PharmDB-K: Integrated bio-pharmacological network database for traditional Korean medicine

Ji Hyun Lee; Kyoung Mii Park; Dong Jin Han; Nam Young Bang; Do Hee Kim; Hyeongjin Na; Semi Lim; Tae Bum Kim; Dae Gyu Kim; Hyun Jung Kim; Yeonseok Chung; Sang Hyun Sung; Young Joon Surh; Sunghoon Kim; Byung Woo Han

doi:10.1371/journal.pone.0142624

PharmDB-K: Integrated bio-pharmacological network database for traditional Korean medicine

Ji Hyun Lee, Kyoung Mii Park, Dong Jin Han, Nam Young Bang, Do Hee Kim, Hyeongjin Na, Semi Lim, Tae Bum Kim, Dae Gyu Kim, Hyun Jung Kim, Yeonseok Chung, Sang Hyun Sung, Young Joon Surh, Sunghoon Kim, Byung Woo Han

Department of Pharmacy

Research output: Contribution to journal › Article › peer-review

11 Citations (Scopus)

Abstract

Despite the growing attention given to Traditional Medicine (TM) worldwide, there is no wellknown, publicly available, integrated bio-pharmacological Traditional Korean Medicine (TKM) database for researchers in drug discovery. In this study, we have constructed PharmDB-K, which offers comprehensive information relating to TKM-Associated drugs (compound), disease indication, and protein relationships. To explore the underlying molecular interaction of TKM, we integrated fourteen different databases, six Pharmacopoeias, and literature, and established a massive bio-pharmacological network for TKM and experimentally validated some cases predicted from the PharmDB-K analyses. Currently, PharmDB-K contains information about 262 TKMs, 7,815 drugs, 3,721 diseases, 32,373 proteins, and 1,887 side effects. One of the unique sets of information in PharmDB-K includes 400 indicator compounds used for standardization of herbal medicine. Furthermore, we are operating PharmDB-K via phExplorer (a network visualization software) and BioMart (a data federation framework) for convenient search and analysis of the TKM network.

Original language	English
Article number	e0142624
Journal	PloS one
Volume	10
Issue number	11
DOIs	https://doi.org/10.1371/journal.pone.0142624
Publication status	Published - 2015 Nov 10

Bibliographical note

Publisher Copyright:
© 2015 Lee et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

All Science Journal Classification (ASJC) codes

Biochemistry, Genetics and Molecular Biology(all)
Agricultural and Biological Sciences(all)
General

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Lee, Ji Hyun ; Park, Kyoung Mii ; Han, Dong Jin ; Bang, Nam Young ; Kim, Do Hee ; Na, Hyeongjin ; Lim, Semi ; Kim, Tae Bum ; Kim, Dae Gyu ; Kim, Hyun Jung ; Chung, Yeonseok ; Sung, Sang Hyun ; Surh, Young Joon ; Kim, Sunghoon ; Han, Byung Woo. / PharmDB-K : Integrated bio-pharmacological network database for traditional Korean medicine. In: PloS one. 2015 ; Vol. 10, No. 11.

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abstract = "Despite the growing attention given to Traditional Medicine (TM) worldwide, there is no wellknown, publicly available, integrated bio-pharmacological Traditional Korean Medicine (TKM) database for researchers in drug discovery. In this study, we have constructed PharmDB-K, which offers comprehensive information relating to TKM-Associated drugs (compound), disease indication, and protein relationships. To explore the underlying molecular interaction of TKM, we integrated fourteen different databases, six Pharmacopoeias, and literature, and established a massive bio-pharmacological network for TKM and experimentally validated some cases predicted from the PharmDB-K analyses. Currently, PharmDB-K contains information about 262 TKMs, 7,815 drugs, 3,721 diseases, 32,373 proteins, and 1,887 side effects. One of the unique sets of information in PharmDB-K includes 400 indicator compounds used for standardization of herbal medicine. Furthermore, we are operating PharmDB-K via phExplorer (a network visualization software) and BioMart (a data federation framework) for convenient search and analysis of the TKM network.",

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PharmDB-K : Integrated bio-pharmacological network database for traditional Korean medicine. / Lee, Ji Hyun; Park, Kyoung Mii; Han, Dong Jin; Bang, Nam Young; Kim, Do Hee; Na, Hyeongjin; Lim, Semi; Kim, Tae Bum; Kim, Dae Gyu; Kim, Hyun Jung; Chung, Yeonseok; Sung, Sang Hyun; Surh, Young Joon; Kim, Sunghoon; Han, Byung Woo.

In: PloS one, Vol. 10, No. 11, e0142624, 10.11.2015.

Research output: Contribution to journal › Article › peer-review

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AU - Bang, Nam Young

AU - Kim, Do Hee

AU - Na, Hyeongjin

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AU - Kim, Tae Bum

AU - Kim, Dae Gyu

AU - Kim, Hyun Jung

AU - Chung, Yeonseok

AU - Sung, Sang Hyun

AU - Surh, Young Joon

AU - Kim, Sunghoon

AU - Han, Byung Woo

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PharmDB-K: Integrated bio-pharmacological network database for traditional Korean medicine

Abstract

Bibliographical note

All Science Journal Classification (ASJC) codes

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