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Research Output 2006 2020

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Article
2020

Supervised subgraph augmented non-negative matrix factorization for interpretable manufacturing time series data analytics

Sun, H., Jin, R. & Luo, Y., Jan 2 2020, In : IISE Transactions. 52, 1, p. 120-131 12 p.

Research output: Contribution to journalArticle

Factorization
Time series
Splines
Defects
2019

Cancer classification and pathway discovery using non-negative matrix factorization

Zeng, Z., Vo, A. H., Mao, C., Clare, S. E., Khan, S. A. & Luo, Y., Aug 1 2019, In : Journal of Biomedical Informatics. 96, 103247.

Research output: Contribution to journalArticle

Factorization
Mutation
Neoplasms
Classifiers
Support vector machines
4 Citations (Scopus)
Learning
Dependency (Psychology)
Datasets
4 Citations (Scopus)
Open Access
Learning
Neural Networks (Computer)
Unified Medical Language System
Natural Language Processing
Informatics

Developing a FHIR-based EHR phenotyping framework: A case study for identification of patients with obesity and multiple comorbidities from discharge summaries

Hong, N., Wen, A., Stone, D. J., Tsuji, S., Kingsbury, P. R., Rasmussen, L. V., Pacheco, J. A., Adekkanattu, P., Wang, F., Luo, Y., Pathak, J., Liu, H. & Jiang, G., Nov 2019, In : Journal of Biomedical Informatics. 99, 103310.

Research output: Contribution to journalArticle

Interoperability
Comorbidity
Obesity
Delivery of Health Care
Learning systems
2 Citations (Scopus)

Developing a portable natural language processing based phenotyping system

Sharma, H., Mao, C., Zhang, Y., Vatani, H., Yao, L., Zhong, Y., Rasmussen, L., Jiang, G., Pathak, J. & Luo, Y., Apr 4 2019, In : BMC Medical Informatics and Decision Making. 19, 78.

Research output: Contribution to journalArticle

Open Access
Natural Language Processing
Information Systems
Patient Discharge Summaries
Obesity
Unified Medical Language System
2 Citations (Scopus)
Acute Kidney Injury
Intensive Care Units
Critical Care
Creatinine
Logistic Models

Efficient Genomic Interval Queries Using Augmented Range Trees

Mao, C., Eran, A. & Luo, Y., Dec 1 2019, In : Scientific reports. 9, 1, 5059.

Research output: Contribution to journalArticle

Open Access
Genome
Precision Medicine
Population
Datasets

Integrating hypertension phenotype and genotype with hybrid non-negative matrix factorization

Luo, Y., Mao, C., Yang, Y., Wang, F., Ahmad, F. S., Arnett, D., Irvin, M. R. & Shah, S. J., Aug 15 2019, In : Bioinformatics (Oxford, England). 35, 16, 1 p.

Research output: Contribution to journalArticle

Open Access
Non-negative Matrix Factorization
Hypertension
Genotype
Factorization
Phenotype
Non-negative Matrix Factorization
Hypertension
Genotype
Factorization
Phenotype

Integrating hypertension phenotype and genotype with hybrid non-negative matrix factorization

Luo, Y., Mao, C., Yang, Y., Wang, F., Ahmad, F. S., Arnett, D., Irvin, M. R. & Shah, S. J., Jan 1 2019, In : Bioinformatics. 35, 8, p. 1395-1403 9 p.

Research output: Contribution to journalArticle

Non-negative Matrix Factorization
Hypertension
Genotype
Factorization
Phenotype

Making work visible for electronic phenotype implementation: Lessons learned from the eMERGE network

Shang, N., Liu, C., Rasmussen, L. V., Ta, C. N., Caroll, R. J., Benoit, B., Lingren, T., Dikilitas, O., Mentch, F. D., Carrell, D. S., Wei, W. Q., Luo, Y., Gainer, V. S., Kullo, I. J., Pacheco, J. A., Hakonarson, H., Walunas, T. L., Denny, J. C., Wiley, K., Murphy, S. N. & 2 others, Hripcsak, G. & Weng, C., Nov 2019, In : Journal of Biomedical Informatics. 99, 103293.

Research output: Contribution to journalArticle

Electronic medical equipment
Electronic Health Records
Genomics
Phenotype
Engineers
4 Citations (Scopus)

Predicting ICU readmission using grouped physiological and medication trends

Xue, Y., Klabjan, D. & Luo, Y., Apr 1 2019, In : Artificial Intelligence In Medicine. 95, p. 27-37 11 p.

