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Items: 26

1.

Reminder to deposit DNA sequences.

Blaxter M, Danchin A, Savakis B, Fukami-Kobayashi K, Kurokawa K, Sugano S, Roberts RJ, Salzberg SL, Wu CI.

Science. 2016 May 13;352(6287):780. doi: 10.1126/science.aaf7672. Epub 2016 May 11. No abstract available.

PMID:
27169596
2.

Plant Genome DataBase Japan (PGDBj): a portal website for the integration of plant genome-related databases.

Asamizu E, Ichihara H, Nakaya A, Nakamura Y, Hirakawa H, Ishii T, Tamura T, Fukami-Kobayashi K, Nakajima Y, Tabata S.

Plant Cell Physiol. 2014 Jan;55(1):e8. doi: 10.1093/pcp/pct189. Epub 2013 Dec 19.

3.

SABRE2: a database connecting plant EST/full-length cDNA clones with Arabidopsis information.

Fukami-Kobayashi K, Nakamura Y, Tamura T, Kobayashi M.

Plant Cell Physiol. 2014 Jan;55(1):e5. doi: 10.1093/pcp/pct177. Epub 2013 Dec 9.

PMID:
24323624
4.

Development of full-length cDNAs from Chinese cabbage (Brassica rapa Subsp. pekinensis) and identification of marker genes for defence response.

Abe H, Narusaka Y, Sasaki I, Hatakeyama K, Shin-I S, Narusaka M, Fukami-Kobayashi K, Matsumoto S, Kobayashi M.

DNA Res. 2011 Aug;18(4):277-89. doi: 10.1093/dnares/dsr018. Epub 2011 Jul 10.

5.

The RIKEN integrated database of mammals.

Masuya H, Makita Y, Kobayashi N, Nishikata K, Yoshida Y, Mochizuki Y, Doi K, Takatsuki T, Waki K, Tanaka N, Ishii M, Matsushima A, Takahashi S, Hijikata A, Kozaki K, Furuichi T, Kawaji H, Wakana S, Nakamura Y, Yoshiki A, Murata T, Fukami-Kobayashi K, Mohan S, Ohara O, Hayashizaki Y, Mizoguchi R, Obata Y, Toyoda T.

Nucleic Acids Res. 2011 Jan;39(Database issue):D861-70. doi: 10.1093/nar/gkq1078. Epub 2010 Nov 13.

6.

Four-dimensional quantitative analysis of the gait of mutant mice using coarse-grained motion capture.

Oota S, Mekada K, Fujita Y, Humphries J, Fukami-Kobayashi K, Obata Y, Rowe T, Yoshiki A.

Conf Proc IEEE Eng Med Biol Soc. 2009;2009:5227-30. doi: 10.1109/IEMBS.2009.5334287.

PMID:
19964861
7.

NBRP databases: databases of biological resources in Japan.

Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami-Kobayashi K, Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N, Kusaba M, Matuzawa T, Mitani S, Nakamura T, Nakamura Y, Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto H, Okuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H, Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y.

Nucleic Acids Res. 2010 Jan;38(Database issue):D26-32. doi: 10.1093/nar/gkp996. Epub 2009 Nov 24.

8.

Analysis of multiple occurrences of alternative splicing events in Arabidopsis thaliana using novel sequenced full-length cDNAs.

Iida K, Fukami-Kobayashi K, Toyoda A, Sakaki Y, Kobayashi M, Seki M, Shinozaki K.

DNA Res. 2009 Jun;16(3):155-64. doi: 10.1093/dnares/dsp009. Epub 2009 May 7.

9.

A tree of life based on protein domain organizations.

Fukami-Kobayashi K, Minezaki Y, Tateno Y, Nishikawa K.

Mol Biol Evol. 2007 May;24(5):1181-9. Epub 2007 Mar 1.

PMID:
17331957
10.

Genomic evolution of MHC class I region in primates.

Fukami-Kobayashi K, Shiina T, Anzai T, Sano K, Yamazaki M, Inoko H, Tateno Y.

