MIPS Arabidopsis thaliana Database (MAtDB):: an integrated biological knowledge resource based on the first complete plant genome

被引:151
作者
Schoof, H [1 ]
Zaccaria, P [1 ]
Gundlach, H [1 ]
Lemcke, K [1 ]
Rudd, S [1 ]
Kolesov, G [1 ]
Arnold, R [1 ]
Mewes, HW [1 ]
Mayer, KFX [1 ]
机构
[1] GSF, Natl Res Ctr Environm & Hlth, Inst Bioinformat MIPS, D-85764 Neuherberg, Germany
关键词
D O I
10.1093/nar/30.1.91
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
Arabidopsis thaliana is the first plant for which the complete genome has been sequenced and published. Annotation of complex eukaryotic genomes requires more than the assignment of genetic elements to the sequence. Besides completing the list of genes, we need to discover their cellular roles, their regulation and their interactions in order to understand the workings of the whole plant. The MIPS Arabidopsis thaliana Database (MAtDB; http://mips.gsf.de/proj/thal/db) started out as a repository for genome sequence data in the European Scientists Sequencing Arabidopsis (ESSA) project and the Arabidopsis Genome Initiative. Our aim is to transform MAtDB into an integrated biological knowledge resource by integrating diverse data, tools, query and visualization capabilities and by creating a comprehensive resource for Arabidopsis as a reference model for other species, including crop plants.
引用
收藏
页码:91 / 93
页数:3
相关论文
共 9 条
  • [1] Gene Ontology: tool for the unification of biology
    Ashburner, M
    Ball, CA
    Blake, JA
    Botstein, D
    Butler, H
    Cherry, JM
    Davis, AP
    Dolinski, K
    Dwight, SS
    Eppig, JT
    Harris, MA
    Hill, DP
    Issel-Tarver, L
    Kasarskis, A
    Lewis, S
    Matese, JC
    Richardson, JE
    Ringwald, M
    Rubin, GM
    Sherlock, G
    [J]. NATURE GENETICS, 2000, 25 (01) : 25 - 29
  • [2] Functional and structural genomics using PEDANT
    Frishman, D
    Albermann, K
    Hani, J
    Heumann, K
    Metanomski, A
    Zollner, A
    Mewes, HW
    [J]. BIOINFORMATICS, 2001, 17 (01) : 44 - 57
  • [3] Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    Kaul, S
    Koo, HL
    Jenkins, J
    Rizzo, M
    Rooney, T
    Tallon, LJ
    Feldblyum, T
    Nierman, W
    Benito, MI
    Lin, XY
    Town, CD
    Venter, JC
    Fraser, CM
    Tabata, S
    Nakamura, Y
    Kaneko, T
    Sato, S
    Asamizu, E
    Kato, T
    Kotani, H
    Sasamoto, S
    Ecker, JR
    Theologis, A
    Federspiel, NA
    Palm, CJ
    Osborne, BI
    Shinn, P
    Conway, AB
    Vysotskaia, VS
    Dewar, K
    Conn, L
    Lenz, CA
    Kim, CJ
    Hansen, NF
    Liu, SX
    Buehler, E
    Altafi, H
    Sakano, H
    Dunn, P
    Lam, B
    Pham, PK
    Chao, Q
    Nguyen, M
    Yu, GX
    Chen, HM
    Southwick, A
    Lee, JM
    Miranda, M
    Toriumi, MJ
    Davis, RW
    [J]. NATURE, 2000, 408 (6814) : 796 - 815
  • [4] Comparing sequenced segments of the tomato and Arabidopsis genomes:: Large-scale duplication followed by selective gene loss creates a network of synteny
    Ku, HM
    Vision, T
    Liu, JP
    Tanksley, SD
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2000, 97 (16) : 9121 - 9126
  • [5] Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana
    Mayer, K
    Schüller, C
    Wambutt, R
    Murphy, G
    Volckaert, G
