DDBJ dealing with mass data produced by the second generation sequencer

被引：12

作者：

Sugawara, Hideaki

Ikeo, Kazuho

Fukuchi, Satoshi

Gojobori, Takashi

Tateno, Yoshio ^{[1
]}

机构：

[1] Res Org Informat & Syst, Natl Inst Genet, Ctr Informat Biol, Mishima, Shizuoka 4118540, Japan

来源：

NUCLEIC ACIDS RESEARCH | 2009年 / 37卷

基金：

日本学术振兴会;

关键词：

GENOME;

D O I：

10.1093/nar/gkn724

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) collected and released 2 368 110 entries or 1 415 106 598 bases in the period from July 2007 to June 2008. The releases in this period include genome scale data of Bombyx mori, Oryzas latipes, Drosophila and Lotus japonicus. In addition, from this year we collected and released trace archive data in collaboration with National Center for Biotechnology Information (NCBI). The first release contains those of O. latipes and bacterial meta genomes in human gut. To cope with the current progress of sequencing technology, we also accepted and released more than 100 million of short reads of parasitic protozoa and their hosts that were produced by using a Solexa sequencer.

引用

页码：D16 / D18

页数：3

共 7 条

[1] Genome-wide Insertional mutagenesis of Arabidopsis thaliana [J].

Alonso, JM ;

Stepanova, AN ;

Leisse, TJ ;

Kim, CJ ;

Chen, HM ;

Shinn, P ;

Stevenson, DK ;

Zimmerman, J ;

Barajas, P ;

Cheuk, R ;

Gadrinab, C ;

Heller, C ;

Jeske, A ;

Koesema, E ;

Meyers, CC ;

Parker, H ;

Prednis, L ;

Ansari, Y ;

Choy, N ;

Deen, H ;

Geralt, M ;

Hazari, N ;

Hom, E ;

Karnes, M ;

Mulholland, C ;

Ndubaku, R ;

Schmidt, I ;

Guzman, P ;

Aguilar-Henonin, L ;

Schmid, M ;

Weigel, D ;

Carter, DE ;

Marchand, T ;

Risseeuw, E ;

Brogden, D ;

Zeko, A ;

Crosby, WL ;

Berry, CC ;

Ecker, JR .

SCIENCE, 2003, 301 (5633) :653-657

[2] Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes [J].

Kurokawa, Ken ;

Itoh, Takehiko ;

Kuwahara, Tomomi ;

Oshima, Kenshiro ;

Toh, Hidehiro ;

Toyoda, Atsushi ;

Takami, Hideto ;

Morita, Hidetoshi ;

Sharma, Vineet K. ;

Srivastava, Tulika P. ;

Taylor, Todd D. ;

Noguchi, Hideki ;

Mori, Hiroshi ;

Ogura, Yoshitoshi ;

Ehrlich, Dusko S. ;

Itoh, Kikuji ;

Takagi, Toshihisa ;

Sakaki, Yoshiyuki ;

Hayashi, Tetsuya ;

Hattori, Masahira .

DNA RESEARCH, 2007, 14 (04) :169-181

[3] Initial sequencing and analysis of the human genome [J].

Lander, ES ;

Int Human Genome Sequencing Consortium ;

Linton, LM ;

Birren, B ;

Nusbaum, C ;

Zody, MC ;

Baldwin, J ;

Devon, K ;

Dewar, K ;

Doyle, M ;

FitzHugh, W ;

Funke, R ;

Gage, D ;

Harris, K ;

Heaford, A ;

Howland, J ;

Kann, L ;

Lehoczky, J ;

LeVine, R ;

McEwan, P ;

McKernan, K ;

Meldrim, J ;

Mesirov, JP ;

Miranda, C ;

Morris, W ;

Naylor, J ;

Raymond, C ;

Rosetti, M ;

Santos, R ;

Sheridan, A ;

Sougnez, C ;

Stange-Thomann, N ;

Stojanovic, N ;

Subramanian, A ;

Wyman, D ;

Rogers, J ;

Sulston, J ;

Ainscough, R ;

Beck, S ;

Bentley, D ;

Burton, J ;

Clee, C ;

Carter, N ;

Coulson, A ;

Deadman, R ;

Deloukas, P ;

Dunham, A ;

Dunham, I ;

Durbin, R ;

French, L .

NATURE, 2001, 409 (6822) :860-921

[4] The diploid genome sequence of an individual human [J].

