GABI-Kat SimpleSearch: a flanking sequence tag (FST) database for the identification of T-DNA insertion mutants in Arabidopsis thaliana

被引：53

作者：

Li, Y ^{[1
]}

Rosso, MG ^{[1
]}

Strizhov, N ^{[1
]}

Viehoever, P ^{[1
]}

Weisshaar, B ^{[1
]}

机构：

[1] Max Planck Inst Plant Breeding Res, D-50829 Cologne, Germany

来源：

BIOINFORMATICS | 2003年 / 19卷 / 11期

关键词：

D O I：

10.1093/bioinformatics/btg170

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

GABI-Kat SimpleSearch is a database of flanking sequence tags (FSTs) of T-DNA mutagenized Arabidopsis thaliana lines that were generated by the GABI-Kat project. Sequences flanking the T-DNA insertion sites were aligned to the A. thaliana genome sequence, annotated with information about the FST, the insertion site and the line from which the FST was derived. A web interface permits text-based as well as sequence-based searches for relevant insertions. GABI-Kat SimpleSearch aims to help biologists to quickly find T-DNA insertion mutants for their research.

引用

页码：1441 / 1442

页数：2

共 8 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[2] Base-calling of automated sequencer traces using phred.: I.: Accuracy assessment [J].

Ewing, B ;

Hillier, L ;

Wendl, MC ;

Green, P .

GENOME RESEARCH, 1998, 8 (03) :175-185

[3] Analysis of the genome sequence of the flowering plant Arabidopsis thaliana [J].

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 .

NATURE, 2000, 408 (6814) :796-815

[4] T-DNA as an insertional mutagen in Arabidopsis [J].

Krysan, PJ ;

Young, JC ;

Sussman, MR .

PLANT CELL, 1999, 11 (12) :2283-2290

[5] Analysis of flanking sequences from Dissociation insertion lines:: A database for reverse genetics in Arabidopsis [J].

Parinov, S ;

Sevugan, M ;

Ye, D ;

Yang, WC ;

Kumaran, M ;

Sundaresan, V .

PLANT CELL, 1999, 11 (12) :2263-2270

[6] FLAGdb/FST:: a database of mapped flanking insertion sites (FSTs) of Arabidopsis thaliana T-DNA transformants [J].

Samson, F ;

Brunaud, V ;

Balzergue, S ;

Dubreucq, B ;

Lepiniec, L ;

Pelletier, G ;

Caboche, M ;

Lecharny, A .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :94-97

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

Schoof, H ;

Zaccaria, P ;

Gundlach, H ;

Lemcke, K ;

Rudd, S ;

Kolesov, G ;

Arnold, R ;

Mewes, HW ;

Mayer, KFX .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :91-93

[8] Knock-out mutants from an En-1 mutagenized Arabidopsis thaliana population generate phenylpropanoid biosynthesis phenotypes [J].

Wisman, E ;

Hartmann, U ;

Sagasser, M ;

Baumann, E ;

Palme, K ;

Hahlbrock, K ;

Saedler, H ;

Weisshaar, B .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (21) :12432-12437

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