Research article
Complete reannotation of the Arabidopsis genome: methods, tools, protocols and the final release
-
* Corresponding author: Christopher D Town cdtown@tigr.org
BMC Biology 2005, 3:7 doi:10.1186/1741-7007-3-7
Accesses
- Last 30 days: 60 accesses
- Last 365 days: 806 accesses
- All time: 9580 accesses
Cited by
BioMed Central: 17 citations
|
Research article
RNA-Seq improves annotation of protein-coding genes in the cucumber genome Zhen Li, Zhonghua Zhang, Pengcheng Yan, Sanwen Huang, Zhangjun Fei, Kui Lin BMC Genomics 2011, 12:540 (2 November 2011) |
|
Research
Synergistic use of plant-prokaryote comparative genomics for functional annotations Svetlana Gerdes, Basma El Yacoubi, Marc Bailly, Ian K Blaby, Crysten E Blaby-Haas, Linda Jeanguenin, Aurora Lara-Núñez, Anne Pribat, Jeffrey C Waller, Andreas Wilke, Ross Overbeek, Andrew D Hanson, Valérie de Crécy-Lagard BMC Genomics 2011, 12(Suppl 1):S2 (15 June 2011) |
|
Research article
HyeRan Kim, Su Choi, Jina Bae, Chang Hong, Seo Lee, Md Hossain, Dan Van Nguyen, Mina Jin, Beom-Seok Park, Jea-Wook Bang, Ian Bancroft, Yong Lim BMC Genomics 2009, 10:432 (15 September 2009) |
|
Software
Genoviz Software Development Kit: Java tool kit for building genomics visualization applications Gregg A Helt, John W Nicol, Ed Erwin, Eric Blossom, Steven G Blanchard, Stephen A Chervitz, Cyrus Harmon, Ann E Loraine BMC Bioinformatics 2009, 10:266 (25 August 2009) |
|
Editorial
Elizabeth C Moylan, Matt J Hodgkinson, Maria Kowalczuk, Scott C Edmunds, Penelope A Webb BMC Biology 2008, 6:53 (16 December 2008) The BMC Biology Editorial team reflect on the past five years and how the journal came to receive its impressive debut impact factor of, appropriately, five!
|
|
Research article
Characterization of paralogous protein families in rice Haining Lin, Shu Ouyang, Amy Egan, Kan Nobuta, Brian J Haas, Wei Zhu, Xun Gu, Joana C Silva, Blake C Meyers, C Robin Buell BMC Plant Biology 2008, 8:18 (19 February 2008) |
|
Method
Brian J Haas, Steven L Salzberg, Wei Zhu, Mihaela Pertea, Jonathan E Allen, Joshua Orvis, Owen White, C Robin Buell, Jennifer R Wortman Genome Biology 2008, 9:R7 (11 January 2008) EVidenceModeler (EVM) is an automated annotation tool that predicts protein-coding regions, alternatively spliced transcripts and untranslated regions of eukaryotic genes. |
|
Software
EuCAP, a Eukaryotic Community Annotation Package, and its application to the rice genome Françoise Thibaud-Nissen, Matthew Campbell, John P Hamilton, Wei Zhu, C Buell BMC Genomics 2007, 8:388 (25 October 2007) |
|
Research
Comparative genomic analysis of fungal genomes reveals intron-rich ancestors Jason E Stajich, Fred S Dietrich, Scott W Roy Genome Biology 2007, 8:R223 (19 October 2007) Analysis of intron gain and loss in fungal genomes provides support for an intron-rich fungus-animal ancestor. |
|
Research article
Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus Christopher A Desjardins, Dawn E Gundersen-Rindal, Jessica B Hostetler, Luke J Tallon, Roger W Fuester, Michael C Schatz, Monica J Pedroni, Douglas W Fadrosh, Brian J Haas, Bradley S Toms, Dan Chen, Vishvanath Nene BMC Microbiology 2007, 7:61 (26 June 2007) |
|
Research article
Locational distribution of gene functional classes in Arabidopsis thaliana Michael C Riley, Amanda Clare, Ross D King BMC Bioinformatics 2007, 8:112 (30 March 2007) |
|
Database
PlnTFDB: an integrative plant transcription factor database Diego Riaño-Pachón, Slobodan Ruzicic, Ingo Dreyer, Bernd Mueller-Roeber BMC Bioinformatics 2007, 8:42 (7 February 2007) |
|
Research article
William A Moskal, Hank C Wu, Beverly A Underwood, Wei Wang, Christopher D Town, Yongli Xiao BMC Genomics 2007, 8:18 (17 January 2007) |
|
Research article
Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis Matthew A Campbell, Brian J Haas, John P Hamilton, Stephen M Mount, C Robin Buell BMC Genomics 2006, 7:327 (28 December 2006) |
|
Research article
High precision multi-genome scale reannotation of enzyme function by EFICAz Adrian K Arakaki, Weidong Tian, Jeffrey Skolnick BMC Genomics 2006, 7:315 (13 December 2006) |
|
Software
Shannon D Schlueter, Matthew D Wilkerson, Qunfeng Dong, Volker Brendel Genome Biology 2006, 7:R111 (20 November 2006) XGDB, a software infrastructure consisting of integrated tools for the storage, display and analysis of genome features (any property that can be associated with a genomic location, for example spliced alignments) in their genomics context is described. |
|
Software
Matthew D Wilkerson, Shannon D Schlueter, Volker Brendel Genome Biology 2006, 7:R58 (19 July 2006) yrGATE is a new web-based tool for community gene and genome annotation. |