Shruthi Prabhakara
Shruthi Prabhakara leads a team in Google Health whose mission is to research and develop state-of-the-art medical imaging products backed by Google's ML R&D technology. Prior to this, she has led teams in research (Perception, Augmented Reality) and personalized advertising. Her PhD. work at Pennsylvania State University's CSE department focused on problems at the intersection of machine learning and bioinformatics.
Authored Publications
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A personal health large language model for sleep and fitness coaching
Anastasiya Belyaeva
Zhun Yang
Nick Furlotte
Chace Lee
Erik Schenck
Yojan Patel
Jian Cui
Logan Schneider
Robby Bryant
Ryan Gomes
Allen Jiang
Roy Lee
Javier Perez
Jamie Rogers
Cathy Speed
Shyam Tailor
Megan Walker
Jeffrey Yu
Tim Althoff
Conor Heneghan
Mark Malhotra
Shwetak Patel
Shravya Shetty
Jiening Zhan
Daniel McDuff
Nature Medicine (2025)
Preview abstract
Although large language models (LLMs) show promise for clinical healthcare applications, their utility for personalized health monitoring using wearable device data remains underexplored. Here we introduce the Personal Health Large Language Model (PH-LLM), designed for applications in sleep and fitness. PH-LLM is a version of the Gemini LLM that was finetuned for text understanding and reasoning when applied to aggregated daily-resolution numerical sensor data. We created three benchmark datasets to assess multiple complementary aspects of sleep and fitness: expert domain knowledge, generation of personalized insights and recommendations and prediction of self-reported sleep quality from longitudinal data. PH-LLM achieved scores that exceeded a sample of human experts on multiple-choice examinations in sleep medicine (79% versus 76%) and fitness (88% versus 71%). In a comprehensive evaluation involving 857 real-world case studies, PH-LLM performed similarly to human experts for fitness-related tasks and improved over the base Gemini model in providing personalized sleep insights. Finally, PH-LLM effectively predicted self-reported sleep quality using a multimodal encoding of wearable sensor data, further demonstrating its ability to effectively contextualize wearable modalities. This work highlights the potential of LLMs to revolutionize personal health monitoring via tailored insights and predictions from wearable data and provides datasets, rubrics and benchmark performance to further accelerate personal health-related LLM research.
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Triaging mammography with artificial intelligence: an implementation study
Sarah M. Friedewald
Sunny Jansen
Fereshteh Mahvar
Timo Kohlberger
David V. Schacht
Sonya Bhole
Dipti Gupta
Scott Mayer McKinney
Stacey Caron
David Melnick
Mozziyar Etemadi
Samantha Winter
Alejandra Maciel
Luca Speroni
Martha Sevenich
Arnav Agharwal
Rubin Zhang
Gavin Duggan
Shiro Kadowaki
Atilla Kiraly
Jie Yang
Basil Mustafa
Krish Eswaran
Shravya Shetty
Breast Cancer Research and Treatment (2025)
Preview abstract
Purpose
Many breast centers are unable to provide immediate results at the time of screening mammography which results in delayed patient care. Implementing artificial intelligence (AI) could identify patients who may have breast cancer and accelerate the time to diagnostic imaging and biopsy diagnosis.
Methods
In this prospective randomized, unblinded, controlled implementation study we enrolled 1000 screening participants between March 2021 and May 2022. The experimental group used an AI system to prioritize a subset of cases for same-visit radiologist evaluation, and same-visit diagnostic workup if necessary. The control group followed the standard of care. The primary operational endpoints were time to additional imaging (TA) and time to biopsy diagnosis (TB).
Results
The final cohort included 463 experimental and 392 control participants. The one-sided Mann-Whitney U test was employed for analysis of TA and TB. In the control group, the TA was 25.6 days [95% CI 22.0–29.9] and TB was 55.9 days [95% CI 45.5–69.6]. In comparison, the experimental group's mean TA was reduced by 25% (6.4 fewer days [one-sided 95% CI > 0.3], p<0.001) and mean TB was reduced by 30% (16.8 fewer days; 95% CI > 5.1], p=0.003). The time reduction was more pronounced for AI-prioritized participants in the experimental group. All participants eventually diagnosed with breast cancer were prioritized by the AI.