    Pohl, T
    Düsterhöft, A
    Stiekema, W
    Entian, KD
    Terryn, N
    Harris, B
    Ansorge, W
    Brandt, P
    Grivell, L
    Rieger, M
    Weichselgartner, M
    de Simone, V
    Obermaier, B
    Mache, R
    Müller, M
    Kreis, M
    Delseny, M
    Puigdomenech, P
    Watson, M
    Schmidtheini, T
    Reichert, B
    Portatelle, D
    Perez-Alonso, M
    Boutry, M
    Bancroft, I
    Vos, P
    Hoheisel, J
    Zimmermann, W
    Wedler, H
    Ridley, P
    Langham, SA
    McCullagh, B
    Bilham, L
    Robben, J
    Van der Schueren, J
    Grymonprez, B
    Chuang, YJ
    Vandenbussche, F
    Braeken, M
    Weltjens, I
    Voet, M
    Bastiaens, I
    Aert, R
    Defoor, E
    Weitzenegger, T
    [J]. NATURE, 1999, 402 (6763) : 769 - +
  • [6] Conservation of microstructure between a sequenced region of the genome of rice and multiple segments of the genome of Arabidopsis thaliana
    Mayer, K
    Murphy, G
    Tarchini, R
    Wambutt, R
    Volckaert, G
    Pohl, T
    Düsterhöft, A
    Stiekema, W
    Entian, KD
    Terryn, N
    Lemcke, K
    Haase, D
    Hall, CR
    van Dodeweerd, AM
    Tingey, SV
    Mewes, HW
    Bevan, MW
    Bancroft, I
    [J]. GENOME RESEARCH, 2001, 11 (07) : 1167 - 1174
  • [7] MIPS:: a database for genomes and protein sequences
    Mewes, HW
    Frishman, D
    Gruber, C
    Geier, B
    Haase, D
    Kaps, A
    Lemcke, K
    Mannhaupt, G
    Pfeiffer, F
    Schüller, C
    Stocker, S
    Weil, B
    [J]. NUCLEIC ACIDS RESEARCH, 2000, 28 (01) : 37 - 40
  • [8] Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana
    Salanoubat, M
    Lemcke, K
    Rieger, M
    Ansorge, W
    Unseld, M
    Fartmann, B
    Valle, G
    Blöcker, H
    Perez-Alonso, M
    Obermaier, B
    Delseny, M
    Boutry, M
    Grivell, LA
    Mache, R
    Puigdomènech, P
    De Simone, V
    Choisne, N
    Artiguenave, F
    Robert, C
    Brottier, P
    Wincker, P
    Cattolico, L
    Weissenbach, J
    Saurin, W
    Quétier, F
    Schäfer, M
    Müller-Auer, S
    Gabel, C
    Fuchs, M
    Benes, V
    Wurmbach, E
    Drzonek, H
    Erfle, H
    Jordan, N
    Bangert, S
    Wiedelmann, R
    Kranz, H
    Voss, H
    Holland, R
    Brandt, P
    Nyakatura, G
    Vezzi, A
    D'Angelo, M
    Pallavicini, A
    Toppo, S
    Simionati, B
    Conrad, A
    Hornischer, K
    Kauer, G
    Löhnert, TH
    [J]. NATURE, 2000, 408 (6814) : 820 - 822
  • [9] Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana
    Tabata, S
    Kaneko, T
    Nakamura, Y
    Kotani, H
    Kato, T
    Asamizu, E
    Miyajima, N
    Sasamoto, S
    Kimura, T
    Hosouchi, T
    Kawashima, K
    Kohara, M
    Matsumoto, M
    Matsuno, A
    Muraki, A
    Nakayama, S
    Nakazaki, N
    Naruo, K
    Okumura, S
    Shinpo, S
    Takeuchi, C
    Wada, T
    Watanabe, A
    Yamada, M
    Yasuda, M
    Sato, S
    de la Bastide, M
    Huang, E
    Spiegel, L
    Gnoj, L
    O'Shaughnessy, A
    Preston, R
    Habermann, K
    Murray, J
    Johnson, D
    Rohlrng, T
    Nelson, J
    Stoneking, T
    Pepin, K
    Spieth, J
    Sekhon, M
    Armstrong, J
    Becker, M
    Belter, E
    Cordum, H
    Cordes, M
    Courtney, L
    Courtney, W
    Dante, M
    Du, H
    [J]. NATURE, 2000, 408 (6814) : 823 - 826