Ioannidis, A., Blanco-Portillo, J., Sandoval, K...Mentzer, A., Moreno-Estrada, A. "Paths and timings of the peopling of Polynesia inferred from genomic networks." Nature, 2021. [link] [review]
Mantes, A., Montserrat, D., Bustamante, C., Giró-i-Nieto, X., Ioannidis, A. "Neural ADMIXTURE: rapid population clustering with autoencoders" [BioRxiv] 2021.
Kumar, A., Montserrat, D., Bustamante, C. and Ioannidis, A. "XGMix: Local-Ancestry Inference With Stacked XGBoost." International Conference on Learning Representations (ICLR, 2020, AI4H) [link]
*Awarded Best Paper
Ioannidis, A., Blanco-Portillo, J., Sandoval, K...Bustamante, C., Moreno-Estrada, A. "Native American gene flow into Polynesia predating Easter Island settlement." Nature, 2020. [link] [review]
Montserrat, D., Bustamante, C. and Ioannidis, A. "LAI-Net: Local-Ancestry Inference With Neural Networks" IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP, 2020). IEEE. [link]
Hilmarsson, H., Kumar, A., Rastogi, R., Bustamante, C., Mas Montserrat, D., Ioannidis, A. "High Resolution Ancestry Deconvolution for Next Generation Genomic Data" [BioRxiv] 2021.
Montserrat, D.M., Bustamante, C. and Ioannidis, A. "Class-Conditional VAE-GAN for Local-Ancestry Simulation."
Machine Learning for Computational Biology at NeurIPS (MLCB/NeurIPS, 2019) [link]
Wojcik, G. Murphy, J., Edelson, J., Gignoux, C., Ioannidis, A., Manning, A., Rivas, M., Buyske, S., Hendricks, A., "Opportunities and challenges for the use of common controls in sequencing studies," Nature Reviews Genetics, 2022. [link]
COVID-19 Host Genetics Initiative, "Mapping the human genetic architecture of COVID-19," Nature, 2021. [link]
Parikh, V.*, Ioannidis, A.*, et al. *co-first "Deconvoluting complex correlates of COVID19 severity with local ancestry inference and viral phylodynamics: Results of a multiomic pandemic tracking strategy" [medRxiv] 2021.
Pineda, A., Pourshafeie, A., Ioannidis, A., Leibold, C., Chan, A., Bustamante, C., Frankovich, J., Wojcik, G., "Discovering prescription patterns in pediatric acute-onset neuropsychiatric syndrome patients." Journal of Biomedical Informatics, 2021. [link]
Montserrat, D., Bustamante C., Ioannidis, A. "Active Learning for Efficient Construction of Diverse Biobanks," International Conference on Learning Representations (ICLR, 2020, Workshop ML-RL)
Herr, Q.P., Herr, A.Y., Oberg, O.T. and Ioannidis, A.G. "Ultra-low-power superconductor logic," Journal of Applied Physics, 2011, 109(10), p.103903. [link]
Olaya, D., Dresselhaus, P.D., Benz, S.P., Herr, A., Herr, Q.P., Ioannidis, A.G., Miller, D.L. and Kleinsasser, A.W. "Digital circuits using self-shunted Nb/Nb_x Si_(1−x)/Nb Josephson junctions," Applied Physics Letters, 2010, 96(21), p.213510. [link]
Oberg, O.T., Herr, Q.P., Ioannidis, A.G. and Herr, A.Y. "Integrated power divider for superconducting digital circuits." IEEE Transactions on Applied Superconductivity, 2010, 21(3), pp.571-574. [link]
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