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Tariq, Amara

https://orcid.org/0000-0001-5932-2491

Mayo Clinic

Mayo Clinic in Arizona

Citations 19

Patient-centric Summarization of Radiology Findings Using Two-step Training of Large Language Models
Tariq, Amara , Trivedi, Shubham , Khan, Aisha Urooj , Ramasamy, Gokul , Fathizadeh, Sam, Stib, Matthew T. , Tan, Nelly , Patel, Bhavik N. , Banerjee, Imon , Banerjee, Imon , Fathizadeh, Sam , Urooj, Aisha

ACM Transactions on Computing for Healthcare | December 21, 2024 | Volume: 6 | Issue: 2 | Pages: 1-15

10.1145/3709154 Get It

Education-level or socioeconomic background of patients may dictate their ability to understand medical jargon. Inability to understand primary findings from a radiology report may lead to unnecessary anxiety among patients or missed follow up. We aim to meet this challenge by developing a patient-sensitive summarization model for radiology reports. We selected computed tomography (CT) exams of chest as a use-case and collected 7,000 studies from Mayo Clinic. Summarization model was built on top of the T5 large language model (LLM) as our experiments indicated that its text-to-text transfer architecture was suited for abstractive text summarization, resulting in a model with 0.77B trainable parameters. Noisy ground truth for model training was collected by prompting LLaMA-13B model. We recruited experts (board-certified radiologists) and laymen to manually evaluate model-generated summaries generated by model. Our model rarely missed information as marked by majority opinion of radiologists. Laymen indicated 63% improvement in their understanding by reading model-generated layman summaries. Comparison with zero-shot performance of ChatGPT indicated that the proposed model reduced the rate of hallucination by half and rate of missing important information by fivefold. The proposed model can generate reliable summaries for radiology reports understandable by patients with vastly different levels of medical knowledge.
Self-supervised learning for chest computed tomography: training strategies and effect on downstream applications
Tariq, Amara , Ramasamy, Gokul , Banerjee, Imon , Patel, Bhavik N., Banerjee, Imon

Journal of Medical Imaging | November 10, 2024 | Volume: 11 | Issue: 06 | Pages: No page available

10.1117/1.jmi.11.6.064003 Get It

Multi-modal Predictive Model for MACE Risk Estimation in Patients with Migraine
Tariq, Amara , Dumitrașcu, Oana , Luo, Man , Dumkrieger, Gina , Schwedt, Todd J. , Chong, Catherine D. , Banerjee, Imon

2024 IEEE 12th International Conference on Healthcare Informatics (ICHI) | August 22, 2024 | Volume: No volume available | Issue: No issue available | Pages: 684-687

10.1109/ichi61247.2024.00109 Get It

Fusion Modeling: Combining Clinical and Imaging Data to Advance Cardiac Care
Assen, Marly van , Tariq, Amara , Razavi, Alexander C. , Yang, Carl , Banerjee, Imon , Cecco, Carlo N. De , van Assen, Marly , De Cecco, Carlo N , Banerjee, Imon

Circulation: Cardiovascular Imaging | December 11, 2023 | Volume: 16 | Issue: 12 | Pages: No page available

10.1161/circimaging.122.014533 Get It

In addition to the traditional clinical risk factors, an increasing amount of imaging biomarkers have shown value for cardiovascular risk prediction. Clinical and imaging data are captured from a variety of data sources during multiple patient encounters and are often analyzed independently. Initial studies showed that fusion of both clinical and imaging features results in superior prognostic performance compared with traditional scores. There are different approaches to fusion modeling, combining multiple data resources to optimize predictions, each with its own advantages and disadvantages. However, manual extraction of clinical and imaging data is time and labor intensive and often not feasible in clinical practice. An automated approach for clinical and imaging data extraction is highly desirable. Convolutional neural networks and natural language processing can be utilized for the extraction of electronic medical record data, imaging studies, and free-text data. This review outlines the current status of cardiovascular risk prediction and fusion modeling; and in addition gives an overview of different artificial intelligence approaches to automatically extract data from images and electronic medical records for this purpose.
Fusion of imaging and non-imaging data for disease trajectory prediction for coronavirus disease 2019 patients
Tariq, Amara , Sakhi, Hifza, Newsome, Janice , Trivedi, Hari , Banerjee, Imon , Sakhi, Hifza , Rubin, Daniel L , Trivedi, Hari , Gichoya, Judy W. , Banerjee, Imon , Tang, Siyi , Celi, Leo Anthony , Rubin, Daniel L. , Gichoya, Judy Wawira

Journal of Medical Imaging | June 28, 2023 | Volume: 10 | Issue: 03 | Pages: No page available

10.1117/1.jmi.10.3.034004 Get It

Graph-Based Fusion of Imaging and Non-Imaging Data for Disease Trajectory Prediction
Tariq, Amara , Sakhi, Hifza, Newsome, Janice , Trivedi, Hari , Patel, Bhavik N. , Banerjee, Imon , Banerjee, Imon , Trivedi, Hari , Tang, Siyi , Celi, Leo Anthony , Rubin, Daniel L. , Gichoya, Judy Wawira

2023 11th International IEEE/EMBS Conference on Neural Engineering (NER) | May 19, 2023 | Volume: No volume available | Issue: No issue available | Pages: 1-4

10.1109/ner52421.2023.10123892 Get It

Graph convolutional network-based fusion model to predict risk of hospital acquired infections
Tariq, Amara , Lancaster, Lin, Elugunti, Praneetha, Siebeneck, Eric, Banerjee, Imon , Patel, Bhavik N. , Moriarty, James, Banerjee, Imon , Siebeneck, Eric, Noe, Katherine H. , Borah, Bijan J. , Moriarty, James P.

