File Download
  Links for fulltext
     (May Require Subscription)
Supplementary

Article: TMFUF: a triple matrix factorization-based unified framework for predicting comprehensive drug-drug interactions of new drugs

TitleTMFUF: a triple matrix factorization-based unified framework for predicting comprehensive drug-drug interactions of new drugs
Authors
KeywordsDrug-drug interaction
Side effects
Matrix factorization
Prediction
Regression
Issue Date2019
PublisherBioMed Central Ltd. The Journal's web site is located at http://www.biomedcentral.com/bmcbioinformatics/
Citation
BMC Bioinformatics, 2019, v. 19 n. suppl. 4, p. article no. 411 How to Cite?
AbstractBackground: A significant number of adverse drug reactions is caused by unexpected Drug-drug interactions (DDIs). The identification of DDIs becomes crucial before the co-prescription of multiple drugs is made. Such a task in clinics or in drug discovery usually requires high costs and numerous limitations, while computational approaches are able to predict potential DDIs effectively by utilizing diverse drug attributes (e.g. side effects). Nevertheless, they’re incapable when required to predict enhancive and degressive DDIs, which change increasingly and decreasingly the pharmacological behavior of interacting drugs respectively. The pharmacological change of DDIs is one of the most important factors when making a multi-drug prescription. Results: In this work, we design a Triple Matrix Factorization-based Unified Framework (TMFUF) to address the above issue. By leveraging a group of side effect entries of drugs, TMFUF achieves the inspiring result (AUC = 0.842 and AUPR = 0.526) in the case of conventional DDI prediction under the traditional screening task. In the comparison with two state-of-the-art approaches, TMFUF demonstrates it superiority by ~ 7% and ~ 20% improvement in terms of AUC and AUPR respectively. More importantly, TMFUF shows its ability in the comprehensive DDI prediction under different screening tasks. Finally, a utilization TMFUF reveals the significant pairs of side effects, which contribute to form enhancive and degressive DDIs, for further clinical validation. Conclusions: The proposed TMFUF is first capable to predict both conventional binary DDIs and comprehensive DDIs such that it captures the pharmacological changes caused by DDIs. Furthermore, it provides a unified solution of DDI prediction for two screening scenarios, which involves newly given drugs having no prior interaction. Another advantage is its ability to indicate how significantly the pairs of drug features contribute to form DDIs.
Persistent Identifierhttp://hdl.handle.net/10722/277572
ISSN
2019 Impact Factor: 3.242
2015 SCImago Journal Rankings: 1.722
PubMed Central ID

 

DC FieldValueLanguage
dc.contributor.authorShi, J-Y-
dc.contributor.authorHuang, H-
dc.contributor.authorLi, J-X-
dc.contributor.authorLei, P-
dc.contributor.authorZhang, Y-N-
dc.contributor.authorDong, K-
dc.contributor.authorYiu, S-M-
dc.date.accessioned2019-09-20T08:53:36Z-
dc.date.available2019-09-20T08:53:36Z-
dc.date.issued2019-
dc.identifier.citationBMC Bioinformatics, 2019, v. 19 n. suppl. 4, p. article no. 411-
dc.identifier.issn1471-2105-
dc.identifier.urihttp://hdl.handle.net/10722/277572-
dc.description.abstractBackground: A significant number of adverse drug reactions is caused by unexpected Drug-drug interactions (DDIs). The identification of DDIs becomes crucial before the co-prescription of multiple drugs is made. Such a task in clinics or in drug discovery usually requires high costs and numerous limitations, while computational approaches are able to predict potential DDIs effectively by utilizing diverse drug attributes (e.g. side effects). Nevertheless, they’re incapable when required to predict enhancive and degressive DDIs, which change increasingly and decreasingly the pharmacological behavior of interacting drugs respectively. The pharmacological change of DDIs is one of the most important factors when making a multi-drug prescription. Results: In this work, we design a Triple Matrix Factorization-based Unified Framework (TMFUF) to address the above issue. By leveraging a group of side effect entries of drugs, TMFUF achieves the inspiring result (AUC = 0.842 and AUPR = 0.526) in the case of conventional DDI prediction under the traditional screening task. In the comparison with two state-of-the-art approaches, TMFUF demonstrates it superiority by ~ 7% and ~ 20% improvement in terms of AUC and AUPR respectively. More importantly, TMFUF shows its ability in the comprehensive DDI prediction under different screening tasks. Finally, a utilization TMFUF reveals the significant pairs of side effects, which contribute to form enhancive and degressive DDIs, for further clinical validation. Conclusions: The proposed TMFUF is first capable to predict both conventional binary DDIs and comprehensive DDIs such that it captures the pharmacological changes caused by DDIs. Furthermore, it provides a unified solution of DDI prediction for two screening scenarios, which involves newly given drugs having no prior interaction. Another advantage is its ability to indicate how significantly the pairs of drug features contribute to form DDIs.-
dc.languageeng-
dc.publisherBioMed Central Ltd. The Journal's web site is located at http://www.biomedcentral.com/bmcbioinformatics/-
dc.relation.ispartofBMC Bioinformatics-
dc.rightsBMC Bioinformatics. Copyright © BioMed Central Ltd.-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.subjectDrug-drug interaction-
dc.subjectSide effects-
dc.subjectMatrix factorization-
dc.subjectPrediction-
dc.subjectRegression-
dc.titleTMFUF: a triple matrix factorization-based unified framework for predicting comprehensive drug-drug interactions of new drugs-
dc.typeArticle-
dc.identifier.emailYiu, S-M: smyiu@cs.hku.hk-
dc.identifier.authorityYiu, S-M=rp00207-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1186/s12859-018-2379-8-
dc.identifier.pmid30453924-
dc.identifier.pmcidPMC6245591-
dc.identifier.scopuseid_2-s2.0-85056716413-
dc.identifier.hkuros305933-
dc.identifier.volume19-
dc.identifier.issuesuppl. 4-
dc.identifier.spagearticle no. 411-
dc.identifier.epagearticle no. 411-
dc.publisher.placeUnited Kingdom-

Export via OAI-PMH Interface in XML Formats


OR


Export to Other Non-XML Formats