Conclusions
Implementing AI prioritization can accelerate care timelines for patients requiring additional workup, while maintaining the efficiency of delayed interpretation for most participants. Reducing diagnostic delays could contribute to improved patient adherence, decreased anxiety and addressing disparities in access to timely care.
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PolyPath: Adapting a Large Multimodal Model for Multislide Pathology Report Generation
Lin Yang
Shravya Shetty
Tiam Jaroensri
Faruk Ahmed
Daniel Golden
Modern Pathology (2025)
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The interpretation of histopathology cases underlies many important diagnostic and treatment decisions in medicine. Notably, this process typically requires pathologists to integrate and summarize findings across multiple slides per case. Existing vision-language capabilities in computational pathology have so far been largely limited to small regions of interest, larger regions at low magnification, or single whole-slide images (WSIs). This limits interpretation of findings that span multiple high-magnification regions across multiple WSIs. By making use of Gemini 1.5 Flash, a large multimodal model with a 1-million token context window, we demonstrate the ability to generate bottom-line diagnoses from up to 40,000 image patches of size 768 × 768 pixels from multiple WSIs at 10× magnification. This is the equivalent of up to 11 hours of video at 1 fps. Expert pathologist evaluations demonstrate that the generated report text is clinically accurate and equivalent to or preferred over the original reporting for 68% (95% CI, 60%-76%) of multi-slide examples with up to 5 slides. Although performance decreased for examples with ≥6 slides, this study demonstrates the promise of leveraging the long-context capabilities of modern large multimodal models for the uniquely challenging task of medical report generation where each case can contain thousands of image patches.
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Towards a Personal Health Large Language Model
Anastasiya Belyaeva
Nick Furlotte
Zhun Yang
Chace Lee
Erik Schenck
Yojan Patel
Jian Cui
Logan Schneider
Robby Bryant
Ryan Gomes
Allen Jiang
Roy Lee
Javier Perez
Jamie Rogers
Cathy Speed
Shyam Tailor
Megan Walker
Jeffrey Yu
Tim Althoff
Conor Heneghan
Mark Malhotra
Shwetak Patel
Shravya Shetty
Jiening Zhan
Yeswanth Subramanian
Daniel McDuff
arXiv (2024)
Preview abstract
Large language models (LLMs) can retrieve, reason over, and make inferences about a wide range of information. In health, most LLM efforts to date have focused on clinical tasks. However, mobile and wearable devices, which are rarely integrated into clinical tasks, provide a rich, continuous, and longitudinal source of data relevant for personal health monitoring. Here we present a new model, Personal Health Large Language Model (PH-LLM), a version of Gemini fine-tuned for text understanding and reasoning over numerical time-series personal health data for applications in sleep and fitness. To systematically evaluate PH-LLM, we created and curated three novel benchmark datasets that test 1) production of personalized insights and recommendations from measured sleep patterns, physical activity, and physiological responses, 2) expert domain knowledge, and 3) prediction of self-reported sleep quality outcomes. For the insights and recommendations tasks we created 857 case studies in sleep and fitness. These case studies, designed in collaboration with domain experts, represent real-world scenarios and highlight the model’s capabilities in understanding and coaching. Through comprehensive human and automatic evaluation of domain-specific rubrics, we observed that both Gemini Ultra 1.0 and PH-LLM are not statistically different from expert performance in fitness and, while experts remain superior for sleep, fine-tuning PH-LLM provided significant improvements in using relevant domain knowledge and personalizing information for sleep insights. To further assess expert domain knowledge, we evaluated PH-LLM performance on multiple choice question examinations in sleep medicine and fitness. PH-LLM achieved 79% on sleep (N=629 questions) and 88% on fitness (N=99 questions), both of which exceed average scores from a sample of human experts as well as benchmarks for receiving continuing credit in those domains. To enable PH-LLM to predict self-reported assessments of sleep quality, we trained the model to predict self-reported sleep disruption and sleep impairment outcomes from textual and multimodal encoding representations of wearable sensor data. We demonstrate that multimodal encoding is both necessary and sufficient to match performance of a suite of discriminative models to predict these outcomes. Although further development and evaluation are necessary in the safety-critical personal health domain, these results demonstrate both the broad knowledge base and capabilities of Gemini models and the benefit of contextualizing physiological data for personal health applications as done with PH-LLM.
