Isabl Platform, a digital biobank for processing multimodal patient data Journal Article
| Authors: | Medina-Martínez, J. S.; Arango-Ossa, J. E.; Levine, M. F.; Zhou, Y.; Gundem, G.; Kung, A. L.; Papaemmanuil, E. |
| Article Title: | Isabl Platform, a digital biobank for processing multimodal patient data |
| Abstract: | Background: The widespread adoption of high throughput technologies has democratized data generation. However, data processing in accordance with best practices remains challenging and the data capital often becomes siloed. This presents an opportunity to consolidate data assets into digital biobanks—ecosystems of readily accessible, structured, and annotated datasets that can be dynamically queried and analysed. Results: We present Isabl, a customizable plug-and-play platform for the processing of multimodal patient-centric data. Isabl's architecture consists of a relational database (Isabl DB), a command line client (Isabl CLI), a RESTful API (Isabl API) and a frontend web application (Isabl Web). Isabl supports automated deployment of user-validated pipelines across the entire data capital. A full audit trail is maintained to secure data provenance, governance and ensuring reproducibility of findings. Conclusions: As a digital biobank, Isabl supports continuous data utilization and automated meta analyses at scale, and serves as a catalyst for research innovation, new discoveries, and clinical translation. © 2020, The Author(s). |
| Keywords: | adult; reproducibility; patient coding; clinical research; genomics; image processing; software; meta analysis; catalyst; clinical translation; ecosystem; adoption; next generation sequencing; high throughput sequencing; data processing; hospital data processing; pipeline; software engineering; human; male; female; article; continuous data; reproducibilities; data handling; biobank; application programming interfaces (api); analysis information management system; multimodal data; annotated datasets; data generation; high throughput technology; relational database; web application |
| Journal Title: | BMC Bioinformatics |
| Volume: | 21 |
| ISSN: | 1471-2105 |
| Publisher: | Biomed Central Ltd |
| Date Published: | 2020-11-30 |
| Start Page: | 549 |
| Language: | English |
| DOI: | 10.1186/s12859-020-03879-7 |
| PUBMED: | 33256603 |
| PROVIDER: | scopus |
| PMCID: | PMC7708092 |
| DOI/URL: | |
| Notes: | Article -- Export Date: 4 January 2021 -- Source: Scopus |
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208Papaemmanuil -
97Kung -
56Gundem -
38Medina -
35Levine -
14Zhou -
49Arango Ossa
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