DRTF: a database of rice transcription factors

被引：126
作者：
Gao, G
Zhong, YF
Guo, AY
Zhu, QH
Tang, W
Zheng, WM
Gu, XC
Wei, LP [1 ]
Luo, JC
机构：
[1] Peking Univ, Ctr Bioinformat, Natl Lab Prot Engn & Plant Genet Engn, Coll Life Sci, Beijing 100871, Peoples R China
[2] Chinese Acad Sci, Inst Theoret Phys, Beijing 100080, Peoples R China
来源：
BIOINFORMATICS | 2006年 / 22卷 / 10期
基金：
中国国家自然科学基金;
关键词：
D O I：
10.1093/bioinformatics/btl107
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
DRTF contains 2025 putative transcription factors (TFs) in Oryza sativa L. ssp. indica and 2384 in ssp. japonica, distributed in 63 families, identified by computational prediction and manual curation. It includes detailed annotations of each TF including sequence features, functional domains, Gene Ontology assignment, chromosomal localization, EST and microarray expression information, as well as multiple sequence alignment of the DNA-binding domains for each TF family. The database can be browsed and searched with a user-friendly web interface.
引用
收藏
页码：1286 / 1287
页数：2
相关论文
共 13 条
  • [1] Bateman A, 2004, NUCLEIC ACIDS RES, V32, pD138, DOI [10.1093/nar/gkp985, 10.1093/nar/gkr1065, 10.1093/nar/gkh121]
  • [2] EMBL Nucleotide Sequence Database: developments in 2005
    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
    [J]. NUCLEIC ACIDS RESEARCH, 2006, 34 : D10 - D15
  • [3] AGRIS:: Arabidopsis Gene Regulatory Information Server, an information resource of Arabidopsis cis-regulatory elements and transcription factors -: art. no. 25
    Davuluri, RV
    Sun, H
    Palaniswamy, SK
    Matthews, N
    Molina, C
    Kurtz, M
    Grotewold, E
    [J]. BMC BIOINFORMATICS, 2003, 4 (1)
  • [4] Profile hidden Markov models
    Eddy, SR
    [J]. BIOINFORMATICS, 1998, 14 (09) : 755 - 763
  • [5] DATF:: a database of Arabidopsis transcription factors
    Guo, AY
    He, K
    Liu, D
    Bai, SN
    Gu, XC
    Wei, LP
    Luo, JC
    [J]. BIOINFORMATICS, 2005, 21 (10) : 2568 - 2569
  • [6] Two-component signal transduction pathways in Arabidopsis
    Hwang, D
    Chen, HC
    Sheen, J
    [J]. PLANT PHYSIOLOGY, 2002, 129 (02) : 500 - 515
  • [7] MARTYS V, 2006, NUCLEIC ACIDS RES, V34, pD108
  • [8] NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
    Pruitt, KD
    Tatusova, T
    Maglott, DR
    [J]. NUCLEIC ACIDS RESEARCH, 2005, 33 : D501 - D504
  • [9] InterProScan: protein domains identifier
    Quevillon, E
    Silventoinen, V
    Pillai, S
    Harte, N
    Mulder, N
    Apweiler, R
    Lopez, R
    [J]. NUCLEIC ACIDS RESEARCH, 2005, 33 : W116 - W120
  • [10] Arabidopsis transcription factors:: Genome-wide comparative analysis among eukaryotes
    Riechmann, JL
    Heard, J
    Martin, G
    Reuber, L
    Jiang, CZ
    Keddie, J
    Adam, L
    Pineda, O
    Ratcliffe, OJ
    Samaha, RR
    Creelman, R
    Pilgrim, M
    Broun, P
    Zhang, JZ
    Ghandehari, D
    Sherman, BK
    Yu, CL
    [J]. SCIENCE, 2000, 290 (5499) : 2105 - 2110
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