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Prospective Multi-Site Validation of AI to Detect Tuberculosis and Chest X-Ray Abnormalities
Sahar Kazemzadeh
Atilla Kiraly
Nsala Sanjase
Minyoi Maimbolwa
Brian Shuma
Shahar Jamshy
Christina Chen
Arnav Agharwal
Chuck Lau
Daniel Golden
Jin Yu
Eric Wu
Kat Chou
Shravya Shetty
Krish Eswaran
Rory Pilgrim
Monde Muyoyeta
NEJM AI (2024)
Preview abstract
Background
Using artificial intelligence (AI) to interpret chest X-rays (CXRs) could support accessible triage tests for active pulmonary tuberculosis (TB) in resource-constrained settings.
Methods
The performance of two cloud-based CXR AI systems — one to detect TB and the other to detect CXR abnormalities — in a population with a high TB and human immunodeficiency virus (HIV) burden was evaluated. We recruited 1978 adults who had TB symptoms, were close contacts of known TB patients, or were newly diagnosed with HIV at three clinical sites. The TB-detecting AI (TB AI) scores were converted to binary using two thresholds: a high-sensitivity threshold and an exploratory threshold designed to resemble radiologist performance. Ten radiologists reviewed images for signs of TB, blinded to the reference standard. Primary analysis measured AI detection noninferiority to radiologist performance. Secondary analysis evaluated AI detection as compared with the World Health Organization (WHO) targets (90% sensitivity, 70% specificity). Both used an absolute margin of 5%. The abnormality-detecting AI (abnormality AI) was evaluated for noninferiority to a high-sensitivity target suitable for triaging (90% sensitivity, 50% specificity).
Results
Of the 1910 patients analyzed, 1827 (96%) had conclusive TB status, of which 649 (36%) were HIV positive and 192 (11%) were TB positive. The TB AI’s sensitivity and specificity were 87% and 70%, respectively, at the high-sensitivity threshold and 78% and 82%, respectively, at the balanced threshold. Radiologists’ mean sensitivity was 76% and mean specificity was 82%. At the high-sensitivity threshold, the TB AI was noninferior to average radiologist sensitivity (P<0.001) but not to average radiologist specificity (P=0.99) and was higher than the WHO target for specificity but not sensitivity. At the balanced threshold, the TB AI was comparable to radiologists. The abnormality AI’s sensitivity and specificity were 97% and 79%, respectively, with both meeting the prespecified targets.
Conclusions
The CXR TB AI was noninferior to radiologists for active pulmonary TB triaging in a population with a high TB and HIV burden. Neither the TB AI nor the radiologists met WHO recommendations for sensitivity in the study population. AI can also be used to detect other CXR abnormalities in the same population.
