Systems biology approaches to a rational drug discovery paradigm

Prathipati, Philip; Mizuguchi, Kenji

doi:https://doi.org/10.2174/1568026615666150826114524

Systems biology approaches to a rational drug discovery paradigm

Prathipati, Philip; Mizuguchi, Kenji

Current Topics in Medicinal Chemistry, 2015, 16(9), 1009-1025

Number of Access:410（2025-09-29 10:06 Counts）

Identifier to cite or link to this item: https://hdl.handle.net/11094/79142

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Title	Systems biology approaches to a rational drug discovery paradigm
Creator	CreatorName Prathipati, Philip
Creator	NRID 1000050450896 1000050450896 ORCID 0000-0003-3021-7078 0000-0003-3021-7078 researchmap permalink kenji_mizuguchi kenji_mizuguchi Scopus Author ID 57191477452 57191477452 CreatorName Mizuguchi, Kenji
Subject	Chemogenomics
	Chemoinformatics
	Chemoproteomics
	Drug discovery
	Genomics
	Phenomics
	Systems biology
Description	The published manuscript is available at EurekaSelect via http://www.eurekaselect.com/openurl/content.php?genre=article&doi=10.2174/1568026615666150826114524.
Description	Prathipati P., Mizuguchi K.. Systems biology approaches to a rational drug discovery paradigm. Current Topics in Medicinal Chemistry, 16, 9, 1009. https://doi.org/10.2174/1568026615666150826114524.
Abstract	Ligand- and structure-based drug design approaches complement phenotypic and target screens, respectively, and are the two major frameworks for guiding early-stage drug discovery efforts. Since the beginning of this century, the advent of the genomic era has presented researchers with a myriad of high throughput biological data (parts lists and their interaction networks) to address efficacy and toxicity, augmenting the traditional ligand- and structure-based approaches. This data rich era has also presented us with challenges related to integrating and analyzing these multi-platform and multi-dimensional datasets and translating them into viable hypotheses. Hence in the present paper, we review these existing approaches to drug discovery research and argue the case for a new systems biology based approach. We present the basic principles and the foundational arguments/underlying assumptions of the systems biology based approaches to drug design. Also discussed are systems biology data types (key entities, their attributes and their relationships with each other, and data models/representations), software and tools used for both retrospective and prospective analysis, and the hypotheses that can be inferred. In addition, we summarize some of the existing resources for a systems biology based drug discovery paradigm (open TG-GATEs, DrugMatrix, CMap and LINCs) in terms of their strengths and limitations.
Publisher	Bentham Science Publishers
Source Title	Current Topics in Medicinal Chemistry
Volume (Issue)	16(9)
Page	1009-1025
Date of Issued	2015-11-25
Language	English
Handle URL	https://hdl.handle.net/11094/79142
PISSN	15680266
eISSN	18734294
NCID	AA12814900
Relation.isVersionOf	DOI (Publisher Version) https://doi.org/10.2174/1568026615666150826114524
Relation.isIdenticalTo	PMID 26306988
Access Rights	open access
oaire:version	Accepted Manuscript
Category	学術雑誌論文 Journal Article

Resource Type	journal article
Local Type	Journal Article
DCMI Type	Text
DCTERMS.bibliographicCitation	Current Topics in Medicinal Chemistry. 2015, 16(9), p. 1009-1025
DC.title	Systems biology approaches to a rational drug discovery paradigm
DC.creator	Prathipati, Philip
DC.creator	Mizuguchi, Kenji
DC.publisher	Bentham Science Publishers
DC.language' scheme='DCTERMS.RFC1766	English
DC.type' scheme='DCTERMS.DCMIType	Text
DCTERMS.issued' scheme='DCTERMS.W3CDTF	2015-11-25
DC.identifier	https://doi.org/10.2174/1568026615666150826114524
DC.subject	Chemogenomics
	Chemoinformatics
	Chemoproteomics
	Drug discovery
	Genomics
	Phenomics
	Systems biology
DC.description	The published manuscript is available at EurekaSelect via http://www.eurekaselect.com/openurl/content.php?genre=article&doi=10.2174/1568026615666150826114524.
DC.description	Prathipati P., Mizuguchi K.. Systems biology approaches to a rational drug discovery paradigm. Current Topics in Medicinal Chemistry, 16, 9, 1009. https://doi.org/10.2174/1568026615666150826114524.
DCTERMS.abstract	Ligand- and structure-based drug design approaches complement phenotypic and target screens, respectively, and are the two major frameworks for guiding early-stage drug discovery efforts. Since the beginning of this century, the advent of the genomic era has presented researchers with a myriad of high throughput biological data (parts lists and their interaction networks) to address efficacy and toxicity, augmenting the traditional ligand- and structure-based approaches. This data rich era has also presented us with challenges related to integrating and analyzing these multi-platform and multi-dimensional datasets and translating them into viable hypotheses. Hence in the present paper, we review these existing approaches to drug discovery research and argue the case for a new systems biology based approach. We present the basic principles and the foundational arguments/underlying assumptions of the systems biology based approaches to drug design. Also discussed are systems biology data types (key entities, their attributes and their relationships with each other, and data models/representations), software and tools used for both retrospective and prospective analysis, and the hypotheses that can be inferred. In addition, we summarize some of the existing resources for a systems biology based drug discovery paradigm (open TG-GATEs, DrugMatrix, CMap and LINCs) in terms of their strengths and limitations.
DC.format	79142
citation_title	Systems biology approaches to a rational drug discovery paradigm
citation_author	Prathipati, Philip
citation_author	Mizuguchi, Kenji
citation_publisher	Bentham Science Publishers
citation_language	English
citation_date	2015-11-25
citation_journal_title	Current Topics in Medicinal Chemistry
citation_volume	16
citation_issue	9
citation_firstpage	1009
citation_lastpage	1025
citation_doi	https://doi.org/10.2174/1568026615666150826114524
citation_pmid	26306988
citation_public_url	https://hdl.handle.net/11094/79142

Systems biology approaches to a rational drug discovery paradigm

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