GenNet framework: interpretable neural networks for phenotype prediction
Arno van Hilten,
Steven A Kushner,
M. Arfan Ikram,
Hieab H.H. Adams,
Caroline C.W. Klaver,
Wiro J. Niessen,
Gennady V. Roshchupkin
Posted 20 Jun 2020
bioRxiv DOI: 10.1101/2020.06.19.159152
Posted 20 Jun 2020
Neural networks have been seldomly leveraged in population genomics due to the computational burden and challenge of interpretability. Here, we propose GenNet, a novel open-source deep learning framework for predicting phenotype from genotype. In this framework, public prior biological knowledge is used to construct interpretable and memory-efficient neural network architectures. These architectures obtain good predictive performance for multiple traits and complex diseases, opening the door for neural networks in population genomics. ### Competing Interest Statement Wiro J. Niessen is co-founder and shareholder of Quantib BV. Other authors declare no competing interests.
- Downloaded 366 times
- Download rankings, all-time:
- Site-wide: 51,442 out of 101,077
- In bioinformatics: 5,875 out of 9,276
- Year to date:
- Site-wide: 12,388 out of 101,077
- Since beginning of last month:
- Site-wide: 9,662 out of 101,077
Downloads over time
Distribution of downloads per paper, site-wide
- 20 Oct 2020: Support for sorting preprints using Twitter activity has been removed, at least temporarily, until a new source of social media activity data becomes available.
- 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!