Kakar, Klementina, Wandrey, Maren, Czechowski, Tomasz, Gaertner, Tanja, Scheible, Wolf-Rüdiger, Stitt, Mark, ...
Abstract Background Medicago truncatula is a model legume species that is currently the focus of an international genome sequencing effort. Although several different oligonucleotide and cDNA arrays...
Mian, MA Rouf, Zhang, Yan, Wang, Zeng-Yu, Zhang, Ji-Yi, Cheng, Xiaofei, Chen, Lei, ...
Abstract Background Tall fescue ( Festuca arundinacea Schreb) is a major cool season forage and turf grass species grown in the temperate regions of the world. In this paper we report the generation...
Sequencing and analysis of the gene-rich space of cowpea (2008)
Timko, Michael P, Rushton, Paul J, Laudeman, Thomas W, Bokowiec, Marta T, Chipumuro, Edmond, Cheung, Foo, ...
Abstract Background Cowpea, Vigna unguiculata (L.) Walp., is one of the most important food and forage legumes in the semi-arid tropics because of its drought tolerance and ability to grow on poor...
Insights into the Musa genome: Syntenic relationships to rice and between Musa species (2008)
Lescot, Magali, Piffanelli, Pietro, Ciampi, Ana Y, Ruiz, Manuel, Blanc, Guillaume, Leebens-Mack, Jim, ...
Abstract Background Musa species (Zingiberaceae, Zingiberales) including bananas and plantains are collectively the fourth most important crop in developing countries. Knowledge concerning Musa...
A BAC end view of the Musa acuminatagenome (2007)
Cheung, Foo, Town, Christopher D
Abstract Background Musa species contain the fourth most important crop in developing countries. Here, we report the analysis of 6,252 BAC end-sequences, in order to view the sequence composition of...
Spotted cotton oligonucleotide microarrays for gene expression analysis (2007)
Udall, Joshua A, Flagel, Lex E, Cheung, Foo, Woodward, Andrew W, Hovav, Ran, Rapp, Ryan A, ...
Abstract Background Microarrays offer a powerful tool for diverse applications plant biology and crop improvement. Recently, two comprehensive assemblies of cotton ESTs were constructed based on...
Sequencing Medicago truncatulaexpressed sequenced tags using 454 Life Sciences technology (2006)
Cheung, Foo, Haas, Brian J, Goldberg, Susanne MD, May, Gregory D, Xiao, Yongli, Town, Christopher D
Abstract Background In this study, we addressed whether a single 454 Life Science GS20 sequencing run provides new gene discovery from a normalized cDNA library, and whether the short reads produced...
Tsai, Jennifer, Sultana, Razvan, Lee, Yudan, Pertea, Geo, Karamycheva, Svetlana, Antonescu, Valentin, ...
Abstract Microarray expression analysis is providing unprecedented data on gene expression in humans and mammalian model systems. Although such studies provide a tremendous resource for understanding...
RESOURCERER: a database for annotating and linking microarray resources within and across species
Tsai, Jennifer, Sultana, Razvan, Lee, Yudan, Pertea, Geo, Karamycheva, Svetlana, Antonescu, Valentin, ...
Microarray expression analysis is providing unprecedented data on gene expression in humans and mammalian model systems. Although such studies provide a tremendous resource for understanding human...
Yuan, Qiaoping, Ouyang, Shu, Liu, Jia, Suh, Bernard, Cheung, Foo, Sultana, Razvan, ...
Rice is not only a major food staple for the world's population but it also is a model species for a major group of flowering plants, the monocotyledonous plants. Draft genomic sequence of two...
Kuhl, Joseph C., Cheung, Foo, Yuan, Qiaoping, Martin, William, Zewdie, Yayeh, McCallum, John, ...
Enormous genomic resources have been developed for plants in the monocot order Poales; however, it is not clear how representative the Poales are for the monocots as a whole. The Asparagales are a...
Gene Expression Analyses of Arabidopsis Chromosome 2 Using a Genomic DNA Amplicon Microarray
Kim, Heenam, Snesrud, Erik C., Haas, Brian, Cheung, Foo, Town, Christopher D., Quackenbush, John
The gene predictions and accompanying functional assignments resulting from the sequencing and annotation of a genome represent hypotheses that can be tested and used to develop a more complete...
Chan, Agnes P., Pertea, Geo, Cheung, Foo, Lee, Dan, Zheng, Li, Whitelaw, Cathy, ...
Maize is a staple crop of the grass family and also an excellent model for plant genetics. Owing to the large size and repetitiveness of its genome, we previously investigated two approaches to...
The Institute for Genomic Research Osa1 Rice Genome Annotation Database1
Yuan, Qiaoping, Ouyang, Shu, Wang, Aihui, Zhu, Wei, Maiti, Rama, Lin, Haining, ...
We have developed a rice (Oryza sativa) genome annotation database (Osa1) that provides structural and functional annotation for this emerging model species. Using the sequence of O. sativa subsp....
Databases and Information Integration for the Medicago truncatula Genome and Transcriptome1
Cannon, Steven B., Crow, John A., Heuer, Michael L., Wang, Xiaohong, Cannon, Ethalinda K.S., Dwan, Christopher, ...
An international consortium is sequencing the euchromatic genespace of Medicago truncatula. Extensive bioinformatic and database resources support the marker-anchored bacterial artificial chromosome...
