The Reproducible Research Platform establishes a unified open science environment bridging data and software lifecycles across disciplines, from proposal to publication

📅 2025-12-04
📈 Citations: 0
Influential: 0
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🤖 AI Summary
Addressing challenges in FAIR principle implementation—including fragmented data and code lifecycles, lack of executable environments, and high technical barriers—this study proposes a unified open-science platform. The platform uniquely integrates version control, containerized computational environments, and modular project scaffolding to support end-to-end reproducible research, from grant proposal to publication. It interoperates with mainstream scientific toolchains, supports deployment on both local workstations and institutional servers, and provides a lightweight graphical user interface. Empirical validation demonstrates successful re-execution of over a dozen interdisciplinary studies published more than ten years ago, confirming the platform’s robust long-term reproducibility, cross-platform compatibility, and seamless execution across diverse domains. By significantly lowering technical adoption barriers for researchers, the platform enables practical integration of FAIR principles and reproducibility practices into routine scientific workflows.

Technology Category

Application Category

📝 Abstract
Many research groups aspire to make data and code FAIR and reproducible, yet struggle because the data and code life cycles are disconnected, executable environments are often missing from published work, and technical skill requirements hinder adoption. Existing approaches rarely enable researchers to keep using their preferred tools or support seamless execution across domains. To close this gap, we developed the open-source Reproducible Research Platform (RRP), which unifies research data management with version-controlled, containerized computational environments in modular, shareable projects. RRP enables anyone to execute, reuse, and publish fully documented, FAIR research workflows without manual retrieval or platform-specific setup. We demonstrate RRP's impact by reproducing results from diverse published studies, including work over a decade old, showing sustained reproducibility and usability. With a minimal graphical interface focused on core tasks, modular tool installation, and compatibility with institutional servers or local computers, RRP makes reproducible science broadly accessible across scientific domains.
Problem

Research questions and friction points this paper is trying to address.

Unifies data and software lifecycles for reproducibility
Bridges disconnected data and code life cycles
Enables FAIR workflows without manual setup
Innovation

Methods, ideas, or system contributions that make the work stand out.

Unified platform linking data and software lifecycles
Containerized environments for FAIR, reproducible workflows
Minimal interface enabling cross-domain execution and reuse
A
Andreas P. Cuny
Computational Systems Biology, ETH Zurich D-BSSE, Klingelbergstrasse 48, 4056 Basel, CH
H
Henry Lütcke
ETH Zurich Scientific IT Services, 8092 Zurich, Switzerland
A
Andrei-Valentin Plamadă
ETH Zurich Scientific IT Services, 8092 Zurich, Switzerland
A
Antti Luomi
Swiss Institute of Bioinformatics, Klingelbergstrasse 48, 4056 Basel, CH
J
John Hennig
Swiss Institute of Bioinformatics, Klingelbergstrasse 48, 4056 Basel, CH
M
Matthew Baker
Swiss Institute of Bioinformatics, Klingelbergstrasse 48, 4056 Basel, CH
F
Fabian Rudolf
Computational Systems Biology, ETH Zurich D-BSSE, Klingelbergstrasse 48, 4056 Basel, CH
B
Bernd Rinn
Swiss Institute of Bioinformatics, Klingelbergstrasse 48, 4056 Basel, CH