Cargando…

Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks

Module‐based methods have made much progress in deconstructing biological networks. However, it is a great challenge to quantitatively compare the topological structural variations of modules (allosteric modules [AMs]) under different situations. A total of 23, 42, and 15 coexpression modules were i...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, B, Liu, J, Zhang, YY, Wang, PQ, Yu, YN, Kang, RX, Wu, HL, Zhang, XX, Wang, Z, Wang, YY
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5080653/
https://www.ncbi.nlm.nih.gov/pubmed/27758049
http://dx.doi.org/10.1002/psp4.12127
_version_ 1782462764433801216
author Li, B
Liu, J
Zhang, YY
Wang, PQ
Yu, YN
Kang, RX
Wu, HL
Zhang, XX
Wang, Z
Wang, YY
author_facet Li, B
Liu, J
Zhang, YY
Wang, PQ
Yu, YN
Kang, RX
Wu, HL
Zhang, XX
Wang, Z
Wang, YY
author_sort Li, B
collection PubMed
description Module‐based methods have made much progress in deconstructing biological networks. However, it is a great challenge to quantitatively compare the topological structural variations of modules (allosteric modules [AMs]) under different situations. A total of 23, 42, and 15 coexpression modules were identified in baicalin (BA), jasminoidin (JA), and ursodeoxycholic acid (UA) in a global anti‐ischemic mice network, respectively. Then, we integrated the methods of module‐based consensus ratio (MCR) and modified Z(summary) module statistic to validate 12 BA, 22 JA, and 8 UA on‐modules based on comparing with vehicle. The MCRs for pairwise comparisons were 1.55% (BA vs. JA), 1.45% (BA vs. UA), and 1.27% (JA vs. UA), respectively. Five conserved allosteric modules (CAMs) and 17 unique allosteric modules (UAMs) were identified among these groups. In conclusion, module‐centric analysis may provide us a unique approach to understand multiple pharmacological mechanisms associated with differential phenotypes in the era of modular pharmacology.
format Online
Article
Text
id pubmed-5080653
institution National Center for Biotechnology Information
language English
publishDate 2016
publisher John Wiley and Sons Inc.
record_format MEDLINE/PubMed
spelling pubmed-50806532016-10-31 Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks Li, B Liu, J Zhang, YY Wang, PQ Yu, YN Kang, RX Wu, HL Zhang, XX Wang, Z Wang, YY CPT Pharmacometrics Syst Pharmacol Original Articles Module‐based methods have made much progress in deconstructing biological networks. However, it is a great challenge to quantitatively compare the topological structural variations of modules (allosteric modules [AMs]) under different situations. A total of 23, 42, and 15 coexpression modules were identified in baicalin (BA), jasminoidin (JA), and ursodeoxycholic acid (UA) in a global anti‐ischemic mice network, respectively. Then, we integrated the methods of module‐based consensus ratio (MCR) and modified Z(summary) module statistic to validate 12 BA, 22 JA, and 8 UA on‐modules based on comparing with vehicle. The MCRs for pairwise comparisons were 1.55% (BA vs. JA), 1.45% (BA vs. UA), and 1.27% (JA vs. UA), respectively. Five conserved allosteric modules (CAMs) and 17 unique allosteric modules (UAMs) were identified among these groups. In conclusion, module‐centric analysis may provide us a unique approach to understand multiple pharmacological mechanisms associated with differential phenotypes in the era of modular pharmacology. John Wiley and Sons Inc. 2016-10-19 2016-10 /pmc/articles/PMC5080653/ /pubmed/27758049 http://dx.doi.org/10.1002/psp4.12127 Text en © 2016 The Authors CPT: Pharmacometrics & Systems Pharmacology published by Wiley Periodicals, Inc. on behalf of American Society for Clinical Pharmacology and Therapeutics This is an open access article under the terms of the Creative Commons Attribution‐NonCommercial‐NoDerivs (http://creativecommons.org/licenses/by-nc-nd/4.0/) License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.
spellingShingle Original Articles
Li, B
Liu, J
Zhang, YY
Wang, PQ
Yu, YN
Kang, RX
Wu, HL
Zhang, XX
Wang, Z
Wang, YY
Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title_full Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title_fullStr Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title_full_unstemmed Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title_short Quantitative Identification of Compound‐Dependent On‐Modules and Differential Allosteric Modules From Homologous Ischemic Networks
title_sort quantitative identification of compound‐dependent on‐modules and differential allosteric modules from homologous ischemic networks
topic Original Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5080653/
https://www.ncbi.nlm.nih.gov/pubmed/27758049
http://dx.doi.org/10.1002/psp4.12127
work_keys_str_mv AT lib quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT liuj quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT zhangyy quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT wangpq quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT yuyn quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT kangrx quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT wuhl quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT zhangxx quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT wangz quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks
AT wangyy quantitativeidentificationofcompounddependentonmodulesanddifferentialallostericmodulesfromhomologousischemicnetworks