TY - JOUR AU - Butler, D. AU - Smaglik, P. PY - 2000 DA - 2000// TI - Draft data leave geneticists with a mountain still to climb. JO - Nature VL - 405 UR - https://doi.org/10.1038/35016703 DO - 10.1038/35016703 ID - Butler2000 ER - TY - JOUR AU - Stein, L. D. PY - 2001 DA - 2001// TI - Using Perl to facilitate biological analysis. JO - Methods Biochem Anal VL - 43 UR - https://doi.org/10.1002/0471223921.ch17 DO - 10.1002/0471223921.ch17 ID - Stein2001 ER - TY - JOUR AU - Field, D. AU - Feil, E. J. AU - Wilson, G. A. PY - 2005 DA - 2005// TI - Databases and software for the comparison of prokaryotic genomes. JO - Microbiology VL - 151 UR - https://doi.org/10.1099/mic.0.28006-0 DO - 10.1099/mic.0.28006-0 ID - Field2005 ER - TY - JOUR AU - Rajpal, D. K. PY - 2005 DA - 2005// TI - Understanding biology through bioinformatics. JO - Int J Toxicol VL - 24 UR - https://doi.org/10.1080/10915810590948325 DO - 10.1080/10915810590948325 ID - Rajpal2005 ER - TY - JOUR AU - Stein, L. PY - 2001 DA - 2001// TI - Genome annotation: from sequence to biology. JO - Nat Rev Genet VL - 2 UR - https://doi.org/10.1038/35080529 DO - 10.1038/35080529 ID - Stein2001 ER - TY - JOUR AU - Howe, K. L. AU - Chothia, T. AU - Durbin, R. PY - 2002 DA - 2002// TI - GAZE: a generic framework for the integration of gene-prediction data by dynamic programming. JO - Genome Res VL - 12 UR - https://doi.org/10.1101/gr.149502 DO - 10.1101/gr.149502 ID - Howe2002 ER - TY - JOUR AU - Gilbert, D. PY - 2004 DA - 2004// TI - Bioinformatics software resources. JO - Brief Bioinform VL - 5 UR - https://doi.org/10.1093/bib/5.3.300 DO - 10.1093/bib/5.3.300 ID - Gilbert2004 ER - TY - JOUR AU - Stein, L. D. AU - Mungall, C. AU - Shu, S. AU - Caudy, M. AU - Mangone, M. AU - Day, A. AU - Nickerson, E. AU - Stajich, J. E. AU - Harris, T. W. AU - Arva, A. AU - Lewis, S. PY - 2002 DA - 2002// TI - The generic genome browser: a building block for a model organism system database. JO - Genome Res VL - 12 UR - https://doi.org/10.1101/gr.403602 DO - 10.1101/gr.403602 ID - Stein2002 ER - TY - JOUR AU - Birney, E. AU - Andrews, D. AU - Caccamo, M. AU - Chen, Y. AU - Clarke, L. AU - Coates, G. AU - Cox, T. AU - Cunningham, F. AU - Curwen, V. AU - Cutts, T. PY - 2006 DA - 2006// TI - Ensembl 2006. JO - Nucleic Acids Res VL - 34 UR - https://doi.org/10.1093/nar/gkj133 DO - 10.1093/nar/gkj133 ID - Birney2006 ER - TY - JOUR AU - Benson, D. A. AU - Karsch-Mizrachi, I. AU - Lipman, D. J. AU - Ostell, J. AU - Wheeler, D. L. PY - 2006 DA - 2006// TI - GenBank. JO - Nucleic Acids Res VL - 34 UR - https://doi.org/10.1093/nar/gkj157 DO - 10.1093/nar/gkj157 ID - Benson2006 ER - TY - JOUR AU - Usuka, J. AU - Zhu, W. AU - Brendel, V. PY - 2000 DA - 2000// TI - Optimal spliced alignment of homologous cDNA to a genomic DNA template. JO - Bioinformatics VL - 16 UR - https://doi.org/10.1093/bioinformatics/16.3.203 DO - 10.1093/bioinformatics/16.3.203 ID - Usuka2000 ER - TY - JOUR AU - Dong, Q. AU - Lawrence, C. J. AU - Schlueter, S. D. AU - Wilkerson, M. D. AU - Kurtz, S. AU - Lushbough, C. AU - Brendel, V. PY - 2005 DA - 2005// TI - Comparative plant genomics resources at PlantGDB. JO - Plant Physiol VL - 139 UR - https://doi.org/10.1104/pp.104.059212 DO - 10.1104/pp.104.059212 ID - Dong2005 ER - TY - JOUR AU - Zhu, W. AU - Schlueter, S. D. AU - Brendel, V. PY - 2003 DA - 2003// TI - Refined annotation of the Arabidopsisgenome by complete expressed sequence tag mapping. JO - Plant Physiol VL - 132 UR - https://doi.org/10.1104/pp.102.018101 DO - 10.1104/pp.102.018101 ID - Zhu2003 ER - TY - JOUR AU - Zhu, W. AU - Brendel, V. PY - 2003 DA - 2003// TI - Identification, characterization and molecular phylogeny of U12-dependent introns in the Arabidopsis thalianagenome. JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg492 DO - 10.1093/nar/gkg492 ID - Zhu2003 ER - TY - JOUR AU - Schlueter, S. D. AU - Wilkerson, M. D. AU - Huala, E. AU - Rhee, S. Y. AU - Brendel, V. PY - 2005 DA - 2005// TI - Community-based gene structure annotation. JO - Trends Plant Sci VL - 10 UR - https://doi.org/10.1016/j.tplants.2004.11.002 DO - 10.1016/j.tplants.2004.11.002 ID - Schlueter2005 ER - TY - JOUR AU - Wang, B. B. AU - Brendel, V. PY - 2006 DA - 2006// TI - Genomewide comparative analysis of alternative splicing in plants. JO - Proc Natl Acad Sci USA VL - 103 UR - https://doi.org/10.1073/pnas.0602039103 DO - 10.1073/pnas.0602039103 ID - Wang2006 ER - TY - JOUR AU - Wang, B. B. AU - Brendel, V. PY - 2006 DA - 2006// TI - Molecular characterization and phylogeny of U2AF35 homologs in plants. JO - Plant Physiol VL - 140 UR - https://doi.org/10.1104/pp.105.073858 DO - 10.1104/pp.105.073858 ID - Wang2006 ER - TY - JOUR AU - Ashurst, J. L. AU - Collins, J. E. PY - 2003 DA - 2003// TI - Gene annotation: prediction and testing. JO - Annu Rev Genomics Hum Genet VL - 4 UR - https://doi.org/10.1146/annurev.genom.4.070802.110300 DO - 10.1146/annurev.genom.4.070802.110300 ID - Ashurst2003 ER - TY - JOUR AU - Haas, B. J. AU - Wortman, J. R. AU - Ronning, C. M. AU - Hannick, L. I. AU - Smith, R. K. AU - Maiti, R. AU - Chan, A. P. AU - Yu, C. AU - Farzad, M. AU - Wu, D. PY - 2005 DA - 2005// TI - Complete reannotation of the Arabidopsisgenome: methods, tools, protocols and the final release. JO - BMC Biol VL - 3 UR - https://doi.org/10.1186/1741-7007-3-7 DO - 10.1186/1741-7007-3-7 ID - Haas2005 ER - TY - JOUR AU - Yuan, Q. AU - Ouyang, S. AU - Wang, A. AU - Zhu, W. AU - Maiti, R. AU - Lin, H. AU - Hamilton, J. AU - Haas, B. AU - Sultana, R. AU - Cheung, F. PY - 2005 DA - 2005// TI - The institute for genomic research Osa1 rice genome annotation database. JO - Plant Physiol VL - 138 UR - https://doi.org/10.1104/pp.104.059063 DO - 10.1104/pp.104.059063 ID - Yuan2005 ER - TY - JOUR AU - Hong, P. AU - Wong, W. H. PY - 2005 DA - 2005// TI - GeneNotes: a novel information management software for biologists. JO - BMC Bioinformatics VL - 6 UR - https://doi.org/10.1186/1471-2105-6-20 DO - 10.1186/1471-2105-6-20 ID - Hong2005 ER - TY - STD TI - AtGDB. [http://www.plantgdb.org/AtGDB/] UR - http://www.plantgdb.org/AtGDB/ ID - ref22 ER - TY - STD