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Predicting Cardiovascular Disease Risk using Photoplethysmography and Deep Learning
Sebastien Baur
Mayank Daswani
Christina Chen
Sujay Kakarmath
Mariam Jabara
Babak Behsaz
Shravya Shetty
Goodarz Danaei
Diego Ardila
PLOS Global Public Health, 4(6) (2024), e0003204
Preview abstract
Cardiovascular diseases (CVDs) are responsible for a large proportion of premature deaths in low- and middle-income countries. Early CVD detection and intervention is critical in these populations, yet many existing CVD risk scores require a physical examination or lab measurements, which can be challenging in such health systems due to limited accessibility. We investigated the potential to use photoplethysmography (PPG), a sensing technology available on most smartphones that can potentially enable large-scale screening at low cost, for CVD risk prediction. We developed a deep learning PPG-based CVD risk score (DLS) to predict the probability of having major adverse cardiovascular events (MACE: non-fatal myocardial infarction, stroke, and cardiovascular death) within ten years, given only age, sex, smoking status and PPG as predictors. We compare the DLS with the office-based refit-WHO score, which adopts the shared predictors from WHO and Globorisk scores (age, sex, smoking status, height, weight and systolic blood pressure) but refitted on the UK Biobank (UKB) cohort. All models were trained on a development dataset (141,509 participants) and evaluated on a geographically separate test (54,856 participants) dataset, both from UKB. DLS’s C-statistic (71.1%, 95% CI 69.9–72.4) is non-inferior to office-based refit-WHO score (70.9%, 95% CI 69.7–72.2; non-inferiority margin of 2.5%, p<0.01) in the test dataset. The calibration of the DLS is satisfactory, with a 1.8% mean absolute calibration error. Adding DLS features to the office-based score increases the C-statistic by 1.0% (95% CI 0.6–1.4). DLS predicts ten-year MACE risk comparable with the office-based refit-WHO score. Interpretability analyses suggest that the DLS-extracted features are related to PPG waveform morphology and are independent of heart rate. Our study provides a proof-of-concept and suggests the potential of a PPG-based approach strategies for community-based primary prevention in resource-limited regions.
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General Geospatial Inference with a Population Dynamics Foundation Model
Chaitanya Kamath
Prithul Sarker
Joydeep Paul
Yael Mayer
Sheila de Guia
Jamie McPike
Adam Boulanger
David Schottlander
Yao Xiao
Manjit Chakravarthy Manukonda
Monica Bharel
Von Nguyen
Luke Barrington
Niv Efron
Krish Eswaran
Shravya Shetty
(2024) (to appear)
Preview abstract
Supporting the health and well-being of dynamic populations around the world requires governmental agencies, organizations, and researchers to understand and reason over complex relationships between human behavior and local contexts. This support includes identifying populations at elevated risk and gauging where to target limited aid resources. Traditional approaches to these classes of problems often entail developing manually curated, task-specific features and models to represent human behavior and the natural and built environment, which can be challenging to adapt to new, or even related tasks. To address this, we introduce the Population Dynamics Foundation Model (PDFM), which aims to capture the relationships between diverse data modalities and is applicable to a broad range of geospatial tasks. We first construct a geo-indexed dataset for postal codes and counties across the United States, capturing rich aggregated information on human behavior from maps, busyness, and aggregated search trends, and environmental factors such as weather and air quality. We then model this data and the complex relationships between locations using a graph neural network, producing embeddings that can be adapted to a wide range of downstream tasks using relatively simple models. We evaluate the effectiveness of our approach by benchmarking it on 27 downstream tasks spanning three distinct domains: health indicators, socioeconomic factors, and environmental measurements. The approach achieves state-of-the-art performance on geospatial interpolation across all tasks, surpassing existing satellite and geotagged image based location encoders. In addition, it achieves state-of-the-art performance in extrapolation and super-resolution for 25 of the 27 tasks. We also show that the PDFM can be combined with a state-of-the-art forecasting foundation model, TimesFM, to predict unemployment and poverty, achieving performance that surpasses fully supervised forecasting. The full set of embeddings and sample code are publicly available for researchers. In conclusion, we have demonstrated a general purpose approach to geospatial modeling tasks critical to understanding population dynamics by leveraging a rich set of complementary globally available datasets that can be readily adapted to previously unseen machine learning tasks.
