The benefit of augmenting open data with clinical data-warehouse EHR for forecasting SARS-CoV-2 hospitalizations in Bordeaux area, France
| dc.rights.license | open | en_US |
| hal.structure.identifier | Statistics In System biology and Translational Medicine [SISTM] | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | FERTE, Thomas | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | JOUHET, Vianney | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | GRIFFIER, Romain | |
| hal.structure.identifier | Statistics In System biology and Translational Medicine [SISTM] | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | HEJBLUM, Boris
ORCID: 0000-0003-0646-452X IDREF: 189970316 | |
| hal.structure.identifier | Statistics In System biology and Translational Medicine [SISTM] | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | THIEBAUT, Rodolphe | |
| dc.date.accessioned | 2023-03-14T08:17:44Z | |
| dc.date.available | 2023-03-14T08:17:44Z | |
| dc.date.issued | 2022-12 | |
| dc.identifier.issn | 2574-2531 | en_US |
| dc.identifier.uri | https://oskar-bordeaux.fr/handle/20.500.12278/172282 | |
| dc.description.abstractEn | The aim of this study was to develop an accurate regional forecast algorithm to predict the number of hospitalized patients and to assess the benefit of the Electronic Health Records (EHR) information to perform those predictions.Aggregated data from SARS-CoV-2 and weather public database and data warehouse of the Bordeaux hospital were extracted from May 16, 2020 to January 17, 2022. The outcomes were the number of hospitalized patients in the Bordeaux Hospital at 7 and 14 days. We compared the performance of different data sources, feature engineering, and machine learning models.During the period of 88 weeks, 2561 hospitalizations due to COVID-19 were recorded at the Bordeaux Hospital. The model achieving the best performance was an elastic-net penalized linear regression using all available data with a median relative error at 7 and 14 days of 0.136 [0.063; 0.223] and 0.198 [0.105; 0.302] hospitalizations, respectively. Electronic health records (EHRs) from the hospital data warehouse improved median relative error at 7 and 14 days by 10.9% and 19.8%, respectively. Graphical evaluation showed remaining forecast error was mainly due to delay in slope shift detection.Forecast model showed overall good performance both at 7 and 14 days which were improved by the addition of the data from Bordeaux Hospital data warehouse.The development of hospital data warehouse might help to get more specific and faster information than traditional surveillance system, which in turn will help to improve epidemic forecasting at a larger and finer scale.The objective of this work was to develop a forecast algorithm to predict the number of hospitalized patients at Bordeaux Hospital. In addition, we assessed the benefit of the Electronic Health Records (EHRs) information to perform those predictions. To perform this task, we used data between May 16, 2020, and January 17, 2022, from national database on SARS-CoV-2 epidemics, public database on weather and the data warehouse of the Bordeaux hospital. The outcomes were the number of hospitalized patients in the Bordeaux Hospital at 7 and 14 days. During the period of 88 weeks, 2561 hospitalizations due to COVID-19 were recorded at the Bordeaux Hospital. The best model had an error of 13.6% at 7 days and 19.8% at 14 days. EHRs from the hospital data warehouse improved the performance by 10% at 7 days and 20% at 14 days. Graphical evaluation showed remaining forecast error was mainly due to delay in slope shift detection. Forecast model showed overall good performance which were improved by the addition of EHRs data. The development of hospital data warehouse might help to get more specific and faster information than traditional surveillance system, which in turn will help to improve epidemic forecasting at a larger and finer scale. | |
| dc.language.iso | EN | en_US |
| dc.rights | Attribution 3.0 United States | * |
| dc.rights.uri | http://creativecommons.org/licenses/by/3.0/us/ | * |
| dc.title.en | The benefit of augmenting open data with clinical data-warehouse EHR for forecasting SARS-CoV-2 hospitalizations in Bordeaux area, France | |
| dc.type | Article de revue | en_US |
| dc.identifier.doi | 10.1093/jamiaopen/ooac086 | en_US |
| dc.subject.hal | Sciences du Vivant [q-bio]/Santé publique et épidémiologie | en_US |
| dc.identifier.pubmed | 36380849 | en_US |
| bordeaux.journal | JAMIA open | en_US |
| bordeaux.volume | 5 | en_US |
| bordeaux.hal.laboratories | Bordeaux Population Health Research Center (BPH) - UMR 1219 | en_US |
| bordeaux.issue | 4 | en_US |
| bordeaux.institution | Université de Bordeaux | en_US |
| bordeaux.institution | INSERM | en_US |
| bordeaux.team | AHEAD_BPH | en_US |
| bordeaux.team | SISTM_BPH | en_US |
| bordeaux.peerReviewed | oui | en_US |
| bordeaux.inpress | non | en_US |
| hal.export | false | |
| dc.rights.cc | Pas de Licence CC | en_US |
| bordeaux.COinS | ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=JAMIA%20open&rft.date=2022-12&rft.volume=5&rft.issue=4&rft.eissn=2574-2531&rft.issn=2574-2531&rft.au=FERTE,%20Thomas&JOUHET,%20Vianney&GRIFFIER,%20Romain&HEJBLUM,%20Boris&THIEBAUT,%20Rodolphe&rft.genre=article |
