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Publications

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Leveraging electronic health records and knowledge networks for Alzheimer’s disease prediction and sex-specific biological insights

Tang, Alice S; Rankin, Katherine P; Cerono, Gabriel; Miramontes, Silvia; Mills, Hunter; Roger, Jacquelyn; Zen, Billy; Nelson, Charlotte; ...; Baranzini, Sergio; Sirota, Marina

Nature Aging
2024
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Biomedical knowledge graph-enhanced prompt generation for large language models

Soman, Karthik; Rose, Peter W; Morris, John H; Akbas, Rabia E; Smith, Brett; Peetoom, Braian; Villouta-Reyes, Catalina; Cerono, Gabriel; Shi, Yongmei; Rizk-Jackson, Angela; Sharat Israni, Charlotte A Nelson, Sui Huang, Sergio E Baranzini

arXiv preprint arXiv:2311.17330
2023
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Early detection of Parkinson’s disease through enriching the electronic health record using a biomedical knowledge graph

Soman, Karthik; Nelson, Charlotte A; Cerono, Gabriel; Goldman, Samuel M; Baranzini, Sergio E; Brown, Ethan G;

Frontiers in Medicine
2023
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Biological research and self-driving labs in deep space supported by artificial intelligence

Lauren M Sanders, Ryan T Scott, ..., Charlotte Nelson, ..., Marinka Zitnik, Sylvain V Costes

Nature Machine Intelligence
2023
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Cosmic Kidney Disease: The Effects of Spaceflight and Galactic Cosmic Radiation on Renal Structure and Function

Stephen Walsh, Keith Siew, Fatemeh Afsari, Maneera Al-Jaber, Noah Allen, Mohammed Al-Maadheed, Selin Altinok, ... , Charlotte Nelson, ... ,Eduardo AC Almeida, Chutong Zhong

(in review)
2023
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The scalable precision medicine open knowledge engine (SPOKE): a massive knowledge graph of biomedical information

John H Morris, Karthik Soman, Rabia E Akbas, Xiaoyuan Zhou, Brett Smith, Elaine C Meng, Conrad C Huang, ..., Sui Huang, Peter W Rose, Charlotte A Nelson, Sergio E Baranzini

Bioinformatics
2023
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Biomonitoring and precision health in deep space supported by artificial intelligence

Ryan T Scott, Lauren M Sanders, Erik L Antonsen, ..., Charlotte Nelson,..., Kasthuri Venkateswaran, Liz Warren, Liz Worthey, Jason H Yang, Marinka Zitnik, Sylvain V Costes

Nature Machine Intelligence
2023
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Time-aware Embeddings of Clinical Data using a Knowledge Graph

Soman, Karthik; Nelson, Charlotte A; Cerono, Gabriel; Baranzini, Sergio E;

Pacific Symposium on Biocomputing 2023: Kohala Coast, Hawaii, USA, 3–7 January 2023
2022
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A biomedical open knowledge network harnesses the power of AI to understand deep human biology

Sergio Baranzini, Katy Börner, John Morris, Charlotte Nelson, Karthik Soman, ..., Katherine Rankin, Stephan Sanders, Riley Bove, Peter Rose, Sharat Israni, Sui Huang

AI magazine
2022
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Embedding electronic health records onto a knowledge network recognizes prodromal features of multiple sclerosis and predicts diagnosis

Nelson, Charlotte A; Bove, Riley; Butte, Atul J; Baranzini, Sergio E;

Journal of the American Medical Informatics Association
2022
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Mutations in domain IV of elongation factor EF-G confer− 1 frameshifting

Niblett, Dustin; Nelson, Charlotte; Leung, Calvin S; Rexroad, Gillian; Cozy, Jake; Zhou, Jie; Lancaster, Laura; Noller, Harry F;

Rna
2021
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Knowledge network embedding of transcriptomic data from spaceflown mice uncovers signs and symptoms associated with terrestrial diseases

Nelson, Charlotte A; Acuna, Ana Uriarte; Paul, Amber M; Scott, Ryan T; Butte, Atul J; Cekanaviciute, Egle; Baranzini, Sergio E; Costes, Sylvain V;

Life
2021
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