Journal of the American Medical Informatics Association | April 7, 2023 | Volume: 30 | Issue: 6 | Pages: 1056-1067

10.1093/jamia/ocad045 Get It

Abstract Objective Hospital acquired infections (HAIs) are one of the top 10 leading causes of death within the United States. While current standard of HAI risk prediction utilizes only a narrow set of predefined clinical variables, we propose a graph convolutional neural network (GNN)-based model which incorporates a wide variety of clinical features. Materials and Methods Our GNN-based model defines patients’ similarity based on comprehensive clinical history and demographics and predicts all types of HAI rather than focusing on a single subtype. An HAI model was trained on 38 327 unique hospitalizations while a distinct model for surgical site infection (SSI) prediction was trained on 18 609 hospitalization. Both models were tested internally and externally on a geographically disparate site with varying infection rates. Results The proposed approach outperformed all baselines (single-modality models and length-of-stay [LoS]) with achieved area under the receiver operating characteristics of 0.86 [0.84–0.88] and 0.79 [0.75–0.83] (HAI), and 0.79 [0.75–0.83] and 0.76 [0.71–0.76] (SSI) for internal and external testing. Cost-effective analysis shows that the GNN modeling dominated the standard LoS model strategy on the basis of lower mean costs ($1651 vs $1915). Discussion The proposed HAI risk prediction model can estimate individualized risk of infection for patient by taking into account not only the patient’s clinical features, but also clinical features of similar patients as indicated by edges of the patients’ graph. Conclusions The proposed model could allow prevention or earlier detection of HAI, which in turn could decrease hospital LoS and associated mortality, and ultimately reduce the healthcare cost.
Opportunistic screening for low bone density using abdominopelvic computed tomography scans
Tariq, Amara , Patel, Bhavik N. , Fahrenholtz, Samuel J. , Banerjee, Imon , Sensakovic, William F. , Banerjee, Imon

Medical Physics | February 7, 2023 | Volume: 50 | Issue: 7 | Pages: 4296-4307

10.1002/mp.16230 Get It

AbstractBackgroundWhile low bone density is a major burden on US health system, current osteoporosis screening guidelines by the US Preventive Services Task Force are limited to women aged ≥65 and all postmenopausal women with certain risk factors. Even within recommended screening groups, actual screening rates are low (<26%) and vary across socioeconomic groups. The proposed model can opportunistically screen patients using abdominal CT studies for low bone density who may otherwise go undiagnosed.PurposeTo develop an artificial intelligence (AI) model for opportunistic screening of low bone density using both contrast and non‐contrast abdominopelvic computed tomography (CT) exams, for the purpose of referral to traditional bone health management, which typically begins with dual energy X‐ray absorptiometry (DXA).MethodsWe collected 6083 contrast‐enhanced CT imaging exams paired with DXA exams within ±6 months documented between May 2015 and August 2021 in a single institution with four major healthcare practice regions. Our fusion AI pipeline receives the coronal and axial plane images of a contrast enhanced abdominopelvic CT exam and basic patient demographics (age, gender, body cross section lengths) to predict risk of low bone mass. The models were trained on lumbar spine T‐scores from DXA exams and tested on multi‐site imaging exams. The model was again tested in a prospective group (N = 344) contrast‐enhanced and non‐contrast‐enhanced studies.ResultsThe models were evaluated on the same test set (1208 exams)—(1) Baseline model using demographic factors from electronic medical records (EMR) ‐ 0.7 area under the curve of receiver operator characteristic (AUROC); Imaging based models: (2) axial view ‐ 0.83 AUROC; (3) coronal view‐ 0.83 AUROC; (4) Fusion model—Imaging + demographic factors ‐ 0.86 AUROC. The prospective test yielded one missed positive DXA case with a hip prosthesis among 23 positive contrast‐enhanced CT exams and 0% false positive rate for non‐contrast studies. Both positive cases among non‐contrast enhanced CT exams were successfully detected. While only about 8% patients from prospective study received a DXA exam within 2 years, about 30% were detected with low bone mass by the fusion model, highlighting the need for opportunistic screening.ConclusionsThe fusion model, which combines two planes of CT images and EMRs data, outperformed individual models and provided a high, robust diagnostic performance for opportunistic screening of low bone density using contrast and non‐contrast CT exams. This model could potentially improve bone health risk assessment with no additional cost. The model's handling of metal implants is an ongoing effort.
Predicting 30-day all-cause hospital readmission using multimodal spatiotemporal graph neural networks
Tang, Siyi , Tariq, Amara , Dunnmon, Jared , Elugunti, Praneetha, Rubin, Daniel L. , Patel, Bhavik N. , Banerjee, Imon , Banerjee, Imon , Rubin, Daniel L , Sharma, Umesh

IEEE Journal of Biomedical and Health Informatics | January 13, 2023 | Volume: No volume available | Issue: No issue available | Pages: 1-12

10.1109/jbhi.2023.3236888 Get It