MASQOT: a method for cDNA microarray spot quality control
<p>Abstract</p> <p>Background</p> <p>cDNA microarray technology has emerged as a major player in the parallel detection of biomolecules, but still suffers from fundamental technical problems. Identifying and removing unreliable data is crucial to prevent the risk of rec...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2005-10-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/6/250 |
| _version_ | 1818147891910279168 |
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| author | Jansson Stefan Sjöström Michael Sjödin Andreas Eriksson Daniel Bylesjö Max Antti Henrik Trygg Johan |
| author_facet | Jansson Stefan Sjöström Michael Sjödin Andreas Eriksson Daniel Bylesjö Max Antti Henrik Trygg Johan |
| author_sort | Jansson Stefan |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>cDNA microarray technology has emerged as a major player in the parallel detection of biomolecules, but still suffers from fundamental technical problems. Identifying and removing unreliable data is crucial to prevent the risk of receiving illusive analysis results. Visual assessment of spot quality is still a common procedure, despite the time-consuming work of manually inspecting spots in the range of hundreds of thousands or more.</p> <p>Results</p> <p>A novel methodology for cDNA microarray spot quality control is outlined. Multivariate discriminant analysis was used to assess spot quality based on existing and novel descriptors. The presented methodology displays high reproducibility and was found superior in identifying unreliable data compared to other evaluated methodologies.</p> <p>Conclusion</p> <p>The proposed methodology for cDNA microarray spot quality control generates non-discrete values of spot quality which can be utilized as weights in subsequent analysis procedures as well as to discard spots of undesired quality using the suggested threshold values. The MASQOT approach provides a consistent assessment of spot quality and can be considered an alternative to the labor-intensive manual quality assessment process.</p> |
| first_indexed | 2024-12-11T12:42:27Z |
| format | Article |
| id | doaj.art-4b534e728adb423d8eea40391ef7d90e |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-11T12:42:27Z |
| publishDate | 2005-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-4b534e728adb423d8eea40391ef7d90e2022-12-22T01:06:55ZengBMCBMC Bioinformatics1471-21052005-10-016125010.1186/1471-2105-6-250MASQOT: a method for cDNA microarray spot quality controlJansson StefanSjöström MichaelSjödin AndreasEriksson DanielBylesjö MaxAntti HenrikTrygg Johan<p>Abstract</p> <p>Background</p> <p>cDNA microarray technology has emerged as a major player in the parallel detection of biomolecules, but still suffers from fundamental technical problems. Identifying and removing unreliable data is crucial to prevent the risk of receiving illusive analysis results. Visual assessment of spot quality is still a common procedure, despite the time-consuming work of manually inspecting spots in the range of hundreds of thousands or more.</p> <p>Results</p> <p>A novel methodology for cDNA microarray spot quality control is outlined. Multivariate discriminant analysis was used to assess spot quality based on existing and novel descriptors. The presented methodology displays high reproducibility and was found superior in identifying unreliable data compared to other evaluated methodologies.</p> <p>Conclusion</p> <p>The proposed methodology for cDNA microarray spot quality control generates non-discrete values of spot quality which can be utilized as weights in subsequent analysis procedures as well as to discard spots of undesired quality using the suggested threshold values. The MASQOT approach provides a consistent assessment of spot quality and can be considered an alternative to the labor-intensive manual quality assessment process.</p>http://www.biomedcentral.com/1471-2105/6/250 |
| spellingShingle | Jansson Stefan Sjöström Michael Sjödin Andreas Eriksson Daniel Bylesjö Max Antti Henrik Trygg Johan MASQOT: a method for cDNA microarray spot quality control BMC Bioinformatics |
| title | MASQOT: a method for cDNA microarray spot quality control |
| title_full | MASQOT: a method for cDNA microarray spot quality control |
| title_fullStr | MASQOT: a method for cDNA microarray spot quality control |
| title_full_unstemmed | MASQOT: a method for cDNA microarray spot quality control |
| title_short | MASQOT: a method for cDNA microarray spot quality control |
| title_sort | masqot a method for cdna microarray spot quality control |
| url | http://www.biomedcentral.com/1471-2105/6/250 |
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