open access publication

Preprint, 2024

SmartGraph API: Programmatic Knowledge Mining in Network- Pharmacology Setting

ChemRxiv, ISSN 2573-2293, 10.26434/chemrxiv-2024-0psx3

Contributors

Zahoránszky-Kőhalmi, Gergely [1] Walker, Brandon [1] Miller, Nathan [1] Yang, Brett [1] Penna, Dhatri V. L. [1] Binder, Jessica [1] Sheils, Timothy K 0000-0002-9987-3738 [1] Wang, Ke 0009-0009-8317-8106 [1] King, Jennifer [1] Sidky, Hythem 0000-0003-3532-4809 [1] Vuyyuru, Sridhar [1] Soundarajan, Jeyaraman [1] Michael, Samuel G [1] Godfrey, Alexander G [1] Oprea, Tudor Ionel 0000-0002-6195-6976 [2] [3] [4] [5]

Affiliations

  1. [1] National Center for Advancing Translational Sciences
    2. [NORA names: United States; America, North; OECD];
  2. [2] Sahlgrenska Academy at University of Gothenburg
  3. [3] UNM Comprehensive Cancer Center
    4. [NORA names: United States; America, North; OECD];
  4. [4] University of Copenhagen
    5. [NORA names: KU University of Copenhagen; University; Denmark; Europe, EU; Nordic; OECD];
  5. [5] University of New Mexico
    6. [NORA names: United States; America, North; OECD]

Abstract

The recent SmartGraph platform facilitates the execution of complex drug-discovery workflows with ease in the network-pharmacology paradigm. However, at the time of its publication, we identified the need for the development of an Application Programming Interface (API) that could promote biomedical data integration and hypothesis generation in an automated manner. This need was magnified at the time of the COVID-19 pandemic. This study addresses this hiatus. Most functionalities of the original platform were implemented in the SmartGraph API. We demonstrate that by using the API it is possible to transform the original semi-automated workflow behind the Neo4COVID19 database to a fully automated one. The availability of the SmartGraph API lends a significant improvement to the programmatic integration of networkpharmacology- oriented knowledge graphs and analytics, as well as predictive functionalities and workflows.

Keywords

Application Programming Interface, COVID-19, COVID-19 pandemic, analytes, applications, automated manner, biomedical data integration, data integration, database, development, drug discovery workflow, execution, function, generation, hiatus, hypothesis generation, improvement, integration, interface, knowledge mining, manner, mining, original platform, pandemic, paradigm, platform, prediction function, programmatic integration, programming interface, publications, semi-automated workflow, study, time, workflow

Data Provider: Digital Science

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