Caryoscope: An Open Source Java application for viewing microarray data in a genomic context
<p>Abstract</p> <p>Background</p> <p>Microarray-based comparative genome hybridization experiments generate data that can be mapped onto the genome. These data are interpreted more easily when represented graphically in a genomic context.</p> <p>Results</...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2004-10-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/5/151 |
| _version_ | 1818229330820464640 |
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| author | Ball Catherine A Hernandez-Boussard Tina Rees Christian A Awad Ihab AB Sherlock Gavin |
| author_facet | Ball Catherine A Hernandez-Boussard Tina Rees Christian A Awad Ihab AB Sherlock Gavin |
| author_sort | Ball Catherine A |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Microarray-based comparative genome hybridization experiments generate data that can be mapped onto the genome. These data are interpreted more easily when represented graphically in a genomic context.</p> <p>Results</p> <p>We have developed Caryoscope, which is an open source Java application for visualizing microarray data from array comparative genome hybridization experiments in a genomic context. Caryoscope can read General Feature Format files (GFF files), as well as comma- and tab-delimited files, that define the genomic positions of the microarray reporters for which data are obtained. The microarray data can be browsed using an interactive, zoomable interface, which helps users identify regions of chromosomal deletion or amplification. The graphical representation of the data can be exported in a number of graphic formats, including publication-quality formats such as PostScript.</p> <p>Conclusion</p> <p>Caryoscope is a useful tool that can aid in the visualization, exploration and interpretation of microarray data in a genomic context.</p> |
| first_indexed | 2024-12-12T10:16:54Z |
| format | Article |
| id | doaj.art-64acfcea5d034298966953c256d290df |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-12T10:16:54Z |
| publishDate | 2004-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-64acfcea5d034298966953c256d290df2022-12-22T00:27:39ZengBMCBMC Bioinformatics1471-21052004-10-015115110.1186/1471-2105-5-151Caryoscope: An Open Source Java application for viewing microarray data in a genomic contextBall Catherine AHernandez-Boussard TinaRees Christian AAwad Ihab ABSherlock Gavin<p>Abstract</p> <p>Background</p> <p>Microarray-based comparative genome hybridization experiments generate data that can be mapped onto the genome. These data are interpreted more easily when represented graphically in a genomic context.</p> <p>Results</p> <p>We have developed Caryoscope, which is an open source Java application for visualizing microarray data from array comparative genome hybridization experiments in a genomic context. Caryoscope can read General Feature Format files (GFF files), as well as comma- and tab-delimited files, that define the genomic positions of the microarray reporters for which data are obtained. The microarray data can be browsed using an interactive, zoomable interface, which helps users identify regions of chromosomal deletion or amplification. The graphical representation of the data can be exported in a number of graphic formats, including publication-quality formats such as PostScript.</p> <p>Conclusion</p> <p>Caryoscope is a useful tool that can aid in the visualization, exploration and interpretation of microarray data in a genomic context.</p>http://www.biomedcentral.com/1471-2105/5/151 |
| spellingShingle | Ball Catherine A Hernandez-Boussard Tina Rees Christian A Awad Ihab AB Sherlock Gavin Caryoscope: An Open Source Java application for viewing microarray data in a genomic context BMC Bioinformatics |
| title | Caryoscope: An Open Source Java application for viewing microarray data in a genomic context |
| title_full | Caryoscope: An Open Source Java application for viewing microarray data in a genomic context |
| title_fullStr | Caryoscope: An Open Source Java application for viewing microarray data in a genomic context |
| title_full_unstemmed | Caryoscope: An Open Source Java application for viewing microarray data in a genomic context |
| title_short | Caryoscope: An Open Source Java application for viewing microarray data in a genomic context |
| title_sort | caryoscope an open source java application for viewing microarray data in a genomic context |
| url | http://www.biomedcentral.com/1471-2105/5/151 |
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