{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/neural-architecture-search-for-joint","title":"Neural Architecture Search for Joint Optimization of Predictive Power and Biological Knowledge","arxiv_id":"1909.00337","date":"2019-09-01","proceeding":null,"authors":["Zijun Zhang","Linqi Zhou","Liangke Gou","Ying Nian Wu"],"abstract":"We report a neural architecture search framework, BioNAS, that is tailored for biomedical researchers to easily build, evaluate, and uncover novel knowledge from interpretable deep learning models. The introduction of knowledge dissimilarity functions in BioNAS enables the joint optimization of predictive power and biological knowledge through searching architectures in a model space. By optimizing the consistency with existing knowledge, we demonstrate that BioNAS optimal models reveal novel knowledge in both simulated data and in real data of functional genomics. BioNAS provides a useful tool for domain experts to inject their prior belief into automated machine learning and therefore making deep learning easily accessible to practitioners. BioNAS is available at https://github.com/zj-zhang/BioNAS-pub.","url_abs":"https://arxiv.org/abs/1909.00337v1","url_pdf":"https://arxiv.org/pdf/1909.00337v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"neural-architecture-search-for-joint","repo_url":"https://github.com/zj-zhang/BioNAS-pub","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[{"task_slug":"deep-learning","task_name":"Deep Learning"},{"task_slug":"architecture-search","task_name":"Neural Architecture Search"}],"methods":[{"method_slug":"lstm","method_name":"LSTM"},{"method_slug":"sigmoid-activation","method_name":"Sigmoid Activation"},{"method_slug":"softmax","method_name":"Softmax"},{"method_slug":"tanh-activation","method_name":"Tanh Activation"}],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}