Proc Natl Acad Sci U S A. 2005 Jun 28;102(26):9230-4. Epub 2005 Jun 20. Erratum in: Proc Natl Acad Sci U S A. 2006 Jan 17;103(3):825.

11.

Construction and characterization of chimeric proteins composed of type-1 and type-2 periplasmic binding proteins MglB and ArgT.

Kashiwagi K, Fukami-Kobayashi K, Shiba K, Nishikawa K.

Biosci Biotechnol Biochem. 2004 Apr;68(4):808-13.

12.

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.

13.

Characterization of folding pathways of the type-1 and type-2 periplasmic binding proteins MglB and ArgT.

Kashiwagi K, Shiba K, Fukami-Kobayashi K, Noda T, Nishikawa K, Noguchi H.

J Biochem. 2003 Mar;133(3):371-6.

14.

Parallel evolution of ligand specificity between LacI/GalR family repressors and periplasmic sugar-binding proteins.

Fukami-Kobayashi K, Tateno Y, Nishikawa K.

Mol Biol Evol. 2003 Feb;20(2):267-77.

PMID:
12598694
15.

[How to make good use of CLUSTALW].

Fukami-Kobayashi K, Saito N.

Tanpakushitsu Kakusan Koso. 2002 Jul;47(9):1237-9. Review. Japanese. No abstract available.

PMID:
12166070
16.

Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences.

Fukami-Kobayashi K, Schreiber DR, Benner SA.

J Mol Biol. 2002 Jun 7;319(3):729-43.

PMID:
12054866
17.

DNA Data Bank of Japan (DDBJ) for genome scale research in life science.

Tateno Y, Imanishi T, Miyazaki S, Fukami-Kobayashi K, Saitou N, Sugawara H, Gojobori T.

Nucleic Acids Res. 2002 Jan 1;30(1):27-30.

18.

Domain dislocation: a change of core structure in periplasmic binding proteins in their evolutionary history.

Fukami-Kobayashi K, Tateno Y, Nishikawa K.

J Mol Biol. 1999 Feb 12;286(1):279-90.

PMID:
9931266
19.

Formal design and implementation of an improved DDBJ DNA database with a new schema and object-oriented library.

Okayama T, Tamura T, Gojobori T, Tateno Y, Ikeo K, Miyazaki S, Fukami-Kobayashi K, Sugawara H.

Bioinformatics. 1998;14(6):472-8.

PMID:
9694985
20.

DNA Data Bank of Japan at work on genome sequence data.

Tateno Y, Fukami-Kobayashi K, Miyazaki S, Sugawara H, Gojobori T.

Nucleic Acids Res. 1998 Jan 1;26(1):16-20.

21.

Cloning and characterization of the gene encoding Halobacterium halobium adenylate kinase.

Song S, Inouye S, Kawai M, Fukami-Kobayashi K, Gõ M, Nakazawa A.

Gene. 1996 Oct 10;175(1-2):65-70.

PMID:
8917077
22.
23.

[Molecular evolution of proteins with RNA-binding domains].

Fukami-Kobayashi K, Go M.

Tanpakushitsu Kakusan Koso. 1994 Oct;39(13):2177-88. Review. Japanese. No abstract available.

PMID:
7972866
24.

Evolutionary clustering and functional similarity of RNA-binding proteins.

Fukami-Kobayashi K, Tomoda S, Go M.

FEBS Lett. 1993 Dec 6;335(2):289-93.

25.

Diversity of a ribonucleoprotein family in tobacco chloroplasts: two new chloroplast ribonucleoproteins and a phylogenetic tree of ten chloroplast RNA-binding domains.

Ye LH, Li YQ, Fukami-Kobayashi K, Go M, Konishi T, Watanabe A, Sugiura M.

Nucleic Acids Res. 1991 Dec 11;19(23):6485-90.

26.

Robustness of maximum likelihood tree estimation against different patterns of base substitutions.

Fukami-Kobayashi K, Tateno Y.

J Mol Evol. 1991 Jan;32(1):79-91.

PMID:
1849180

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