Opportunities And Obstacles For Deep Learning In Biology And Medicine
Daniel S. Himmelstein,
Brett K. Beaulieu-Jones,
Alexandr A. Kalinin,
Brian T. Do,
Gregory P. Way,
Michael M. Hoffman,
Benjamin J. Lengerich,
Anne E. Carpenter,
Evan M. Cofer,
Christopher A. Lavender,
Srinivas C. Turaga,
David J. Harris,
Laura K. Wiley,
Marwin H.S. Segler,
Simina M. Boca,
S. Joshua Swamidass,
Casey S. Greene
Posted 28 May 2017
bioRxiv DOI: 10.1101/142760 (published DOI: 10.1098/rsif.2017.0387)
Posted 28 May 2017
Deep learning, which describes a class of machine learning algorithms, has recently showed impressive results across a variety of domains. Biology and medicine are data rich, but the data are complex and often ill-understood. Problems of this nature may be particularly well-suited to deep learning techniques. We examine applications of deep learning to a variety of biomedical problems - patient classification, fundamental biological processes, and treatment of patients - and discuss whether deep learning will transform these tasks or if the biomedical sphere poses unique challenges. We find that deep learning has yet to revolutionize or definitively resolve any of these problems, but promising advances have been made on the prior state of the art. Even when improvement over a previous baseline has been modest, we have seen signs that deep learning methods may speed or aid human investigation. More work is needed to address concerns related to interpretability and how to best model each problem. Furthermore, the limited amount of labeled data for training presents problems in some domains, as do legal and privacy constraints on work with sensitive health records. Nonetheless, we foresee deep learning powering changes at both bench and bedside with the potential to transform several areas of biology and medicine.
- Downloaded 53,113 times
- Download rankings, all-time:
- Site-wide: 20 out of 89,401
- In bioinformatics: 3 out of 8,433
- Year to date:
- Site-wide: 701 out of 89,401
- Since beginning of last month:
- Site-wide: 1,179 out of 89,401
Downloads over time
Distribution of downloads per paper, site-wide
- 18 Dec 2019: We're pleased to announce PanLingua, a new tool that enables you to search for machine-translated bioRxiv preprints using more than 100 different languages.
- 21 May 2019: PLOS Biology has published a community page about Rxivist.org and its design.
- 10 May 2019: The paper analyzing the Rxivist dataset has been published at eLife.
- 1 Mar 2019: We now have summary statistics about bioRxiv downloads and submissions.
- 8 Feb 2019: Data from Altmetric is now available on the Rxivist details page for every preprint. Look for the "donut" under the download metrics.
- 30 Jan 2019: preLights has featured the Rxivist preprint and written about our findings.
- 22 Jan 2019: Nature just published an article about Rxivist and our data.
- 13 Jan 2019: The Rxivist preprint is live!