This data can be used as starting point to discover the roles of these spermexpressed proteins. Project Team McCormick, Sheila Publications Publications Related National Programs Plant Biological and Molecular Processes 302 Plant Genetic Resources, Genomics and Genetic Improvement 301

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Technical Abstract In flowering plants the two sperm cells are embedded within the cytoplasm of the growing pollen tube and as such are passively transported to the embryo sac, wherein double fertilization occurs upon their release. Interpretive Summary We purified sperm cells from Arabidopsis plants. Studies of gene expression in male gametes of maize and Plumbago, and in lily generative cells already showed that the previously held view of transcriptionally inert male gametes was not true, but genomewide studies were lacking.

Comparative analysis of the sperm cell transcriptome with those of representative sporophytic tissues and of pollen showed that sperm has distinct and diverse transcriptional profile. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology Publication Type Peer Reviewed Journal Publication Acceptance Date 27, Publication Date 30, Publishers URL httpwww. plantphysiol. org Reprint URL Citation Borges, Gomes, Gardner, Moreno, Mccormick, Feijo, J., Becker, J. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology

Functional classifications of genes with enriched expression in sperm cells showed that DNA repair, ubiquitin mediated proteolysis and cell cycle progression are overrepresented Gene Ontology categories

Comparative analysis of the transcriptome of sperm cellsat genomewide

Studiesof gene expression in male gametes of maize and Plumbago, andin lily generative cells already showed that the previouslyheld view of transcriptionally inert male gametes was not true,but genomewide studies were lacking. These results provide roadmap to decipherthe role of spermexpressed proteins..

Functional classifications of genes with enriched expressionin sperm cells showed that DNA repair, ubiquitinmediated proteolysisand cell cycle progression are overrepresented Gene Ontologycategories. Here we used Fluorescenceactivatedcell sorting FACS to isolate sperm cells from Arabidopsis,allowing GeneChip analysis of the transcriptome of sperm cellsat genomewide level. Articles by Becker, J. Analyses in the modelplant Arabidopsis thaliana were hindered because no method toisolate sperm cells was available.

Feijo , and Jorg Studiesof gene expression in male gametes of maize and Plumbago, andin lily generative cells already showed that the previouslyheld view of transcriptionally inert male gametes was not true,but genomewide studies were lacking. Functional classifications of genes with enriched expressionin sperm cells showed that DNA repair, ubiquitinmediated proteolysisand cell cycle progression are overrepresented Gene Ontologycategories. Articles by Becker, J.

Functional classifications of genes with enriched expressionin sperm cells showed that DNA repair, ubiquitinmediated proteolysisand cell cycle progression are overrepresented Gene Ontologycategories. Biologia Vegetal, Faculdade de Ciencias da Universidade de Lisboa Lisboa, Campo Grande, Portugal Corresponding author email jfeijoatfc. ul. pt Articles by Becker, J. PubMed PubMed Citation Articles by Borges, Moreover, analysis of the transcriptome of sperm cellsat genomewide level. Studiesof gene expression in male gametes of maize and Plumbago, andin lily generative cells already showed that the previouslyheld view of transcriptionally inert male gametes was not true,but genomewide studies were lacking.
]]> http://www.ismb2008.org/here-we-used-fluorescenceactivatedcell-sorting/feed/ 0 http://www.ismb2008.org/unfortunately-the-realization-of-the/ http://www.ismb2008.org/unfortunately-the-realization-of-the/#comments Fri, 21 Mar 2008 09:37:05 +0000 Ellie http://www.ismb2008.org/unfortunately-the-realization-of-the/ The submitted lists manifested significant degree of overlap, which allowed us to prepare core list in whose terms large number of the remaining relations on the list have been selected because they enjoy high degree of intelligibility to the human authors and curators of biomedical ontologies. Is_a and part_of have established themselves as foundational to current ontologies.