Cross-Referencing Eukaryotic Genomes: TIGR Orthologous Gene Alignments (TOGA)
Lee, Yuandan, Sultana, Razvan, Pertea, Geo, Cho, Jennifer, Karamycheva, Svetlana, Tsai, Jennifer, ...
Comparative genomics promises to rapidly accelerate the identification and functional classification of biologically important human genes. We developed the TIGR Orthologous Gene Alignment (TOGA;...
Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology
Cheung, Foo, Haas, Brian J, Goldberg, Susanne MD, May, Gregory D, Xiao, Yongli, Town, Christopher D
RESOURCERER: a database for annotating and linking microarray resources within and across species
Tsai, Jennifer, Sultana, Razvan, Lee, Yudan, Pertea, Geo, Karamycheva, Svetlana, Antonescu, Valentin, ...
Microarray expression analysis is providing unprecedented data on gene expression in humans and mammalian model systems. Although such studies provide a tremendous resource for understanding human...
Cross-Referencing Eukaryotic Genomes: TIGR Orthologous Gene Alignments (TOGA)
Lee, Yuandan, Sultana, Razvan, Pertea, Geo, Cho, Jennifer, Karamycheva, Svetlana, Tsai, Jennifer, ...
Comparative genomics promises to rapidly accelerate the identification and functional classification of biologically important human genes. We developed the TIGR Orthologous Gene Alignment (TOGA;...
Yuan, Qiaoping, Ouyang, Shu, Liu, Jia, Suh, Bernard, Cheung, Foo, Sultana, Razvan, ...
Rice is not only a major food staple for the world's population but it also is a model species for a major group of flowering plants, the monocotyledonous plants. Draft genomic sequence of two...
Kuhl, Joseph C., Cheung, Foo, Yuan, Qiaoping, Martin, William, Zewdie, Yayeh, McCallum, John, ...
Enormous genomic resources have been developed for plants in the monocot order Poales; however, it is not clear how representative the Poales are for the monocots as a whole. The Asparagales are a...
Gene Expression Analyses of Arabidopsis Chromosome 2 Using a Genomic DNA Amplicon Microarray
Kim, Heenam, Snesrud, Erik C., Haas, Brian, Cheung, Foo, Town, Christopher D., Quackenbush, John
The gene predictions and accompanying functional assignments resulting from the sequencing and annotation of a genome represent hypotheses that can be tested and used to develop a more complete...
The Institute for Genomic Research Osa1 Rice Genome Annotation Database1
Yuan, Qiaoping, Ouyang, Shu, Wang, Aihui, Zhu, Wei, Maiti, Rama, Lin, Haining, ...
We have developed a rice (Oryza sativa) genome annotation database (Osa1) that provides structural and functional annotation for this emerging model species. Using the sequence of O. sativa subsp....
Databases and Information Integration for the Medicago truncatula Genome and Transcriptome1
Cannon, Steven B., Crow, John A., Heuer, Michael L., Wang, Xiaohong, Cannon, Ethalinda K.S., Dwan, Christopher, ...
An international consortium is sequencing the euchromatic genespace of Medicago truncatula. Extensive bioinformatic and database resources support the marker-anchored bacterial artificial chromosome...
Chan, Agnes P., Pertea, Geo, Cheung, Foo, Lee, Dan, Zheng, Li, Whitelaw, Cathy, ...
Maize is a staple crop of the grass family and also an excellent model for plant genetics. Owing to the large size and repetitiveness of its genome, we previously investigated two approaches to...
Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology
Cheung, Foo, Haas, Brian J, Goldberg, Susanne MD, May, Gregory D, Xiao, Yongli, Town, Christopher D
The TIGR Plant Transcript Assemblies database
Childs, Kevin L., Hamilton, John P., Zhu, Wei, Ly, Eugene, Cheung, Foo, Wu, Hank, ...
The TIGR Plant Transcript Assemblies (TA) database () uses expressed sequences collected from the NCBI GenBank Nucleotide database for the construction of transcript assemblies. The sequences...
Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes
Cannon, Steven B., Sterck, Lieven, Rombauts, Stephane, Sato, Shusei, Cheung, Foo, Gouzy, Jérôme, ...
Genome sequencing of the model legumes, Medicago truncatula and Lotus japonicus, provides an opportunity for large-scale sequence-based comparison of two genomes in the same plant family. Here we...
Town, Christopher D., Cheung, Foo, Maiti, Rama, Crabtree, Jonathan, Haas, Brian J., Wortman, Jennifer R., ...
We sequenced 2.2 Mb representing triplicated genome segments of Brassica oleracea, which are each paralogous with one another and homologous with a segmentally duplicated region of the Arabidopsis...
Insights into the Musa genome: Syntenic relationships to rice and between Musa species
Lescot, Magali, Piffanelli, Pietro, Ciampi, Ana Y, Ruiz, Manuel, Blanc, Guillaume, Leebens-Mack, Jim, ...
Sequencing and analysis of the gene-rich space of cowpea
Timko, Michael P, Rushton, Paul J, Laudeman, Thomas W, Bokowiec, Marta T, Chipumuro, Edmond, Cheung, Foo, ...
Phosphorus Stress in Common Bean: Root Transcript and Metabolic Responses1[W][OA]
Hernández, Georgina, Ramírez, Mario, Valdés-López, Oswaldo, Tesfaye, Mesfin, Graham, Michelle A., Czechowski, Tomasz, ...
Phosphorus (P) is an essential element for plant growth. Crop production of common bean (Phaseolus vulgaris), the most important legume for human consumption, is often limited by low P in the soil....