Emily Wittrup

Ms. Emily Wittrup

Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA
orcid

Research Focus & Metrics

Academic Career Length

7Years (2020-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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11 October 2023 in Gastroenterology
Verified
Journal Article
Open access
RSRyan W. Stidham
Ryan W. Stidham
LCLingrui Cai
Lingrui Cai
SCShuyang Cheng
Shuyang Cheng
FRFlora Rajaei
Flora Rajaei
THTadd Hiatt
Tadd Hiatt
KNKayvan Najarian
Kayvan Najarian
Endoscopic assessment of ulcerative colitis (UC) typically reports only maximum severity observed. Computer vision methods may better quantify mucosal injury detail that varies between patients. Endoscopic video from the UNIFI clinical trial comparing ustekinumab and placebo for UC were processed in a computer vision analysis that spatially mapped Mayo endoscopic scores (MES) to generate the cumulative disease score (CDS). CDS was compared to the Mayo score for differentiating ustekinumab vs. placebo treatment response and agreement with symptomatic remission at week 44. Statistical power, effect and estimated sample sizes for detecting endoscopic differences between treatments were calculated using both CDS and MES measures. Endoscopic video from a separate phase 2 clinical trial replication cohort was performed for validation of CDS performance. Among 748 induction and 348 maintenance subjects, CDS was lower in ustekinumab vs. placebo users at week 8 (141.9 vs. 184.3, P<.0001) and week 44 (78.2 vs. 151.5, P<.0001). CDS was correlated with the MES (P<.0001) and all clinical components of the partial Mayo score (P<.0001). Stratification by pre-treatment CDS revealed ustekinumab was more effective than placebo (P<.0001) with increasing effect in severe vs. mild disease (-85.0 vs. -55.4, P<.0001). Compared to the MES, CDS was more sensitive to change, needing 50% less subjects to demonstrate endoscopic differences between ustekinumab and placebo (g=0.743 vs. 0.460). CDS performance in the JAK-UC replication cohort was similar to UNIFI. As an automated and quantitative measure of global endoscopic disease severity, the CDS offers artificial intelligence enhancement of traditional MES capability to better evaluate UC in clinical trials and potentially practice.

5 May 2023 in Diagnostics
Verified
Journal Article
Open access
PDF file
FRFlora Rajaei
Flora Rajaei
SCShuyang Cheng
Shuyang Cheng
CWCraig A. Williamson
Craig A. Williamson
EWEmily Wittrup
Emily Wittrup
KNKayvan Najarian
Kayvan Najarian
Traumatic brain injury (TBI) is one of the major causes of disability and mortality worldwide. Rapid and precise clinical assessment and decision-making are essential to improve the outcome and the resulting complications. Due to the size and complexity of the data analyzed in TBI cases, computer-aided data processing, analysis, and decision support systems could play an important role. However, developing such systems is challenging due to the heterogeneity of symptoms, varying data quality caused by different spatio-temporal resolutions, and the inherent noise associated with image and signal acquisition. The purpose of this article is to review current advances in developing artificial intelligence-based decision support systems for the diagnosis, severity assessment, and long-term prognosis of TBI complications.

28 November 2023 in PLOS ONE
Verified
Journal Article
Open access
PDF file
YZYufeng Zhang
Yufeng Zhang
KAKeith D Aaronson
Keith D Aaronson
JGJonathan Gryak
Jonathan Gryak
EWEmily Wittrup
Emily Wittrup
CMCristian Minoccheri
Cristian Minoccheri
KNKayvan Najarian
Kayvan Najarian
Background: Timely referral for advanced therapies (i.e., heart transplantation, left ventricular assist device) is critical for ensuring optimal outcomes for heart failure patients. Using electronic health records, our goal was to use data from a single hospitalization to develop an interpretable clinical decision-making system for predicting the need for advanced therapies at the subsequent hospitalization. Methods: Michigan Medicine heart failure patients from 2013–2021 with a left ventricular ejection fraction ≤ 35% and at least two heart failure hospitalizations within one year were used to train an interpretable machine learning model constructed using fuzzy logic and tropical geometry. Clinical knowledge was used to initialize the model. The performance and robustness of the model were evaluated with the mean and standard deviation of the area under the receiver operating curve (AUC), the area under the precision-recall curve (AUPRC), and the F1 score of the ensemble. We inferred membership functions from the model for continuous clinical variables, extracted decision rules, and then evaluated their relative importance. Results: The model was trained and validated using data from 557 heart failure hospitalizations from 300 patients, of whom 193 received advanced therapies. The mean (standard deviation) of AUC, AUPRC, and F1 scores of the proposed model initialized with clinical knowledge was 0.747 (0.080), 0.642 (0.080), and 0.569 (0.067), respectively, showing superior predictive performance or increased interpretability over other machine learning methods. The model learned critical risk factors predicting the need for advanced therapies in the subsequent hospitalization. Furthermore, our model displayed transparent rule sets composed of these critical concepts to justify the prediction. Conclusion: These results demonstrate the ability to successfully predict the need for advanced heart failure therapies by generating transparent and accessible clinical rules although further research is needed to prospectively validate the risk factors identified by the model.

