index.md

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home	HDR UK CALIBER Phenotype Library

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Welcome to the HDR UK CALIBER Phenotype Library

A comprehensive, open-access resource providing the research community with information, tools and phenotyping algorithms for UK electronic health records:

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phenotyping algorithms

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codelists

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medical ontology terms

10+

data sources

100+

research papers

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What is a phenotyping algorithm?

Phenotyping algorithms are complex computer programs that extract useful information from electronic health records so they can be used for health research.

What is the HDR UK Phenotype Library?

Our aim is to provide researchers with the “GitHub of phenotyping”: an open platform for storage, dissemination, re-use, evaluation and citation of their own curated algorithms and metadata (data source(s), clinical terminologies, and other information) in order to reduce duplication of effort and improve research reproducibility.

Key principles

• The Library stores phenotyping algorithms, metadata and tools only. No data are stored in the Library.
• Ideally, phenotypes that are deposited in the Library will have undergone some form of peer-review to assess validity and quality either through peer-reviewed publication or some other means of sharing the definition(s)
• Phenotype definitions will be assigned a unique Digital Object Identifier (DOI) to facilitate identification of the phenotype
• All material deposited in the Library remain the intellectual property of the research group who created the phenotype(s) – the default licensing agreement that information is available under is the Creative Commons Attribution 4.0 (CC-A)
• Users should cite the Phenotype Library in all publications, presentations and reports as follows: “HDR UK CALIBER Phenotype Library https://portal.caliberresearch.org/”
• The aim of the Library is not to standardize or harmonize disease definitions, therefore several phenotypes may be stored for the same condition and the onus is on individual researchers to explore which phenotypes they wish to use

How to contribute?

To submit an EHR phenotyping algorithm to the Phenotype Library, read our documentation pages. If you want to provide feedback, or ask questions, contact the team!

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## Disease or syndrome {: .table-title } {% assign disease_phenotypes = site.phenotypes | where: "type", "Disease or Syndrome" | sort: "name" %}

| Phenotype | Data Sources | |-----------|--------------|{% for phenotype in disease_phenotypes %} [{{ phenotype.name }}]({{ phenotype.url }}) | {{ phenotype.data_sources | join: ", "}} |{% endfor %}

View all diseases and syndromes{: .btn} {: .btn-p}

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## Biomarkers {: .table-title } {% assign biomarker_phenotypes = site.phenotypes | where: "type", "Biomarker" | sort: "name" %} | Phenotype | Data Sources | |-----------|--------------|{% for phenotype in biomarker_phenotypes %} | [{{ phenotype.name }}]({{ phenotype.url }}) | {{ phenotype.data_sources | join: ", "}} |{% endfor %}

View all biomarkers{: .btn} {: .btn-p}

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## Lifestyle Risk factors {: .table-title } {% assign lifestyle_phenotypes = site.phenotypes | where: "type", "Lifestyle Risk Factor" | sort: "name" %} | Phenotype | Data Sources | |-----------|--------------|{% for phenotype in lifestyle_phenotypes %} | [{{ phenotype.name }}]({{ phenotype.url }}) | {{ phenotype.data_sources | join: ", "}} |{% endfor %}

View all lifestyle risk factors{: .btn} {: .btn-p}

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