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NIHR IBD BioResource: SNP imputation data

Population Size

Not reported
Population Size statistic card

Years

2016

Years statistic card

Associated BioSamples

DNA

Plasma

Associated BioSamples statistic card

Geographic coverage

United Kingdom

Geographic coverage statistic card

Lead time

2-6 months

Lead time statistic card

Summary

SNP chip data can be used to impute many of the (non-rare) SNPs not included on the chips. The NIHR IBD BioResource is using a modified version of the UK Biobank protocol to improve the options for recall.

Documentation

The NIHR IBD Bioresource comprises ~34k participants with Inflammatory Bowel Disease (IBD). SNP chip data can be used to impute many of the (non-rare) SNPs not included on the chips. The NIHR BioResource is using a modified version of the UK Biobank protocol to improve the options for recall.

Dataset type

Health and disease, Omics

Dataset sub-type

Oral and gastrointestinal

Associated media

https://bioresource.nihr.ac.uk/centres-programmes/ibd-bioresource/gut-reaction-data-sourceshttps://bioresource.nihr.ac.uk/centres-programmes/ibd-bioresource/gut-reaction/https://bioresource.nihr.ac.uk/media/1o3c4m42/axiom_ukbbv2_1-na36-r3-a4-annot-csv.ziphttp://biobank.ctsu.ox.ac.uk/crystal/crystal/docs/impute_ukb_v1.pdf

Keywords

Observations

Observed Node

Disambiguating Description

Measured Value

Measured Property

Observation Date

Events

SNP genotyping array chips processed and imputation performed.

11787

COUNT

01 Sep 2021

Provenance

Purpose of dataset collection

Study

Source of data extraction

Machine generated

Collection source setting

Other

Image contrast

Not stated

Biological sample availability

DNA,Plasma,Serum

Details

Publishing frequency

Quarterly

Version

1.0.0

Modified

08/10/2024

Distribution release date

31/03/2021

Citation Requirements

NIHR BioResource. Acknowledgement text: "We thank NIHR BioResource volunteers for their participation, and gratefully acknowledge NIHR BioResource centres, NHS Trusts and staff for their contribution. We thank the National Institute for Health Research, NHS Blood and Transplant, and Health Data Research UK as part of the Digital Innovation Hub Programme. The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR or the Department of Health and Social Care."

Coverage

Start date

13/01/2016

Time lag

2-6 months

Geographic coverage

United Kingdom

Minimum age range

18

Maximum age range

85

Follow-up

1 - 10 Years

Accessibility

Language

en

Controlled vocabulary

LOCAL

Format

text/plink, text/vcf

Data Access Request

Dataset pipeline status

Not available

Access rights

https://bioresource.nihr.ac.uk/using-our-bioresource

Time to dataset access

2-6 months

Access request cost

https://bioresource.nihr.ac.uk/using-our-bioresource/industry-researchers/industry-bioresource-usage-costs/

Access method category

TRE/SDE

Access service description

Some de-identified data may be released to researchers in a platform-independent filetype (e.g. CSV). However, access to any data acquired via NHS Digital is subject to strict restrictions governing where data may be accessed and from which locale - access in a Trustworthy Research Environment (TRE) at AIMES secure data centre (https://aimes.uk/). It is also intended that SNP data be available from the European Genome-Phenome Archive (EBI's EGA) via managed access.

Jurisdiction

GB-GB

Data use limitation

Research use only

Data use requirements

Institution-specific restrictions,Project-specific restrictions,Return to database or resource,Time limit on use,User-specific restriction

Data Controller

Cambridge University Hospitals NHS Foundation Trust (CUH)

Data Processor

Data processors are NIHR BioResource staff, others with Letters of Access to CUH and approved members of staff at the data centre (AIMES, https://aimes.uk/)

Dataset Types: Health and disease, Omics

Dataset Sub-types: Oral and gastrointestinal

Collection Sources: Other

Relationships:

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