14 August 2024 in Artificial Intelligence in Medicine
Verified
Journal Article
Open access
ZGZijun Gao
Zijun Gao
SCShuyang Cheng
Shuyang Cheng
EWEmily Wittrup
Emily Wittrup
JGJonathan Gryak
Jonathan Gryak
KNKayvan Najarian
Kayvan Najarian
The advanced learning paradigm, learning using privileged information (LUPI), leverages information in training that is not present at the time of prediction. In this study, we developed privileged logistic regression (PLR) models under the LUPI paradigm to detect acute respiratory distress syndrome (ARDS), with mechanical ventilation variables or chest x-ray image features employed in the privileged domain and electronic health records in the base domain. In model training, the objective of privileged logistic regression was designed to incorporate data from the privileged domain and encourage knowledge transfer across the privileged and base domains. An asymptotic analysis was also performed, yielding sufficient conditions under which the addition of privileged information increases the rate of convergence in the proposed model. Results for ARDS detection show that PLR models achieve better classification performances than logistic regression models trained solely on the base domain, even when privileged information is partially available. Furthermore, PLR models demonstrate performance on par with or superior to state-of-the-art models under the LUPI paradigm. As the proposed models are effective, easy to interpret, and highly explainable, they are ideal for other clinical applications where privileged information is at least partially available.

29 July 2024 in Diagnostics
Verified
Journal Article
Open access
PDF file
YZYufeng Zhang
Yufeng Zhang
JKJoseph G. Kohne
Joseph G. Kohne
EWEmily Wittrup
Emily Wittrup
KNKayvan Najarian
Kayvan Najarian
Pediatric respiratory disease diagnosis and subsequent treatment require accurate and interpretable analysis. A chest X-ray is the most cost-effective and rapid method for identifying and monitoring various thoracic diseases in children. Recent developments in self-supervised and transfer learning have shown their potential in medical imaging, including chest X-ray areas. In this article, we propose a three-stage framework with knowledge transfer from adult chest X-rays to aid the diagnosis and interpretation of pediatric thorax diseases. We conducted comprehensive experiments with different pre-training and fine-tuning strategies to develop transformer or convolutional neural network models and then evaluate them qualitatively and quantitatively. The ViT-Base/16 model, fine-tuned with the CheXpert dataset, a large chest X-ray dataset, emerged as the most effective, achieving a mean AUC of 0.761 (95% CI: 0.759–0.763) across six disease categories and demonstrating a high sensitivity (average 0.639) and specificity (average 0.683), which are indicative of its strong discriminative ability. The baseline models, ViT-Small/16 and ViT-Base/16, when directly trained on the Pediatric CXR dataset, only achieved mean AUC scores of 0.646 (95% CI: 0.641–0.651) and 0.654 (95% CI: 0.648–0.660), respectively. Qualitatively, our model excels in localizing diseased regions, outperforming models pre-trained on ImageNet and other fine-tuning approaches, thus providing superior explanations. The source code is available online and the data can be obtained from PhysioNet.

14 August 2025 in BMC Medical Imaging
Verified
Journal Article
Open access
EWEmily Wittrup
Emily Wittrup
JRJohn Reavey-Cantwell
John Reavey-Cantwell
APAditya S. Pandey
Aditya S. Pandey
DIDennis J. Rivet Ii
Dennis J. Rivet Ii
KNKayvan Najarian
Kayvan Najarian
Background: Despite the potential clinical utility for acute ischemic stroke patients, predicting short-term operational outcomes like length of stay (LOS) and long-term functional outcomes such as the 90-day Modified Rankin Scale (mRS) remain a challenge, with limited current clinical guidance on expected patient trajectories. Machine learning approaches have increasingly aimed to bridge this gap, often utilizing admission-based clinical features; yet, the integration of imaging biomarkers remains underexplored, especially regarding whole 2.5D image fusion using advanced deep learning techniques. Methods: This study introduces a novel method leveraging autoencoders to integrate 2.5D diffusion weighted imaging (DWI) with clinical features for refined outcome prediction. Results: Results on a comprehensive dataset of AIS patients demonstrate that our autoencoder-based method has comparable performance to traditional convolutional neural networks image fusion methods and clinical data alone (LOS $$ > $$ 8 days: AUC 0.817, AUPRC 0.573, F1-Score 0.552; 90-day mRS $$>$$ 2: AUC 0.754, AUPRC 0.685, F1-Score 0.626). Conclusion: This novel integration of imaging and clinical data for post-intervention stroke prognosis has numerous computational and operational advantages over traditional image fusion methods. While further validation of the presented models is necessary before adoption, this approach aims to enhance personalized patient management and operational decision-making in healthcare settings. Clinical trial number: Not applicable.