Dataset Information

IncluSet: A Data Surfacing Repository for Accessibility Datasets.

ABSTRACT: Datasets and data sharing play an important role for innovation, benchmarking, mitigating bias, and understanding the complexity of real world AI-infused applications. However, there is a scarcity of available data generated by people with disabilities with the potential for training or evaluating machine learning models. This is partially due to smaller populations, disparate characteristics, lack of expertise for data annotation, as well as privacy concerns. Even when data are collected and are publicly available, it is often difficult to locate them. We present a novel data surfacing repository, called IncluSet, that allows researchers and the disability community to discover and link accessibility datasets. The repository is pre-populated with information about 139 existing datasets: 65 made publicly available, 25 available upon request, and 49 not shared by the authors but described in their manuscripts. More importantly, IncluSet is designed to expose existing and new dataset contributions so they may be discoverable through Google Dataset Search.

SUBMITTER: Kacorri H

PROVIDER: S-EPMC8375514 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Publications

IncluSet: A Data Surfacing Repository for Accessibility Datasets.

Kacorri Hernisa H Dwivedi Utkarsh U Amancherla Sravya S Jha Mayanka K MK Chanduka Riya R

ASSETS. Annual ACM Conference on Assistive Technologies 20200101

Datasets and data sharing play an important role for innovation, benchmarking, mitigating bias, and understanding the complexity of real world AI-infused applications. However, there is a scarcity of available data generated by people with disabilities with the potential for training or evaluating machine learning models. This is partially due to smaller populations, disparate characteristics, lack of expertise for data annotation, as well as privacy concerns. Even when data are collected and ar ...[more]

PMID: 34423335

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Project description:BackgroundThe deployment of Artificial Intelligence (AI) in healthcare has the potential to transform patient care through improved diagnostics, personalized treatment plans, and more efficient resource management. However, the effectiveness and fairness of AI are critically dependent on the data it learns from. Biased datasets can lead to AI outputs that perpetuate disparities, particularly affecting social minorities and marginalized groups.ObjectiveThis paper introduces the "Data Artifacts Glossary", a dynamic, open-source framework designed to systematically document and update potential biases in healthcare datasets. The aim is to provide a comprehensive tool that enhances the transparency and accuracy of AI applications in healthcare and contributes to understanding and addressing health inequities.MethodsUtilizing a methodology inspired by the Delphi method, a diverse team of experts conducted iterative rounds of discussions and literature reviews. The team synthesized insights to develop a comprehensive list of bias categories and designed the glossary's structure. The Data Artifacts Glossary was piloted using the MIMIC-IV dataset to validate its utility and structure.ResultsThe Data Artifacts Glossary adopts a collaborative approach modeled on successful open-source projects like Linux and Python. Hosted on GitHub, it utilizes robust version control and collaborative features, allowing stakeholders from diverse backgrounds to contribute. Through a rigorous peer review process managed by community members, the glossary ensures the continual refinement and accuracy of its contents. The implementation of the Data Artifacts Glossary with the MIMIC-IV dataset illustrates its utility. It categorizes biases, and facilitates their identification and understanding.ConclusionThe Data Artifacts Glossary serves as a vital resource for enhancing the integrity of AI applications in healthcare by providing a mechanism to recognize and mitigate dataset biases before they impact AI outputs. It not only aids in avoiding bias in model development but also contributes to understanding and addressing the root causes of health disparities.

Project description:BackgroundA lack of available data and statistical code being published alongside journal articles provides a significant barrier to open scientific discourse, and reproducibility of research. Information governance restrictions inhibit the active dissemination of individual level data to accompany published manuscripts. Realistic, high-fidelity time-to-event synthetic data can aid in the acceleration of methodological developments in survival analysis and beyond by enabling researchers to access and test published methods using data similar to that which they were developed on.MethodsWe present methods to accurately emulate the covariate patterns and survival times found in real-world datasets using synthetic data techniques, without compromising patient privacy. We model the joint covariate distribution of the original data using covariate specific sequential conditional regression models, then fit a complex flexible parametric survival model from which to generate survival times conditional on individual covariate patterns. We recreate the administrative censoring mechanism using the last observed follow-up date information from the initial dataset. Metrics for evaluating the accuracy of the synthetic data, and the non-identifiability of individuals from the original dataset, are presented.ResultsWe successfully create a synthetic version of an example colon cancer dataset consisting of 9064 patients which aims to show good similarity to both covariate distributions and survival times from the original data, without containing any exact information from the original data, therefore allowing them to be published openly alongside research.ConclusionsWe evaluate the effectiveness of the methods for constructing synthetic data, as well as providing evidence that there is minimal risk that a given patient from the original data could be identified from their individual unique patient information. Synthetic datasets using this methodology could be made available alongside published research without breaching data privacy protocols, and allow for data and code to be made available alongside methodological or applied manuscripts to greatly improve the transparency and accessibility of medical research.

Project description:BackgroundGenome Wide Association Studies (GWAS) are based on the observation of genome-wide sets of genetic variants - typically single-nucleotide polymorphisms (SNPs) - in different individuals that are associated with phenotypic traits. Research efforts have so far been directed to improving GWAS techniques rather than on making the results of GWAS interoperable with other genomic signals; this is currently hindered by the use of heterogeneous formats and uncoordinated experiment descriptions.ResultsTo practically facilitate integrative use, we propose to include GWAS datasets within the META-BASE repository, exploiting an integration pipeline previously studied for other genomic datasets that includes several heterogeneous data types in the same format, queryable from the same systems. We represent GWAS SNPs and metadata by means of the Genomic Data Model and include metadata within a relational representation by extending the Genomic Conceptual Model with a dedicated view. To further reduce the gap with the descriptions of other signals in the repository of genomic datasets, we perform a semantic annotation of phenotypic traits. Our pipeline is demonstrated using two important data sources, initially organized according to different data models: the NHGRI-EBI GWAS Catalog and FinnGen (University of Helsinki). The integration effort finally allows us to use these datasets within multi-sample processing queries that respond to important biological questions. These are then made usable for multi-omic studies together with, e.g., somatic and reference mutation data, genomic annotations, epigenetic signals.ConclusionsAs a result of the our work on GWAS datasets, we enable 1) their interoperable use with several other homogenized and processed genomic datasets in the context of the META-BASE repository; 2) their big data processing by means of the GenoMetric Query Language and associated system. Future large-scale tertiary data analysis may extensively benefit from the addition of GWAS results to inform several different downstream analysis workflows.

Dataset Information

IncluSet: A Data Surfacing Repository for Accessibility Datasets.

Publications

IncluSet: A Data Surfacing Repository for Accessibility Datasets.

Similar Datasets

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