BRENDA, AMENDA and FRENDA: the enzyme information system in 2007

被引：107

作者：

Barthelmes, Jens ^{[1
]}

Ebeling, Christian ^{[1
]}

Chang, Antje ^{[1
]}

Schomburg, Ida ^{[1
]}

Schomburg, Dietmar ^{[1
]}

机构：

[1] Univ Cologne, Inst Biochem, D-50674 Cologne, Germany

来源：

NUCLEIC ACIDS RESEARCH | 2007年 / 35卷

关键词：

D O I：

10.1093/nar/gkl972

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：

The BRENDA (BRaunschweig ENzyme DAtabase) enzyme information system (http://www.brenda.uni-koeln.de) is the largest publicly available enzyme information system worldwide. The major parts of its contents are manually extracted from primary literature. It is not restricted to specific groups of enzymes, but includes information on all identified enzymes irrespective of the enzyme's source. The range of data encompasses functional, structural, sequence, localisation, disease-related, isolation, stability information on enzyme and ligand-related data. Each single entry is linked to the enzyme source and to a literature reference. Recently the data repository was complemented by text-mining data in AMENDA (Automatic Mining of ENzyme DAta) and FRENDA (Full Reference ENzyme DAta). A genome browser, membrane protein prediction and full-text search capacities were added. The newly implemented web service provides instant access to the data for programmers via a SOAP (Simple Object Access Protocol) interface. The BRENDA data can be downloaded in the form of a text file from the beginning of 2007.

引用

页码：D511 / D514

页数：4

共 12 条

[1] Ensembl 2006 [J].

Birney, E. ;

Andrews, D. ;

Caccamo, M. ;

Chen, Y. ;

Clarke, L. ;

Coates, G. ;

Cox, T. ;

Cunningham, F. ;

Curwen, V. ;

Cutts, T. ;

Down, T. ;

Durbin, R. ;

Fernandez-Suarez, X. M. ;

Flicek, P. ;

Graf, S. ;

Hammond, M. ;

Herrero, J. ;

Howe, K. ;

Iyer, V. ;

Jekosch, K. ;

Kahari, A. ;

Kasprzyk, A. ;

Keefe, D. ;

Kokocinski, F. ;

Kulesha, E. ;

London, D. ;

Longden, I. ;

Melsopp, C. ;

Meidl, P. ;

Overduin, B. ;

Parker, A. ;

Proctor, G. ;

Prlic, A. ;

Rae, M. ;

Rios, D. ;

Redmond, S. ;

Schuster, M. ;

Sealy, I. ;

Searle, S. ;

Severin, J. ;

Slater, G. ;

Smedley, D. ;

Smith, J. ;

Stabenau, A. ;

Stalker, J. ;

Trevanion, S. ;

Ureta-Vidal, A. ;

Vogel, J. ;

White, S. ;

Woodwark, C. .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D556-D561

[2] EMBL Nucleotide Sequence Database: developments in 2005 [J].

Cochrane, Guy ;

Aldebert, Philippe ;

Althorpe, Nicola ;

Andersson, Mikael ;

Baker, Wendy ;

Baldwin, Alastair ;

Bates, Kirsty ;

Bhattacharyya, Sumit ;

Browne, Paul ;

van den Broek, Alexandra ;

Castro, Matias ;

Duggan, Karyn ;

Eberhardt, Ruth ;

Faruque, Nadeem ;

Gamble, John ;

Kanz, Carola ;

Kulikova, Tamara ;

Lee, Charles ;

Leinonen, Rasko ;

Lin, Quan ;

Lombard, Vincent ;

Lopez, Rodrigo ;

McHale, Michelle ;

McWilliam, Hamish ;

Mukherjee, Gaurab ;

Nardone, Francesco ;

Pastor, Maria Pilar Garcia ;

Sobhany, Siamak ;

Stoehr, Peter ;

Tzouvara, Katerina ;

Vaughan, Robert ;

Wu, Dan ;

Zhu, Weimin ;

Apweiler, Rolf .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D10-D15

[3] WWW-based chemical information system [J].

Ertl, P ;

Jacob, O .

THEOCHEM-JOURNAL OF MOLECULAR STRUCTURE, 1997, 419 :113-120

[4] The Gene Ontology (GO) project in 2006 [J].

Harris, Midori A. ;

Clark, Jennifer I. ;

Ireland, Amelia ;

Lomax, Jane ;

Ashburner, Michael ;

Collins, Russell ;

Eilbeck, Karen ;

Lewis, Suzanna ;

Mungall, Chris ;

Richter, John ;

Rubin, Gerald M. ;

Shu, ShengQiang ;

Blake, Judith A. ;

Bult, Carol J. ;

Diehl, Alexander D. ;

Dolan, Mary E. ;

Drabkin, Harold J. ;

Eppig, Janan T. ;

Hill, David P. ;

Ni, Li ;

Ringwald, Martin ;

Balakrishnan, Rama ;

Binkley, Gail ;

Cherry, J. Michael ;

Christie, Karen R. ;

Costanzo, Maria C. ;

Dong, Qing ;

Engel, Stacia R. ;

Fisk, Dianna G. ;

Hirschman, Jodi E. ;

Hitz, Benjamin C. ;

Hong, Eurie L. ;

Lane, Christopher ;

Miyasato, Stuart ;

Nash, Robert ;

Sethuraman, Anand ;

Skrzypek, Marek ;

Theesfeld, Chandra L. ;

Weng, Shuai ;

Botstein, David ;

Dolinski, Kara ;

Oughtred, Rose ;

Berardini, Tanya ;

Mundodi, Suparna ;

Rhee, Seung Y. ;

Apweiler, Rolf ;

Barrell, Daniel ;

Camon, Evelyn ;

Dimmer, Emily ;

Mulder, Nicola .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D322-D326

[5]

*NAT LIB MED, 1960, MED SUBJ HEAD MAIN H

[6]

Schomburg D., 2001, SPRINGER HDB ENZYMES

[7] BRENDA, the enzyme database: updates and major new developments [J].

Schomburg, I ;

Chang, A ;

Ebeling, C ;

Gremse, M ;

Heldt, C ;

Huhn, G ;

Schomburg, D .

NUCLEIC ACIDS RESEARCH, 2004, 32 :D431-D433

[8] BRENDA, enzyme data and metabolic information [J].

Schomburg, I ;

Chang, A ;

Schomburg, D .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :47-49

[9]

Sonnhammer E L, 1998, Proc Int Conf Intell Syst Mol Biol, V6, P175

[10]

Stein SE, 2003, PROCEEDINGS OF THE 2003 INTERNATIONAL CHEMICAL INFORMATION CONFERENCE, P131

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