An extensible big data software architecture managing a research resource of real-world clinical radiology data linked to other health data from the whole Scottish population.


Journal

GigaScience
ISSN: 2047-217X
Titre abrégé: Gigascience
Pays: United States
ID NLM: 101596872

Informations de publication

Date de publication:
29 09 2020
Historique:
received: 13 03 2020
revised: 28 07 2020
accepted: 26 08 2020
entrez: 29 9 2020
pubmed: 30 9 2020
medline: 26 10 2021
Statut: ppublish

Résumé

To enable a world-leading research dataset of routinely collected clinical images linked to other routinely collected data from the whole Scottish national population. This includes more than 30 million different radiological examinations from a population of 5.4 million and >2 PB of data collected since 2010. Scotland has a central archive of radiological data used to directly provide clinical care to patients. We have developed an architecture and platform to securely extract a copy of those data, link it to other clinical or social datasets, remove personal data to protect privacy, and make the resulting data available to researchers in a controlled Safe Haven environment. An extensive software platform has been developed to host, extract, and link data from cohorts to answer research questions. The platform has been tested on 5 different test cases and is currently being further enhanced to support 3 exemplar research projects. The data available are from a range of radiological modalities and scanner types and were collected under different environmental conditions. These real-world, heterogenous data are valuable for training algorithms to support clinical decision making, especially for deep learning where large data volumes are required. The resource is now available for international research access. The platform and data can support new health research using artificial intelligence and machine learning technologies, as well as enabling discovery science.

Identifiants

pubmed: 32990744
pii: 5912826
doi: 10.1093/gigascience/giaa095
pmc: PMC7523405
pii:
doi:

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Subventions

Organisme : Medical Research Council
ID : G0902393
Pays : United Kingdom
Organisme : Medical Research Council
ID : MR/M501633/1
Pays : United Kingdom
Organisme : Medical Research Council
ID : MR/S010351/1
Pays : United Kingdom
Organisme : Medical Research Council
ID : MR/M501633/2
Pays : United Kingdom
Organisme : Medical Research Council
ID : MR/K006584/1
Pays : United Kingdom
Organisme : Department of Health
ID : RP-PG-0407-10314
Pays : United Kingdom
Organisme : Medical Research Council
ID : MR/K007017/1
Pays : United Kingdom
Organisme : Department of Health
ID : 05/40/04
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_PC_13041
Pays : United Kingdom

Informations de copyright

© The Author(s) 2020. Published by Oxford University Press GigaScience.

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Auteurs

Thomas Nind (T)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

James Sutherland (J)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Gordon McAllister (G)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Douglas Hardy (D)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Ally Hume (A)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Ruairidh MacLeod (R)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Jacqueline Caldwell (J)

Electronic Data Research and Innovation Service (eDRIS), Public Health Scotland (PHS), Nine, Edinburgh Bioquarter, Little France Road, Edinburgh EH16 4UX, UK.

Susan Krueger (S)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Leandro Tramma (L)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Ross Teviotdale (R)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Mohammed Abdelatif (M)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Kenny Gillen (K)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Joe Ward (J)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

Donald Scobbie (D)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Ian Baillie (I)

Electronic Data Research and Innovation Service (eDRIS), Public Health Scotland (PHS), Nine, Edinburgh Bioquarter, Little France Road, Edinburgh EH16 4UX, UK.

Andrew Brooks (A)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Bianca Prodan (B)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

William Kerr (W)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Dominic Sloan-Murphy (D)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Juan F R Herrera (JFR)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Dan McManus (D)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Carole Morris (C)

Electronic Data Research and Innovation Service (eDRIS), Public Health Scotland (PHS), Nine, Edinburgh Bioquarter, Little France Road, Edinburgh EH16 4UX, UK.

Carol Sinclair (C)

Data Driven Innovation, Public Health Scotland (PHS), Gyle Square, 1 South Gyle Crescent, Edinburgh EH12 9EB, UK.

Rob Baxter (R)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Mark Parsons (M)

Edinburgh Parallel Computing Centre (EPCC), Edinburgh University, Bayes Centre, 47 Potterrow, Edinburgh EH8 9BT, UK.

Andrew Morris (A)

Health Data Research (HDR) UK, Gibbs Building, 215 Euston Road, London NW1 2BE, UK.

Emily Jefferson (E)

Health Informatics Centre (HIC), School of Medicine, University of Dundee, (Main level 5 corridor), Second Floor, Level 7, Mailbox 15, Ninewells Hospital & Medical School, Dundee DD1 9SY2, UK.

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Classifications MeSH