeaud S, Graudens E, Eveno E, Hilton P, Sudo Y, Kelso J, Ikeo K, Imanishi T, Gojobori T, Auffray C, Hide W, Okubo K.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D567-72.

18.

Integrative annotation of 21,037 human genes validated by full-length cDNA clones.

Imanishi T, Itoh T, Suzuki Y, O'Donovan C, Fukuchi S, Koyanagi KO, Barrero RA, Tamura T, Yamaguchi-Kabata Y, Tanino M, Yura K, Miyazaki S, Ikeo K, Homma K, Kasprzyk A, Nishikawa T, Hirakawa M, Thierry-Mieg J, Thierry-Mieg D, Ashurst J, Jia L, Nakao M, Thomas MA, Mulder N, Karavidopoulou Y, Jin L, Kim S, Yasuda T, Lenhard B, Eveno E, Suzuki Y, Yamasaki C, Takeda J, Gough C, Hilton P, Fujii Y, Sakai H, Tanaka S, Amid C, Bellgard M, Bonaldo Mde F, Bono H, Bromberg SK, Brookes AJ, Bruford E, Carninci P, Chelala C, Couillault C, de Souza SJ, Debily MA, Devignes MD, Dubchak I, Endo T, Estreicher A, Eyras E, Fukami-Kobayashi K, Gopinath GR, Graudens E, Hahn Y, Han M, Han ZG, Hanada K, Hanaoka H, Harada E, Hashimoto K, Hinz U, Hirai M, Hishiki T, Hopkinson I, Imbeaud S, Inoko H, Kanapin A, Kaneko Y, Kasukawa T, Kelso J, Kersey P, Kikuno R, Kimura K, Korn B, Kuryshev V, Makalowska I, Makino T, Mano S, Mariage-Samson R, Mashima J, Matsuda H, Mewes HW, Minoshima S, Nagai K, Nagasaki H, Nagata N, Nigam R, Ogasawara O, Ohara O, Ohtsubo M, Okada N, Okido T, Oota S, Ota M, Ota T, Otsuki T, Piatier-Tonneau D, Poustka A, Ren SX, Saitou N, Sakai K, Sakamoto S, Sakate R, Schupp I, Servant F, Sherry S, Shiba R, Shimizu N, Shimoyama M, Simpson AJ, Soares B, Steward C, Suwa M, Suzuki M, Takahashi A, Tamiya G, Tanaka H, Taylor T, Terwilliger JD, Unneberg P, Veeramachaneni V, Watanabe S, Wilming L, Yasuda N, Yoo HS, Stodolsky M, Makalowski W, Go M, Nakai K, Takagi T, Kanehisa M, Sakaki Y, Quackenbush J, Okazaki Y, Hayashizaki Y, Hide W, Chakraborty R, Nishikawa K, Sugawara H, Tateno Y, Chen Z, Oishi M, Tonellato P, Apweiler R, Okubo K, Wagner L, Wiemann S, Strausberg RL, Isogai T, Auffray C, Nomura N, Gojobori T, Sugano S.

PLoS Biol. 2004 Jun;2(6):e162. Epub 2004 Apr 20. Erratum in: PLoS Biol. 2004 Jul;2(7):e256.

19.

Indexing anatomical concepts to OMIM Clinical Synopsis using the UMLS Metathesaurus.

Hishiki T, Ogasawara O, Tsuruoka Y, Okubo K.

In Silico Biol. 2004;4(1):31-54. Epub 2003 Dec 28.

PMID:
15089752
20.

Zipf's law and human transcriptomes: an explanation with an evolutionary model.

Ogasawara O, Kawamoto S, Okubo K.

C R Biol. 2003 Oct-Nov;326(10-11):1097-101.

PMID:
14744119
21.
22.

Highly heterologous region in the N-terminal extracellular domain of reptilian follitropin receptors.

Akazome Y, Ogasawara O, Park MK, Mori T.

Gen Comp Endocrinol. 1996 Dec;104(3):374-81.

PMID:
8954771
23.

[A case of pericardial cyst presenting with a sensation of chest compression oppression sensation (author's transl)].

Kimura K, Ogasawara O, Inoue K, Abe S, Ohsaki Y, Murao M, Nasuhara K.

Nihon Kyobu Shikkan Gakkai Zasshi. 1979 Sep;17(9):589-93. Japanese. No abstract available.

PMID:
529630

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