Research output: Contribution to journalArticle

Intensive care units
Intensive Care Units
Logistic Models
Statistics
Aptitude

Traditional Chinese medicine clinical records classification with BERT and domain specific corpora

Yao, L., Jin, Z., Mao, C., Zhang, Y. & Luo, Y., Nov 15 2019, In : Journal of the American Medical Informatics Association. 26, 12, p. 1632-1636 5 p.

Research output: Contribution to journalArticle

Chinese Traditional Medicine
Learning
Benchmarking
Language
Delivery of Health Care
2018
23 Citations (Scopus)

3D-MICE: Integration of cross-sectional and longitudinal imputation for multi-analyte longitudinal clinical data

Luo, Y., Szolovits, P., Dighe, A. S. & Baron, J. M., Jun 1 2018, In : Journal of the American Medical Informatics Association. 25, 6, p. 645-653 9 p.

Research output: Contribution to journalArticle

Clinical Decision Support Systems
Data Mining
Datasets
Machine Learning

Are My EHRs Private Enough? - Event-level Privacy Protection

Mao, C., Zhao, Y., Sun, M. & Luo, Y., 2018, In : IEEE/ACM Transactions on Computational Biology and Bioinformatics. p. 2850037 1 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Conjugated equine estrogen and medroxyprogesterone acetate are associated with decreased risk of breast cancer relative to bioidentical hormone therapy and controls

Zeng, Z., Jiang, X., Li, X., Wells, A., Luo, Y. & Neapolitan, R. E., May 2018, In : PloS one. 13, 5, e0197064.

Research output: Contribution to journalArticle

medroxyprogesterone
Conjugated (USP) Estrogens
Medroxyprogesterone Acetate
risk reduction
breast neoplasms
2 Citations (Scopus)

Improving the Accuracy of Scores to Predict Gastrostomy after Intracerebral Hemorrhage with Machine Learning

Garg, R., Prabhakaran, S., Holl, J. L., Luo, Y., Faigle, R., Kording, K. & Naidech, A. M., Dec 2018, In : Journal of Stroke and Cerebrovascular Diseases. 27, 12, p. 3570-3574 5 p.

Research output: Contribution to journalArticle

Gastrostomy
Cerebral Hemorrhage
Area Under Curve
Logistic Models
Glasgow Coma Scale

Local Breast Recurrence Detection Using Nature Language Processing

Zeng, Z., Li, X., Espino, S., Roy, A., Kitsch, K., Clare, S., Khan, S., Jiang, X., Neapolitan, R. & Luo, Y., 2018, In : BMC Bioinformatics.

Research output: Contribution to journalArticle

Multi-View Graph Convolutional Network and Its Applications on Neuroimage Analysis for Parkinson's Disease

Zhang, X., He, L., Chen, K., Luo, Y., Zhou, J. & Wang, F., Jan 1 2018, In : AMIA ... Annual Symposium proceedings. AMIA Symposium. 2018, p. 1147-1156 10 p.

Research output: Contribution to journalArticle

Parkinson Disease
Neurodegenerative Diseases
Area Under Curve
Passive Cutaneous Anaphylaxis
Neuroimaging
5 Citations (Scopus)

Natural Language Processing for EHR-Based Computational Phenotyping

Zeng, Z., Deng, Y., Li, X., Naumann, T. & Luo, Y., 2018, In : IEEE/ACM Transactions on Computational Biology and Bioinformatics. p. 2849968 1 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Segment convolutional neural networks (Seg-CNNs) for classifying relations in clinical notes

Luo, Y., Cheng, Y., Uzuner, Ö., Szolovits, P. & Starren, J. B., Jan 1 2018, In : Journal of the American Medical Informatics Association. 25, 1, p. 93-98 6 p., ocx090.

Research output: Contribution to journalArticle

Learning
Datasets
6 Citations (Scopus)

Using natural language processing and machine learning to identify breast cancer local recurrence

Zeng, Z., Espino, S., Roy, A., Li, X., Khan, S. A., Clare, S. E., Jiang, X., Neapolitan, R. & Luo, Y., Dec 28 2018, In : BMC bioinformatics. 19, 498.

Research output: Contribution to journalArticle

Natural Language Processing
Breast Cancer
Recurrence
Natural Language
Learning systems
2017
18 Citations (Scopus)

Bridging semantics and syntax with graph algorithms-state-of-the-art of extracting biomedical relations

Luo, Y., Uzuner, Ö. & Szolovits, P., Jan 1 2017, In : Briefings in Bioinformatics. 18, 1, p. 160-178 19 p.

