Publications
Peer-reviewed publication of AI research in biomedical journals and computer science conferences is central to CAIRE’s mission to disseminate its innovative computational work. Selected faculty publications appear below.
- Urbanowicz, RJ, Zhang, R, Cui, Y, Suri P. STREAMLINE: A Simple, Transparent, End-To-End Automated Machine Learning Pipeline Facilitating Data Analysis and Algorithm Comparison. Genetic Programming Theory and Practice XIX. Springer, pp. 201-231, 2023.
- Manduchi E, Romano JD, Moore JH. The promise of automated machine learning for the genetic analysis of complex traits. Hum Genet. 2022 Sep;141(9):1529-1544. doi: 10.1007/s00439-021-02393-x. Epub 2021 Oct 28. PMID: 34713318; PMCID: PMC9360157.
- Orzechowski P, Moore JH. Generative and reproducible benchmarks for comprehensive evaluation of machine learning classifiers. Sci Adv. 2022 Nov 25;8(47):eabl4747. doi: 10.1126/sciadv.abl4747. Epub 2022 Nov 23. PMID: 36417520; PMCID: PMC9683726.
- Combi C, Amico B, Bellazzi R, Holzinger A, Moore JH, Zitnik M, Holmes JH. A manifesto on explainability for artificial intelligence in medicine. Artif Intell Med. 2022 Nov;133:102423. doi: 10.1016/j.artmed.2022.102423. Epub 2022 Oct 9. PMID: 36328669.
- A Romero RA, Y Deypalan MN, Mehrotra S, Jungao JT, Sheils NE, Manduchi E, Moore JH. Benchmarking AutoML frameworks for disease prediction using medical claims. BioData Min. 2022 Jul 26;15(1):15. doi: 10.1186/s13040-022-00300-2. PMID: 35883154; PMCID: PMC9327416.
- Causey J, Stubblefield J, Qualls J, Fowler J, Cai L, Walker K, Guan Y, Huang X. An Ensemble of U-Net Models for Kidney Tumor Segmentation With CT Images. IEEE/ACM Trans Comput Biol Bioinform. 2022 May-Jun;19(3):1387-1392. doi: 10.1109/TCBB.2021.3085608. Epub 2022 Jun 3. PMID: 34061750; PMCID: PMC9210325.
- Bright TJ, Williams KS, Rajamani S, Tiase VL, Senathirajah Y, Hebert C, McCoy AB. Making the case for workforce diversity in biomedical informatics to help achieve equity-centered care: a look at the AMIA First Look Program. J Am Med Inform Assoc. 2021 Dec 28;29(1):171-175. doi: 10.1093/jamia/ocab246. PMID: 34963144; PMCID: PMC8714276.
- La Cava W, Williams H, Fu W, Vitale S, Srivatsan D, Moore JH. Evaluating recommender systems for AI-driven biomedical informatics. Bioinformatics. 2021 Apr 19;37(2):250-256. doi: 10.1093/bioinformatics/btaa698. PMID: 32766825; PMCID: PMC8055228.
- Diwadkar AR, Yoon S, Shim J, Gonzalez M, Urbanowicz R, Himes BE. Integrating Biomedical Informatics Training into Existing High School Curricula. AMIA Jt Summits Transl Sci Proc. 2021 May 17;2021:190-199. PMID: 34457133; PMCID: PMC8378629.
- Stubblefield J, Hervert M, Causey JL, Qualls JA, Dong W, Cai L, Fowler J, Bellis E, Walker K, Moore JH, et al. Transfer learning with chest X-rays for ER patient classification. Sci Rep. 2020 Dec 1;10(1):20900. doi: 10.1038/s41598-020-78060-4. PMID: 33262425; PMCID: PMC7708466.
- Le TT, Fu W, Moore JH. Scaling tree-based automated machine learning to biomedical big data with a feature set selector. Bioinformatics. 2020 Jan 1;36(1):250-256. doi: 10.1093/bioinformatics/btz470. PMID: 31165141; PMCID: PMC6956793.
- Moore JH, Boland MR, Camara PG, Chervitz H, Gonzalez G, Himes BE, Kim D, Mowery DL, Ritchie MD, et al. Preparing next-generation scientists for biomedical big data: artificial intelligence approaches. Per Med. 2019 May 1;16(3):247-257. doi: 10.2217/pme-2018-0145. Epub 2019 Feb 14. PMID: 30760118; PMCID: PMC7545355.