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An intentional approach to managing bias in embedding models
Atilla P. Kiraly
Jungyeon Park
Rory Pilgrim
Charles Lau
Heather Cole-Lewis
Shravya Shetty
Krish Eswaran
Leo Anthony Celi
The Lancet Digital Health, 6 (2024), E126-E130
Preview abstract
Advances in machine learning for health care have brought concerns about bias from the research community; specifically, the introduction, perpetuation, or exacerbation of care disparities. Reinforcing these concerns is the finding that medical images often reveal signals about sensitive attributes in ways that are hard to pinpoint by both algorithms and people. This finding raises a question about how to best design general purpose pretrained embeddings (GPPEs, defined as embeddings meant to support a broad array of use cases) for building downstream models that are free from particular types of bias. The downstream model should be carefully evaluated for bias, and audited and improved as appropriate. However, in our view, well intentioned attempts to prevent the upstream components—GPPEs—from learning sensitive attributes can have unintended consequences on the downstream models. Despite producing a veneer of technical neutrality, the resultant end-to-end system might still be biased or poorly performing. We present reasons, by building on previously published data, to support the reasoning that GPPEs should ideally contain as much information as the original data contain, and highlight the perils of trying to remove sensitive attributes from a GPPE. We also emphasise that downstream prediction models trained for specific tasks and settings, whether developed using GPPEs or not, should be carefully designed and evaluated to avoid bias that makes models vulnerable to issues such as distributional shift. These evaluations should be done by a diverse team, including social scientists, on a diverse cohort representing the full breadth of the patient population for which the final model is intended.
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Assistive AI in Lung Cancer Screening: A Retrospective Multinational Study in the United States and Japan
Atilla Kiraly
Corbin Cunningham
Ryan Najafi
Jie Yang
Chuck Lau
Diego Ardila
Scott Mayer McKinney
Rory Pilgrim
Mozziyar Etemadi
Sunny Jansen
Lily Peng
Shravya Shetty
Neeral Beladia
Krish Eswaran
Radiology: Artificial Intelligence (2024)
Preview abstract
Lung cancer is the leading cause of cancer death world-wide with 1.8 million deaths in 20201. Studies have concluded that low-dose computed tomography lung cancer screening can reduce mortality by up to 61%2 and updated 2021 US guidelines expanded eligibility. As screening efforts rise, AI can play an important role, but must be unobtrusively integrated into existing clinical workflows. In this work, we introduce a state-of-the-art, cloud-based AI system providing lung cancer risk assessments without requiring any user input. We demonstrate its efficacy in assisting lung cancer screening under both US and Japanese screening settings using different patient populations and screening protocols. Technical improvements over a previously described system include a focus on earlier cancer detection for improved accuracy, introduction of an effective assistive user interface, and a system designed to integrate into typical clinical workflows. The stand-alone AI system was evaluated on 3085 individuals achieving area under the curve (AUC) scores of 91.7% (95%CI [89.6, 95.2]), 93.3% (95%CI [90.2, 95.7]), and 89.1% (95%CI [77.7, 97.3]) on three datasets (two from US and one from Japan), respectively. To evaluate the system’s assistive ability, we conducted two retrospective multi-reader multi-case studies on 627 cases read by experienced board certified radiologists (average 20 years of experience [7,40]) using local PACS systems in the respective US and Japanese screening settings. The studies measured the reader’s level of suspicion (LoS) and categorical responses for scores and management recommendations under country-specific screening protocols. The radiologists’ AUC for LoS increased with AI assistance by 2.3% (95%CI [0.1-4.5], p=0.022) for the US study and by 2.3% (95%CI [-3.5-8.1], p=0.179) for the Japan study. Specificity for recalls increased by 5.5% (95%CI [2.7-8.5], p<0.0001) for the US and 6.7% (95%CI [4.7-8.7], p<0.0001) for the Japan study. No significant reduction in other metrics occured. This work advances the state-of-the-art in lung cancer detection, introduces generalizable interface concepts that can be applicable to similar AI applications, and demonstrates its potential impact on diagnostic AI in global lung cancer screening with results suggesting a substantial drop in unnecessary follow-up procedures without impacting sensitivity.
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Optimizing Audio Augmentations for Contrastive Learning of Health-Related Acoustic Signals
Louis Blankemeier
Sebastien Baur
Diego Ardila
arXiv (2023)
