[2408.17320] BioBricks.ai: A Versioned Data Registry for Life Sciences Data Assets
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Computer Science > Databases

arXiv:2408.17320 (cs)
[Submitted on 30 Aug 2024]

Title:BioBricks.ai: A Versioned Data Registry for Life Sciences Data Assets

Authors:Yifan Gao, Zakariyya Mughal, Jose A. Jaramillo-Villegas, Marie Corradi, Alexandre Borrel, Ben Lieberman, Suliman Sharif, John Shaffer, Karamarie Fecho, Ajay Chatrath, Alexandra Maertens, Marc A.T. Teunis, Nicole Kleinstreuer, Thomas Hartung, Thomas Luechtefeld
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Abstract:Researchers in biomedical research, public health, and the life sciences often spend weeks or months discovering, accessing, curating, and integrating data from disparate sources, significantly delaying the onset of actual analysis and innovation. Instead of countless developers creating redundant and inconsistent data pipelines, this http URL offers a centralized data repository and a suite of developer-friendly tools to simplify access to scientific data. Currently, this http URL delivers over ninety biological and chemical datasets. It provides a package manager-like system for installing and managing dependencies on data sources. Each 'brick' is a Data Version Control git repository that supports an updateable pipeline for extraction, transformation, and loading data into the this http URL backend at this https URL. Use cases include accelerating data science workflows and facilitating the creation of novel data assets by integrating multiple datasets into unified, harmonized resources. In conclusion, this http URL offers an opportunity to accelerate access and use of public data through a single open platform.
Comments: 23 pages, 2 figures
Subjects: Databases (cs.DB); Quantitative Methods (q-bio.QM)
Cite as: arXiv:2408.17320 [cs.DB]
  (or arXiv:2408.17320v1 [cs.DB] for this version)
  https://doi.org/10.48550/arXiv.2408.17320

Submission history

From: Yifan Gao [view email]
[v1] Fri, 30 Aug 2024 14:29:04 UTC (654 KB)
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