Amsterdam IOS Press 2004342352. For continuants, we have part_of C1 if and only if any instance of at any time is an instancelevel part of some instance of C1 at that time, as for example in cell nucleus part_ of cell. Grenon Smith Goldberg L Biodynamic ontology applying BFO in the biomedical domain.

to range over continuant classes P1, We shall deal here with each of the ten relations listed in Table in turn, providing rigorous yet easily understandable definitions. Table Levesque HJ, Brachman RJ fundamental tradeoff in knowledge representation and reasoning. BioSilico Inform Technol Drug Discovery 2246252. Have something to say? Post comment on this article! The OBO ontology library is repository of controlled vocabularies developed for shared use across different biological and medical domains. Note that continuants and processes form nonoverlapping categories. AI Magazine 241324. Pac Symp Biocomput 214225.

Hence containment is not transitive relation. Aachen University of Aachen 20046371. Publisher Full Text Smith Williams J, SchulzeKremer S The ontology of the Gene Ontology. For processes, we have by analogy, part_of P1 if and only if any instance of is an instancelevel part of some instance of P1, as for example in extracellular region is_a cellular component extrinsic to membrane part_of membrane both of which are erroneous. We focus also on generalpurpose relations relations which can be employed, in principle, in all biological ontologies. The Drosophila Anatomy ontology includes also develops_from link.

The problem is that when OBO and similar ontologies as these are presented to the user as finished products. The containment relation on the instance level, is just the relation of instancelevel parthood called part_of in what follows, obtaining between this particular phase of some mitotic cell cycle and the entire cell cycle of the particular cell involved. Another characteristic family of problems turns on the paucity of resources for expressing relations in ontologies like GO. Transformation.
]]> http://www.ismb2008.org/unfortunately-the-realization-of-the/feed/ 0 http://www.ismb2008.org/bioinformatics-toolbox3-2-read-analyze-and-visualize/ http://www.ismb2008.org/bioinformatics-toolbox3-2-read-analyze-and-visualize/#comments Fri, 18 Jan 2008 12:46:33 +0000 Ellie http://www.ismb2008.org/bioinformatics-toolbox3-2-read-analyze-and-visualize/ Bioinformatics Toolbox Key Features Microarray Data Analysis and Visualization Mass Spectrometry Data Analysis Graph Theory, Statistical Learning, and Gene Ontology Sequence Analysis Importing Data and Deploying Applications View data sheet 1681k FREE Product Technical Kit MATLAB DigestBiotech and Pharmaceutical EditionMATLAB receives high praises at Georgetown University Contact sales Free technical kit Trial software Email this page Pricing andLicensing Options Recorded WebinarMicroarray Data Analysis with MATLAB for Faculty and Academic Researchers Register to view MITMathWorks tools enable the research group and the majors and engineersto focus on research and spend less timeprogramming. Dr.

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Bioinformatics Toolbox functions are implemented in the open MATLAB language, enabling you to customize the algorithms or develop your own. Learn more about Computational Biology. Bioinformatics Toolbox3.

Bioinformatics Toolbox Key Features Microarray Data Analysis and Visualization Mass Spectrometry Data Analysis Graph Theory, Statistical Learning, and Gene Ontology Sequence Analysis Importing Data and Deploying Applications View data sheet 1681k FREE Product Technical Kit MATLAB DigestBiotech and Pharmaceutical EditionMATLAB receives high praises at Georgetown University. Bioinformatics Toolbox3. 2 Read, analyze, and visualize genomic, proteomic, and microarray dataBioinformatics Toolboxoffers computational molecular biologists and other research scientists an open and extensible environment in which to explore ideas, prototype new algorithms, and build applications in drug research, genetic engineering, and other genomics and proteomics projects.

Bioinformatics Toolbox software provides access to genomic and proteomic sequence and microarray analysis. Gil AlterovitzRead this storyBioinformatics Toolbox3. 2 Read, analyze, and visualize genomic, proteomic, and microarray dataBioinformatics Toolboxoffers computational molecular biologists and other research scientists an open and extensible environment in which to explore ideas, prototype new algorithms, and build applications in drug research, genetic engineering, and other genomics and proteomics projects. Bioinformatics Toolbox functions are implemented in the open MATLAB language, enabling you to customize the algorithms or develop your own. Learn more about Computational Biology.