Towards unified biomedical modeling with subgraph mining and factorization algorithms
Thesis: Ph. D., Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, 2015.
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| Format: | Thesis |
| Language: | eng |
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Massachusetts Institute of Technology
2016
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| Online Access: | http://hdl.handle.net/1721.1/101575 |
| _version_ | 1811073264617783296 |
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| author | Luo, Yuan, Ph. D. Massachusetts Institute of Technology |
| author2 | Peter Szolovits and Ozlem Uzuner. |
| author_facet | Peter Szolovits and Ozlem Uzuner. Luo, Yuan, Ph. D. Massachusetts Institute of Technology |
| author_sort | Luo, Yuan, Ph. D. Massachusetts Institute of Technology |
| collection | MIT |
| description | Thesis: Ph. D., Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, 2015. |
| first_indexed | 2024-09-23T09:30:45Z |
| format | Thesis |
| id | mit-1721.1/101575 |
| institution | Massachusetts Institute of Technology |
| language | eng |
| last_indexed | 2024-09-23T09:30:45Z |
| publishDate | 2016 |
| publisher | Massachusetts Institute of Technology |
| record_format | dspace |
| spelling | mit-1721.1/1015752019-04-12T20:28:55Z Towards unified biomedical modeling with subgraph mining and factorization algorithms Luo, Yuan, Ph. D. Massachusetts Institute of Technology Peter Szolovits and Ozlem Uzuner. Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science. Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science. Electrical Engineering and Computer Science. Thesis: Ph. D., Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, 2015. Cataloged from PDF version of thesis. Includes bibliographical references (pages 157-181). This dissertation applies subgraph mining and factorization algorithms to clinical narrative text, ICU physiologic time series and computational genomics. These algorithms aims to build clinical models that improve both prediction accuracy and interpretability, by exploring relational information in different biomedical data modalities including clinical narratives, physiologic time series and exonic mutations. This dissertation focuses on three concrete applications: implicating neurodevelopmentally coregulated exon clusters in phenotypes of Autism Spectrum Disorder (ASD), predicting mortality risk of ICU patients based on their physiologic measurement time series, and identifying subtypes of lymphoma patients based on pathology report text. In each application, we automatically extract relational information into a graph representation and collect important subgraphs that are of interest. Depending on the degree of structure in the data format, heavier machinery of factorization models becomes necessary to reliably group important subgraphs. We demonstrate that these methods lead to not only improved performance but also better interpretability in each application. by Yuan Luo. Ph. D. 2016-03-03T21:09:58Z 2016-03-03T21:09:58Z 2015 2015 Thesis http://hdl.handle.net/1721.1/101575 940768861 eng M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission. http://dspace.mit.edu/handle/1721.1/7582 181 pages application/pdf Massachusetts Institute of Technology |
| spellingShingle | Electrical Engineering and Computer Science. Luo, Yuan, Ph. D. Massachusetts Institute of Technology Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title | Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title_full | Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title_fullStr | Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title_full_unstemmed | Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title_short | Towards unified biomedical modeling with subgraph mining and factorization algorithms |
| title_sort | towards unified biomedical modeling with subgraph mining and factorization algorithms |
| topic | Electrical Engineering and Computer Science. |
| url | http://hdl.handle.net/1721.1/101575 |
| work_keys_str_mv | AT luoyuanphdmassachusettsinstituteoftechnology towardsunifiedbiomedicalmodelingwithsubgraphminingandfactorizationalgorithms |