Comparison of similarity method to improve retrieval performance for chemical data
Drug discovery is the process through which new drugs are discovered. One of the most common techniques in drug discovery is similarity searching based on virtual screening that involves comparing the similarity between molecule structures in chemical database using established similarity methods. T...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
| Published: |
Penerbit Universiti Kebangsaan Malaysia
2018
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| Online Access: | http://journalarticle.ukm.my/17758/ http://journalarticle.ukm.my/17758/1/08.pdf |
| _version_ | 1848814393048956928 |
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| author | Suhaila Zainudin, Nevy Rahmi Nurjana, |
| author_facet | Suhaila Zainudin, Nevy Rahmi Nurjana, |
| author_sort | Suhaila Zainudin, |
| building | UKM Institutional Repository |
| collection | Online Access |
| description | Drug discovery is the process through which new drugs are discovered. One of the most common techniques in drug discovery is similarity searching based on virtual screening that involves comparing the similarity between molecule structures in chemical database using established similarity methods. The objective of this study is to identify the similarity of the structure in chemical dataset using Mean Pairwise Similarity (MPS) calculation and to determine the best coefficient to be used in similarity searching which involves of molecular descriptor ECFP2 fingerprint and three types of similarity coefficient which are Tanimoto, Soergel and Euclidean. From the results, it was deduced that Tanimoto and Soergel coefficients has a better performance than Euclidean coefficient. For future work, different combinations of fingerprints such as Daylight, BCI, Unity MDL and similarity coefficient can be studied further. |
| first_indexed | 2025-11-15T00:33:22Z |
| format | Article |
| id | oai:generic.eprints.org:17758 |
| institution | Universiti Kebangasaan Malaysia |
| institution_category | Local University |
| language | English |
| last_indexed | 2025-11-15T00:33:22Z |
| publishDate | 2018 |
| publisher | Penerbit Universiti Kebangsaan Malaysia |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | oai:generic.eprints.org:177582021-12-24T08:38:53Z http://journalarticle.ukm.my/17758/ Comparison of similarity method to improve retrieval performance for chemical data Suhaila Zainudin, Nevy Rahmi Nurjana, Drug discovery is the process through which new drugs are discovered. One of the most common techniques in drug discovery is similarity searching based on virtual screening that involves comparing the similarity between molecule structures in chemical database using established similarity methods. The objective of this study is to identify the similarity of the structure in chemical dataset using Mean Pairwise Similarity (MPS) calculation and to determine the best coefficient to be used in similarity searching which involves of molecular descriptor ECFP2 fingerprint and three types of similarity coefficient which are Tanimoto, Soergel and Euclidean. From the results, it was deduced that Tanimoto and Soergel coefficients has a better performance than Euclidean coefficient. For future work, different combinations of fingerprints such as Daylight, BCI, Unity MDL and similarity coefficient can be studied further. Penerbit Universiti Kebangsaan Malaysia 2018-06 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/17758/1/08.pdf Suhaila Zainudin, and Nevy Rahmi Nurjana, (2018) Comparison of similarity method to improve retrieval performance for chemical data. Asia-Pacific Journal of Information Technology and Multimedia, 7 (1). pp. 91-98. ISSN 2289-2192 https://www.ukm.my/apjitm/articles-year.php |
| spellingShingle | Suhaila Zainudin, Nevy Rahmi Nurjana, Comparison of similarity method to improve retrieval performance for chemical data |
| title | Comparison of similarity method to improve retrieval performance for chemical data |
| title_full | Comparison of similarity method to improve retrieval performance for chemical data |
| title_fullStr | Comparison of similarity method to improve retrieval performance for chemical data |
| title_full_unstemmed | Comparison of similarity method to improve retrieval performance for chemical data |
| title_short | Comparison of similarity method to improve retrieval performance for chemical data |
| title_sort | comparison of similarity method to improve retrieval performance for chemical data |
| url | http://journalarticle.ukm.my/17758/ http://journalarticle.ukm.my/17758/ http://journalarticle.ukm.my/17758/1/08.pdf |