Effectiveness of the PSI BLAST algorithm in dependence on scanning word size
The alignment searching algorithms for biomolecular sequences PSI-BLAST are reviewed in the article. We asses the feasibility to modify NCBI (National Center for Biotechnology Information) PSI-BLAST implementation. We modify the implementation of the iterative algorithm by increasing scanning word...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
| Published: |
Vilnius University Press
2003-12-01
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| Series: | Lietuvos Matematikos Rinkinys |
| Online Access: | https://www.journals.vu.lt/LMR/article/view/32524 |
| _version_ | 1797194405237489664 |
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| author | Mindaugas Margelevičius Albertas Timinskas |
| author_facet | Mindaugas Margelevičius Albertas Timinskas |
| author_sort | Mindaugas Margelevičius |
| collection | DOAJ |
| description |
The alignment searching algorithms for biomolecular sequences PSI-BLAST are reviewed in the article. We asses the feasibility to modify NCBI (National Center for Biotechnology Information) PSI-BLAST implementation. We modify the implementation of the iterative algorithm by increasing scanning word size. We also accomplish statistical analysis for each enzyme of the cytosine-5 methyltransferase family after we apply alignment searching for the biologically related protein sequences.
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| first_indexed | 2024-03-07T15:39:43Z |
| format | Article |
| id | doaj.art-8133bb869a524aeab870c386c502844e |
| institution | Directory Open Access Journal |
| issn | 0132-2818 2335-898X |
| language | English |
| last_indexed | 2024-04-24T05:55:45Z |
| publishDate | 2003-12-01 |
| publisher | Vilnius University Press |
| record_format | Article |
| series | Lietuvos Matematikos Rinkinys |
| spelling | doaj.art-8133bb869a524aeab870c386c502844e2024-04-23T09:03:17ZengVilnius University PressLietuvos Matematikos Rinkinys0132-28182335-898X2003-12-0143spec.10.15388/LMR.2003.32524Effectiveness of the PSI BLAST algorithm in dependence on scanning word sizeMindaugas Margelevičius0Albertas Timinskas1Institute of BiotechnologyInstitute of Biotechnology The alignment searching algorithms for biomolecular sequences PSI-BLAST are reviewed in the article. We asses the feasibility to modify NCBI (National Center for Biotechnology Information) PSI-BLAST implementation. We modify the implementation of the iterative algorithm by increasing scanning word size. We also accomplish statistical analysis for each enzyme of the cytosine-5 methyltransferase family after we apply alignment searching for the biologically related protein sequences. https://www.journals.vu.lt/LMR/article/view/32524 |
| spellingShingle | Mindaugas Margelevičius Albertas Timinskas Effectiveness of the PSI BLAST algorithm in dependence on scanning word size Lietuvos Matematikos Rinkinys |
| title | Effectiveness of the PSI BLAST algorithm in dependence on scanning word size |
| title_full | Effectiveness of the PSI BLAST algorithm in dependence on scanning word size |
| title_fullStr | Effectiveness of the PSI BLAST algorithm in dependence on scanning word size |
| title_full_unstemmed | Effectiveness of the PSI BLAST algorithm in dependence on scanning word size |
| title_short | Effectiveness of the PSI BLAST algorithm in dependence on scanning word size |
| title_sort | effectiveness of the psi blast algorithm in dependence on scanning word size |
| url | https://www.journals.vu.lt/LMR/article/view/32524 |
| work_keys_str_mv | AT mindaugasmargelevicius effectivenessofthepsiblastalgorithmindependenceonscanningwordsize AT albertastiminskas effectivenessofthepsiblastalgorithmindependenceonscanningwordsize |