CITATION.cff

cff-version: 1.2.0
title: Kitsune: a next-generation data steward and harmonization tool  
type: software
message: If you use this software, please cite it as below.
license: Apache-2.0
language: en
authors:
  - given-names: Mehmet Can
    family-names: Ay
    email: mehmet.ay@scai.fraunhofer.de
    affiliation: Fraunhofer Institute for Algorithms and Scientific Computing SCAI
    orcid: https://orcid.org/0000-0002-2977-7695
  - given-names: Tim
    family-names: Adams
    email: tim.adams@scai.fraunhofer.de
    affiliation: Fraunhofer Institute for Algorithms and Scientific Computing SCAI
    orcid: https://orcid.org/0000-0002-2823-0102
repository-code: https://github.com/SCAI-BIO/kitsune
abstract: >
  Kitsune is a next-generation data steward and harmonization tool. Building on the legacy of 
  systems like Usagi, Kitsune leverages LLM embeddings to intelligently map semantically similar 
  terms even when their string representations differ substantially. This results in more robust data 
  harmonization and improved performance in real-world scenarios.
keywords:
  - data harmonization
  - data stewardship
  - large language models
  - LLM

preferred-citation:
  type: article
  authors:
    - family-names: Salimi
      given-names: Yasamin
    - family-names: Adams
      given-names: Tim
    - family-names: Ay
      given-names: Mehmet Can
    - family-names: Balabin
      given-names: Helena
    - family-names: Jacobs
      given-names: Marc
    - family-names: Hofmann-Apitius
      given-names: Martin
  title: Evaluating language model embeddings for Parkinson’s disease cohort harmonization using a novel manually curated variable mapping schema
  journal: Scientific Reports
  year: 2025
  doi: 10.1038/s41598-025-06447-2

references:
  - type: conference-paper
    title: INDEX — the Intelligent Data Steward Toolbox
    doi: 10.24406/publica-4577
  - type: poster
    title: INDEX — the Intelligent Data Steward Toolbox
    doi: 10.4126/FRL01-006472846