MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states
<p>Abstract</p> <p>Background</p> <p>Information obtained by DNA microarray technology gives a rough snapshot of the transcriptome state, <it>i.e.</it>, the expression level of all the genes expressed in a cell population at any given time. One of the challe...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2004-03-01
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| Series: | BMC Bioinformatics |
| Subjects: | |
| Online Access: | http://www.biomedcentral.com/1471-2105/5/20 |
| _version_ | 1828236001445675008 |
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| author | Vincens Pierre Marc Philippe Lelandais Gaëlle Jacq Claude Vialette Stéphane |
| author_facet | Vincens Pierre Marc Philippe Lelandais Gaëlle Jacq Claude Vialette Stéphane |
| author_sort | Vincens Pierre |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Information obtained by DNA microarray technology gives a rough snapshot of the transcriptome state, <it>i.e.</it>, the expression level of all the genes expressed in a cell population at any given time. One of the challenging questions raised by the tremendous amount of microarray data is to identify groups of co-regulated genes and to understand their role in cell functions.</p> <p>Results</p> <p>MiCoViTo (Microarray Comparison Visualization Tool) is a set of biologists' tools for exploring, comparing and visualizing changes in the yeast transcriptome by a gene-centric approach. A relational database includes data linked to genome expression and graphical output makes it easy to visualize clusters of co-expressed genes in the context of available biological information. To this aim, upload of personal data is possible and microarray data from fifty publications dedicated to <it>S. cerevisiae </it>are provided on-line. A web interface guides the biologist during the usage of this tool and is freely accessible at <url>http://www.transcriptome.ens.fr/micovito/</url>.</p> <p>Conclusions</p> <p>MiCoViTo offers an easy-to-read picture of local transcriptional changes connected to current biological knowledge. This should help biologists to mine yeast microarray data and better understand the underlying biology. We plan to add functional annotations from other organisms. That would allow inter-species comparison of transcriptomes <it>via </it>orthology tables.</p> |
| first_indexed | 2024-04-12T20:24:28Z |
| format | Article |
| id | doaj.art-f70f310e725a44098435231a1f9e35ac |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-04-12T20:24:28Z |
| publishDate | 2004-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-f70f310e725a44098435231a1f9e35ac2022-12-22T03:17:55ZengBMCBMC Bioinformatics1471-21052004-03-01512010.1186/1471-2105-5-20MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome statesVincens PierreMarc PhilippeLelandais GaëlleJacq ClaudeVialette Stéphane<p>Abstract</p> <p>Background</p> <p>Information obtained by DNA microarray technology gives a rough snapshot of the transcriptome state, <it>i.e.</it>, the expression level of all the genes expressed in a cell population at any given time. One of the challenging questions raised by the tremendous amount of microarray data is to identify groups of co-regulated genes and to understand their role in cell functions.</p> <p>Results</p> <p>MiCoViTo (Microarray Comparison Visualization Tool) is a set of biologists' tools for exploring, comparing and visualizing changes in the yeast transcriptome by a gene-centric approach. A relational database includes data linked to genome expression and graphical output makes it easy to visualize clusters of co-expressed genes in the context of available biological information. To this aim, upload of personal data is possible and microarray data from fifty publications dedicated to <it>S. cerevisiae </it>are provided on-line. A web interface guides the biologist during the usage of this tool and is freely accessible at <url>http://www.transcriptome.ens.fr/micovito/</url>.</p> <p>Conclusions</p> <p>MiCoViTo offers an easy-to-read picture of local transcriptional changes connected to current biological knowledge. This should help biologists to mine yeast microarray data and better understand the underlying biology. We plan to add functional annotations from other organisms. That would allow inter-species comparison of transcriptomes <it>via </it>orthology tables.</p>http://www.biomedcentral.com/1471-2105/5/20microarrayfunctional categories<it>Saccharomyces cerevisiae</it>clustering |
| spellingShingle | Vincens Pierre Marc Philippe Lelandais Gaëlle Jacq Claude Vialette Stéphane MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states BMC Bioinformatics microarray functional categories <it>Saccharomyces cerevisiae</it> clustering |
| title | MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states |
| title_full | MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states |
| title_fullStr | MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states |
| title_full_unstemmed | MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states |
| title_short | MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states |
| title_sort | micovito a tool for gene centric comparison and visualization of yeast transcriptome states |
| topic | microarray functional categories <it>Saccharomyces cerevisiae</it> clustering |
| url | http://www.biomedcentral.com/1471-2105/5/20 |
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