TI - ZmGDB. [http://www.plantgdb.org/ZmGDB/] UR - http://www.plantgdb.org/ZmGDB/ ID - ref23 ER - TY - STD TI - PlantGDB. [http://www.plantgdb.org/] UR - http://www.plantgdb.org/ ID - ref24 ER - TY - JOUR AU - Altschul, S. F. AU - Gish, W. AU - Miller, W. AU - Myers, E. W. AU - Lipman, D. J. PY - 1990 DA - 1990// TI - Basic local alignment search tool. JO - J Mol Biol VL - 215 UR - https://doi.org/10.1016/S0022-2836(05)80360-2 DO - 10.1016/S0022-2836(05)80360-2 ID - Altschul1990 ER - TY - JOUR AU - Schlueter, S. D. AU - Dong, Q. AU - Brendel, V. PY - 2003 DA - 2003// TI - GeneSeqer@PlantGDB: Gene structure prediction in plant genomes. JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg533 DO - 10.1093/nar/gkg533 ID - Schlueter2003 ER - TY - JOUR AU - Wilkerson, M. D. AU - Schlueter, S. D. AU - Brendel, V. PY - 2006 DA - 2006// TI - yrGATE: a web-based gene-structure annotation tool for the identification and dissemination of eukaryotic genes. JO - Genome Biology VL - 7 UR - https://doi.org/10.1186/gb-2006-7-7-r58 DO - 10.1186/gb-2006-7-7-r58 ID - Wilkerson2006 ER - TY - STD TI - TAIR Nomenclature Guidelines. [http://www.arabidopsis.org/portals/nomenclature/guidelines.jsp] UR - http://www.arabidopsis.org/portals/nomenclature/guidelines.jsp ID - ref28 ER - TY - STD TI - GAEVAL @ AtGDB. [http://www.plantgdb.org/AtGDB-chtml/GAEVAL.php] UR - http://www.plantgdb.org/AtGDB-chtml/GAEVAL.php ID - ref29 ER - TY - STD TI - yrGATE @ AtGDB. [http://www.plantgdb.org/AtGDB_yrGATE-cgi/CommunityCentral.pl] UR - http://www.plantgdb.org/AtGDB_yrGATE-cgi/CommunityCentral.pl ID - ref30 ER - TY - JOUR AU - Dowell, R. D. AU - Jokerst, R. M. AU - Day, A. AU - Eddy, S. R. AU - Stein, L. PY - 2001 DA - 2001// TI - The distributed annotation system. JO - BMC Bioinformatics VL - 2 UR - https://doi.org/10.1186/1471-2105-2-7 DO - 10.1186/1471-2105-2-7 ID - Dowell2001 ER - TY - JOUR AU - Schlueter, J. A. AU - Scheffler, B. E. AU - Schlueter, S. D. AU - Shoemaker, R. C. PY - 2006 DA - 2006// TI - Sequence conservation of homeologous bacterial artificial chromosomes and transcription of homeologous genes in soybean (Glycine max L. Merr.). JO - Genetics VL - 174 UR - https://doi.org/10.1534/genetics.105.055020 DO - 10.1534/genetics.105.055020 ID - Schlueter2006 ER - TY - STD TI - xGDB. [http://xgdb.sourceforge.net/] UR - http://xgdb.sourceforge.net/ ID - ref33 ER - TY - STD TI - Apache Web Server. [http://www.apache.org/] UR - http://www.apache.org/ ID - ref34 ER - TY - STD TI - PHP. [http://www.php.net/] UR - http://www.php.net/ ID - ref35 ER - TY - STD TI - PERL. [http://www.perl.org/] UR - http://www.perl.org/ ID - ref36 ER - TY - STD TI - CPAN. [http://www.cpan.org/] UR - http://www.cpan.org/ ID - ref37 ER - TY - STD TI - xGDB project at Sourceforge. [http://sourceforge.net/projects/xgdb/] UR - http://sourceforge.net/projects/xgdb/ ID - ref38 ER - TY - STD TI - MySQL Boolean Full-text Searches. [http://dev.mysql.com/doc/refman/5.0/en/fulltext-boolean.html] UR - http://dev.mysql.com/doc/refman/5.0/en/fulltext-boolean.html ID - ref39 ER -