Research output: Contribution to journalArticle

Semantics
Bridge approaches
Research
Medical Informatics
Pharmacogenetics
4 Citations (Scopus)

Contralateral Breast Cancer Event Detection Using Nature Language Processing

Zeng, Z., Li, X., Espino, S., Roy, A., Kitsch, K., Clare, S. E., Khan, S. A. & Luo, Y., Jan 1 2017, In : AMIA ... Annual Symposium proceedings. AMIA Symposium. 2017, p. 1885-1892 8 p.

Research output: Contribution to journalArticle

Language
Breast Neoplasms
Pathology
Area Under Curve
Cohort Studies
35 Citations (Scopus)

Recurrent neural networks for classifying relations in clinical notes

Luo, Y., Aug 2017, In : Journal of Biomedical Informatics. 72, p. 85-95 11 p.

Research output: Contribution to journalArticle

Recurrent neural networks
Medical problems
Long-Term Memory
Short-Term Memory
12 Citations (Scopus)
Precision Medicine
Heart Failure
State Medicine
Uncertainty
Therapeutics
2016

Efficient Queries of Stand-off Annotations for Natural Language Processing on Electronic Medical Records

Luo, Y. & Szolovits, P., 2016, In : Biomedical Informatics Insights. 8, p. 29-38 10 p.

Research output: Contribution to journalArticle

22 Citations (Scopus)

Using machine learning to predict laboratory test results

Luo, Y., Szolovits, P., Dighe, A. S. & Baron, J. M., Jun 1 2016, In : American Journal of Clinical Pathology. 145, 6, p. 778-788 11 p.

Research output: Contribution to journalArticle

Ferritins
Clinical Decision Support Systems
Clinical Laboratory Techniques
Area Under Curve
Machine Learning
2015
22 Citations (Scopus)

Subgraph augmented non-negative tensor factorization (SANTF) for modeling clinical narrative text

Luo, Y., Xin, Y., Hochberg, E., Joshi, R., Uzuner, O. & Szolovits, P., Jan 1 2015, In : Journal of the American Medical Informatics Association. 22, 5, p. 1009-1019 11 p.

Research output: Contribution to journalArticle

Cluster Analysis
Medical Electronics
Selection Bias
Electronic Health Records
Learning
2014
31 Citations (Scopus)

Automatic lymphoma classification with sentence subgraph mining from pathology reports

Luo, Y., Sohani, A. R., Hochberg, E. P. & Szolovits, P., Jan 1 2014, In : Journal of the American Medical Informatics Association. 21, 5, p. 824-832 9 p.

Research output: Contribution to journalArticle

Lymphoma
Pathology
Unified Medical Language System
Follicular Lymphoma
Burkitt Lymphoma

Semi-Supervised Learning to Identify UMLS Semantic Relations

Luo, Y. & Uzuner, O., 2014, In : AMIA Joint Summits on Translational Science.

Research output: Contribution to journalArticle

Text Mining in Cancer Gene and Pathway Prioritization

Luo, Y., Riedlinger, G. & Szolovits, P., 2014, In : Cancer Informatics. 13, S1, p. 69-79 11 p.

Research output: Contribution to journalArticle

2008
50 Citations (Scopus)

A de-identifier for medical discharge summaries

Uzuner, Ö., Sibanda, T. C., Luo, Y. & Szolovits, P., Jan 2008, In : Artificial Intelligence in Medicine. 42, 1, p. 13-35 23 p.

Research output: Contribution to journalArticle

Personal Health Records
Health
Language
Hospital Records
Vocabulary
178 Citations (Scopus)

Identifying Patient Smoking Status from Medical Discharge Records

Uzuner, Ö., Goldstein, I., Luo, Y. & Kohane, I., Jan 1 2008, In : Journal of the American Medical Informatics Association. 15, 1, p. 14-24 11 p.

Research output: Contribution to journalArticle

Medical Records
Smoking
Natural Language Processing
Informatics
Tobacco Products
2007
219 Citations (Scopus)

Evaluating the State-of-the-Art in Automatic De-identification

Uzuner, Ö., Luo, Y. & Szolovits, P., Sep 1 2007, In : Journal of the American Medical Informatics Association. 14, 5, p. 550-563 14 p.

Research output: Contribution to journalArticle

Health
Vocabulary
Natural Language Processing
Informatics
Names