Literature DB >> 12519976

GénoPlante-Info (GPI): a collection of databases and bioinformatics resources for plant genomics.

Delphine Samson1, Fabrice Legeai, Emmanuelle Karsenty, Sébastien Reboux, Jean-Baptiste Veyrieras, Jeremy Just, Emmanuel Barillot.   

Abstract

Génoplante is a partnership program between public French institutes (INRA, CIRAD, IRD and CNRS) and private companies (Biogemma, Bayer CropScience and Bioplante) that aims at developing genome analysis programs for crop species (corn, wheat, rapeseed, sunflower and pea) and model plants (Arabidopsis and rice). The outputs of these programs form a wealth of information (genomic sequence, transcriptome, proteome, allelic variability, mapping and synteny, and mutation data) and tools (databases, interfaces, analysis software), that are being integrated and made public at the public bioinformatics resource centre of Génoplante: GénoPlante-Info (GPI). This continuous flood of data and tools is regularly updated and will grow continuously during the coming two years. Access to the GPI databases and tools is available at http://genoplante-info.infobiogen.fr/.

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Year:  2003        PMID： 12519976      PMCID： PMC165507          DOI： 10.1093/nar/gkg060

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  13 in total

1.  UK CropNet: a collection of databases and bioinformatics resources for crop plant genomics.

Authors:  J Dicks; M Anderson; L Cardle; S Cartinhour; M Couchman; G Davenport; J Dickson; M Gale; D Marshall; S May; H McWilliam; A O'Malia; H Ougham; M Trick; S Walsh; R Waugh
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  CAP3: A DNA sequence assembly program.

Authors:  X Huang; A Madan
Journal:  Genome Res       Date:  1999-09       Impact factor: 9.043

3.  A Web interface generator for molecular biology programs in Unix.

Authors:  C Letondal
Journal:  Bioinformatics       Date:  2001-01       Impact factor: 6.937

4.  Integral membrane proteins of the chloroplast envelope: identification and subcellular localization of new transporters.

Authors:  Myriam Ferro; Daniel Salvi; Helene Riviere-Rolland; Thierry Vermat; Daphne Seigneurin-Berny; Didier Grunwald; Jerome Garin; Jacques Joyard; Norbert Rolland
Journal:  Proc Natl Acad Sci U S A       Date:  2002-08-12       Impact factor: 11.205

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

Authors:  F Samson; V Brunaud; S Balzergue; B Dubreucq; L Lepiniec; G Pelletier; M Caboche; A Lecharny
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

6.  Logitlinear models for the prediction of splice sites in plant pre-mRNA sequences.

Authors:  J Kleffe; K Hermann; W Vahrson; B Wittig; V Brendel
Journal:  Nucleic Acids Res       Date:  1996-12-01       Impact factor: 16.971

7.  LASSAP, a LArge Scale Sequence compArison Package.

Authors:  E Glémet; J J Codani
Journal:  Comput Appl Biosci       Date:  1997-04

8.  A draft sequence of the rice genome (Oryza sativa L. ssp. indica).

Authors:  Jun Yu; Songnian Hu; Jun Wang; Gane Ka-Shu Wong; Songgang Li; Bin Liu; Yajun Deng; Li Dai; Yan Zhou; Xiuqing Zhang; Mengliang Cao; Jing Liu; Jiandong Sun; Jiabin Tang; Yanjiong Chen; Xiaobing Huang; Wei Lin; Chen Ye; Wei Tong; Lijuan Cong; Jianing Geng; Yujun Han; Lin Li; Wei Li; Guangqiang Hu; Xiangang Huang; Wenjie Li; Jian Li; Zhanwei Liu; Long Li; Jianping Liu; Qiuhui Qi; Jinsong Liu; Li Li; Tao Li; Xuegang Wang; Hong Lu; Tingting Wu; Miao Zhu; Peixiang Ni; Hua Han; Wei Dong; Xiaoyu Ren; Xiaoli Feng; Peng Cui; Xianran Li; Hao Wang; Xin Xu; Wenxue Zhai; Zhao Xu; Jinsong Zhang; Sijie He; Jianguo Zhang; Jichen Xu; Kunlin Zhang; Xianwu Zheng; Jianhai Dong; Wanyong Zeng; Lin Tao; Jia Ye; Jun Tan; Xide Ren; Xuewei Chen; Jun He; Daofeng Liu; Wei Tian; Chaoguang Tian; Hongai Xia; Qiyu Bao; Gang Li; Hui Gao; Ting Cao; Juan Wang; Wenming Zhao; Ping Li; Wei Chen; Xudong Wang; Yong Zhang; Jianfei Hu; Jing Wang; Song Liu; Jian Yang; Guangyu Zhang; Yuqing Xiong; Zhijie Li; Long Mao; Chengshu Zhou; Zhen Zhu; Runsheng Chen; Bailin Hao; Weimou Zheng; Shouyi Chen; Wei Guo; Guojie Li; Siqi Liu; Ming Tao; Jian Wang; Lihuang Zhu; Longping Yuan; Huanming Yang
Journal:  Science       Date:  2002-04-05       Impact factor: 47.728

9.  Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information.