Levy, Samuel ;

Sutton, Granger ;

Ng, Pauline C. ;

Feuk, Lars ;

Halpern, Aaron L. ;

Walenz, Brian P. ;

Axelrod, Nelson ;

Huang, Jiaqi ;

Kirkness, Ewen F. ;

Denisov, Gennady ;

Lin, Yuan ;

MacDonald, Jeffrey R. ;

Pang, Andy Wing Chun ;

Shago, Mary ;

Stockwell, Timothy B. ;

Tsiamouri, Alexia ;

Bafna, Vineet ;

Bansal, Vikas ;

Kravitz, Saul A. ;

Busam, Dana A. ;

Beeson, Karen Y. ;

Mclntosh, Tina C. ;

Remington, Karin A. ;

Abril, Josep F. ;

Gill, John ;

Borman, Jon ;

Rogers, Yu-Hui ;

Frazier, Marvin E. ;

Scherer, Stephen W. ;

Strausberg, Robert L. ;

Venter, J. Craig .

PLOS BIOLOGY, 2007, 5 (10) :2113-2144

[5] Genome Structure of the Legume, Lotus japonicus [J].

Sato, Shusei ;

Nakamura, Yasukazu ;

Kaneko, Takaklazu ;

Asamizu, Erika ;

Kato, Tomohiko ;

Nakao, Mitsuteru ;

Sasamoto, Shigemi ;

Watanabe, Akiko ;

Ono, Akiko ;

Kawashima, Kumiko ;

Fujishiro, Tsunakazu ;

Katoh, Midori ;

Kohara, Mitsuyo ;

Kishida, Yoshie ;

Minami, Chiharu ;

Nakayama, Shinobu ;

Nakazaki, Naomi ;

Shimizu, Yoshimi ;

Shinpo, Sayaka ;

Takahashi, Chika ;

Wada, Tsuyuko ;

Yamada, Manabu ;

Ohmido, Nobuko ;

Hayashi, Makoto ;

Fukui, Kiichi ;

Baba, Tomoya ;

Nakamichi, Tomoko ;

Mori, Hirotada ;

Tabata, Satoshi .

DNA RESEARCH, 2008, 15 (04) :227-239

[6] The sequence of the human genome [J].

Venter, JC ;

Adams, MD ;

Myers, EW ;

Li, PW ;

Mural, RJ ;

Sutton, GG ;

Smith, HO ;

Yandell, M ;

Evans, CA ;

Holt, RA ;

Gocayne, JD ;

Amanatides, P ;

Ballew, RM ;

Huson, DH ;

Wortman, JR ;

Zhang, Q ;

Kodira, CD ;

Zheng, XQH ;

Chen, L ;

Skupski, M ;

Subramanian, G ;

Thomas, PD ;

Zhang, JH ;

Miklos, GLG ;

Nelson, C ;

Broder, S ;

Clark, AG ;

Nadeau, C ;

McKusick, VA ;

Zinder, N ;

Levine, AJ ;

Roberts, RJ ;

Simon, M ;

Slayman, C ;

Hunkapiller, M ;

Bolanos, R ;

Delcher, A ;

Dew, I ;

Fasulo, D ;

Flanigan, M ;

Florea, L ;

Halpern, A ;

Hannenhalli, S ;

Kravitz, S ;

Levy, S ;

Mobarry, C ;

Reinert, K ;

Remington, K ;

Abu-Threideh, J ;

Beasley, E .

SCIENCE, 2001, 291 (5507) :1304-+

[7] The complete genome of an individual by massively parallel DNA sequencing [J].

Wheeler, David A. ;

Srinivasan, Maithreyan ;

Egholm, Michael ;

Shen, Yufeng ;

Chen, Lei ;

McGuire, Amy ;

He, Wen ;

Chen, Yi-Ju ;

Makhijani, Vinod ;

Roth, G. Thomas ;

Gomes, Xavier ;

Tartaro, Karrie ;

Niazi, Faheem ;

Turcotte, Cynthia L. ;

Irzyk, Gerard P. ;

Lupski, James R. ;

Chinault, Craig ;

Song, Xing-zhi ;

Liu, Yue ;

Yuan, Ye ;

Nazareth, Lynne ;

Qin, Xiang ;

Muzny, Donna M. ;

Margulies, Marcel ;

Weinstock, George M. ;

Gibbs, Richard A. ;

Rothberg, Jonathan M. .

NATURE, 2008, 452 (7189) :872-U5

← 1 →