Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data.
SNP array data can be analysed for the purpose of calling SNP alleles but also for determining the absolute copy number of a certain genomic segment. Here, the method for detecting copy number (CN) change using intensity data from SNP arrays is focused on. Methods incorporating data from the two mai...
| Váldodahkkit: | , |
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| Materiálatiipa: | Journal article |
| Giella: | English |
| Almmustuhtton: |
2012
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| _version_ | 1826260066450276352 |
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| author | Winchester, L Ragoussis, J |
| author_facet | Winchester, L Ragoussis, J |
| author_sort | Winchester, L |
| collection | OXFORD |
| description | SNP array data can be analysed for the purpose of calling SNP alleles but also for determining the absolute copy number of a certain genomic segment. Here, the method for detecting copy number (CN) change using intensity data from SNP arrays is focused on. Methods incorporating data from the two main genotyping platforms, Affymetrix and Illumina, are described and possible options and problems that may be faced are examined. We discuss the importance of the quality control when using this analysis method and present some guidelines for implementation, both prior and post to algorithm use. A discussion of algorithms available for CN detection is included as well as ideas for further analysis protocols. |
| first_indexed | 2024-03-06T18:59:43Z |
| format | Journal article |
| id | oxford-uuid:13193f8c-a98b-4cc0-be84-c8112ed6ed45 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T18:59:43Z |
| publishDate | 2012 |
| record_format | dspace |
| spelling | oxford-uuid:13193f8c-a98b-4cc0-be84-c8112ed6ed452022-03-26T10:11:52ZAlgorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:13193f8c-a98b-4cc0-be84-c8112ed6ed45EnglishSymplectic Elements at Oxford2012Winchester, LRagoussis, JSNP array data can be analysed for the purpose of calling SNP alleles but also for determining the absolute copy number of a certain genomic segment. Here, the method for detecting copy number (CN) change using intensity data from SNP arrays is focused on. Methods incorporating data from the two main genotyping platforms, Affymetrix and Illumina, are described and possible options and problems that may be faced are examined. We discuss the importance of the quality control when using this analysis method and present some guidelines for implementation, both prior and post to algorithm use. A discussion of algorithms available for CN detection is included as well as ideas for further analysis protocols. |
| spellingShingle | Winchester, L Ragoussis, J Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title | Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title_full | Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title_fullStr | Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title_full_unstemmed | Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title_short | Algorithm implementation for CNV discovery using Affymetrix and Illumina SNP array data. |
| title_sort | algorithm implementation for cnv discovery using affymetrix and illumina snp array data |
| work_keys_str_mv | AT winchesterl algorithmimplementationforcnvdiscoveryusingaffymetrixandilluminasnparraydata AT ragoussisj algorithmimplementationforcnvdiscoveryusingaffymetrixandilluminasnparraydata |