Authors:  S M Hebsgaard; P G Korning; N Tolstrup; J Engelbrecht; P Rouzé; S Brunak
Journal:  Nucleic Acids Res       Date:  1996-09-01       Impact factor: 16.971

10.  CATMA: a complete Arabidopsis GST database.

Authors:  Mark L Crowe; Carine Serizet; Vincent Thareau; Sébastien Aubourg; Pierre Rouzé; Pierre Hilson; Jim Beynon; Peter Weisbeek; Paul van Hummelen; Philippe Reymond; Javier Paz-Ares; Wilfried Nietfeld; Martin Trick
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971
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  12 in total

Review 1.  Molecular markers from the transcribed/expressed region of the genome in higher plants.

Authors:  P K Gupta; S Rustgi
Journal:  Funct Integr Genomics       Date:  2004-04-17       Impact factor: 3.410

2.  Endosperm-preferred expression of maize genes as revealed by transcriptome-wide analysis of expressed sequence tags.

Authors:  Natalia C Verza; Thaís Rezende E Silva; Germano Cord Neto; Fábio T S Nogueira; Paulo H Fisch; Vincente E de Rosa; Marcelo M Rebello; André L Vettore; Felipe Rodrigues da Silva; Paulo Arruda
Journal:  Plant Mol Biol       Date:  2005-09       Impact factor: 4.076

3.  Partial sequences of nitrogen metabolism genes in hexaploid wheat.

Authors:  M Boisson; K Mondon; V Torney; N Nicot; A-L Laine; N Bahrman; A Gouy; F Daniel-Vedele; B Hirel; P Sourdille; M Dardevet; C Ravel; J Le Gouis
Journal:  Theor Appl Genet       Date:  2005-02-16       Impact factor: 5.699

4.  Linkage mapping of 1454 new maize candidate gene Loci.

Authors:  Matthieu Falque; Laurent Décousset; Delphine Dervins; Anne-Marie Jacob; Johann Joets; Jean-Pierre Martinant; Xavier Raffoux; Nicolas Ribière; Céline Ridel; Delphine Samson; Alain Charcosset; Alain Murigneux
Journal:  Genetics       Date:  2005-06-03       Impact factor: 4.562

5.  MAIZEWALL. Database and developmental gene expression profiling of cell wall biosynthesis and assembly in maize.

Authors:  Sabine Guillaumie; Hélène San-Clemente; Caroline Deswarte; Yves Martinez; Catherine Lapierre; Alain Murigneux; Yves Barrière; Magalie Pichon; Deborah Goffner
Journal:  Plant Physiol       Date:  2006-11-10       Impact factor: 8.340

6.  Differential expression of phenylpropanoid and related genes in brown-midrib bm1, bm2, bm3, and bm4 young near-isogenic maize plants.

Authors:  Sabine Guillaumie; Magalie Pichon; Jean-Pierre Martinant; Mickael Bosio; Deborah Goffner; Yves Barrière
Journal:  Planta       Date:  2007-01-17       Impact factor: 4.540

7.  Expression of cell wall related genes in basal and ear internodes of silking brown-midrib-3, caffeic acid O-methyltransferase (COMT) down-regulated, and normal maize plants.

Authors:  Sabine Guillaumie; Deborah Goffner; Odile Barbier; Jean-Pierre Martinant; Magalie Pichon; Yves Barrière
Journal:  BMC Plant Biol       Date:  2008-06-26       Impact factor: 4.215

8.  GnpIS: an information system to integrate genetic and genomic data from plants and fungi.

Authors:  Delphine Steinbach; Michael Alaux; Joelle Amselem; Nathalie Choisne; Sophie Durand; Raphaël Flores; Aminah-Olivia Keliet; Erik Kimmel; Nicolas Lapalu; Isabelle Luyten; Célia Michotey; Nacer Mohellibi; Cyril Pommier; Sébastien Reboux; Dorothée Valdenaire; Daphné Verdelet; Hadi Quesneville
Journal:  Database (Oxford)       Date:  2013-08-19       Impact factor: 3.451

9.  Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases.

Authors:  Julien Wollbrett; Pierre Larmande; Frédéric de Lamotte; Manuel Ruiz
Journal:  BMC Bioinformatics       Date:  2013-04-15       Impact factor: 3.169

10.  Large-scale gene discovery in the pea aphid Acyrthosiphon pisum (Hemiptera).

Authors:  Beatriz Sabater-Muñoz; Fabrice Legeai; Claude Rispe; Joël Bonhomme; Peter Dearden; Carole Dossat; Aymeric Duclert; Jean-Pierre Gauthier; Danièle Giblot Ducray; Wayne Hunter; Phat Dang; Srini Kambhampati; David Martinez-Torres; Teresa Cortes; Andrès Moya; Atsushi Nakabachi; Cathy Philippe; Nathalie Prunier-Leterme; Yvan Rahbé; Jean-Christophe Simon; David L Stern; Patrick Wincker; Denis Tagu
Journal:  Genome Biol       Date:  2006-03-10       Impact factor: 13.583
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