arXiv subjects

Girish N. Nadkarni

Publications and source records attributed to Girish N. Nadkarni.

5 recordsLinked to original sources

arXiv2026

Rolling Day-Wise Mortality Prediction in Critically Ill Patients With AKI on CRRT Utilizing Machine Pressure Waveforms

Critically ill patients with acute kidney injury (AKI) on continuous renal replacement therapy (CRRT) face high mortality, yet current risk assessment relies primarily on clinical parameters from electronic health records (EHR) and ignores minute-level circuit pressure waveforms generated by CRRT machines that track the extracorporeal circuit's interaction with the patient. Clinicians therefore cannot see deterioration as it develops. Risk is reassessed only when labs are drawn, while this continuous record is discarded because it is contaminated by shared-device records, non-physiological minutes, and sensor artifacts. To make the stream usable, we aligned machine records to charted therapy intervals to prevent cross-patient leakage, removed priming and downtime minutes, tuned denoising on a synthetic spike-injection benchmark, and masked unobserved intervals rather than imputing them. On this cleaned stream, we define a rolling day-wise task and a transformer-based stacked ensemble that late-fuses a window-reduced sequence transformer with classical models using circuit-instability features and clinical EHR variables. In a leak-safe benchmark on the multi-center CRRTnet cohort (976 patients, 4,585 treatment days), the machine-only model had the lowest standalone prognostic value (AUROC 0.625), followed by the EHR-only model (0.717). Integrating EHR and machine streams reached a one-day mortality AUROC of 0.766. SHAP attribution showed that circuit-instability descriptors raised the machine share of the top 15 combined-model features from 3 to 7 (20.0% to 46.7%), highlighting filter pressure, transmembrane pressure (TMP), and access-to-return difference (ARD). To our knowledge, this is the first patient-level mortality prediction incorporating CRRT machine data, turning a discarded bedside stream into a continuous risk signal.

cs.LG↗

arXiv2025

Less Context, Same Performance: A RAG Framework for Resource-Efficient LLM-Based Clinical NLP

Long text classification is challenging for Large Language Models (LLMs) due to token limits and high computational costs. This study explores whether a Retrieval Augmented Generation (RAG) approach using only the most relevant text segments can match the performance of processing entire clinical notes with large context LLMs. We begin by splitting clinical documents into smaller chunks, converting them into vector embeddings, and storing these in a FAISS index. We then retrieve the top 4,000 words most pertinent to the classification query and feed these consolidated segments into an LLM. We evaluated three LLMs (GPT4o, LLaMA, and Mistral) on a surgical complication identification task. Metrics such as AUC ROC, precision, recall, and F1 showed no statistically significant differences between the RAG based approach and whole-text processing (p > 0.05p > 0.05). These findings indicate that RAG can significantly reduce token usage without sacrificing classification accuracy, providing a scalable and cost effective solution for analyzing lengthy clinical documents.

cs.CL↗

arXiv2024

Extracting Social Support and Social Isolation Information from Clinical Psychiatry Notes: Comparing a Rule-based NLP System and a Large Language Model

Background: Social support (SS) and social isolation (SI) are social determinants of health (SDOH) associated with psychiatric outcomes. In electronic health records (EHRs), individual-level SS/SI is typically documented as narrative clinical notes rather than structured coded data. Natural language processing (NLP) algorithms can automate the otherwise labor-intensive process of data extraction. Data and Methods: Psychiatric encounter notes from Mount Sinai Health System (MSHS, n=300) and Weill Cornell Medicine (WCM, n=225) were annotated and established a gold standard corpus. A rule-based system (RBS) involving lexicons and a large language model (LLM) using FLAN-T5-XL were developed to identify mentions of SS and SI and their subcategories (e.g., social network, instrumental support, and loneliness). Results: For extracting SS/SI, the RBS obtained higher macro-averaged f-scores than the LLM at both MSHS (0.89 vs. 0.65) and WCM (0.85 vs. 0.82). For extracting subcategories, the RBS also outperformed the LLM at both MSHS (0.90 vs. 0.62) and WCM (0.82 vs. 0.81). Discussion and Conclusion: Unexpectedly, the RBS outperformed the LLMs across all metrics. Intensive review demonstrates that this finding is due to the divergent approach taken by the RBS and LLM. The RBS were designed and refined to follow the same specific rules as the gold standard annotations. Conversely, the LLM were more inclusive with categorization and conformed to common English-language understanding. Both approaches offer advantages and are made available open-source for future testing.

cs.CL↗

arXiv2023

An AI-Guided Data Centric Strategy to Detect and Mitigate Biases in Healthcare Datasets

The adoption of diagnosis and prognostic algorithms in healthcare has led to concerns about the perpetuation of bias against disadvantaged groups of individuals. Deep learning methods to detect and mitigate bias have revolved around modifying models, optimization strategies, and threshold calibration with varying levels of success. Here, we generate a data-centric, model-agnostic, task-agnostic approach to evaluate dataset bias by investigating the relationship between how easily different groups are learned at small sample sizes (AEquity). We then apply a systematic analysis of AEq values across subpopulations to identify and mitigate manifestations of racial bias in two known cases in healthcare - Chest X-rays diagnosis with deep convolutional neural networks and healthcare utilization prediction with multivariate logistic regression. AEq is a novel and broadly applicable metric that can be applied to advance equity by diagnosing and remediating bias in healthcare datasets.

cs.LG↗

arXiv2021

Contrastive Learning Improves Critical Event Prediction in COVID-19 Patients

Machine Learning (ML) models typically require large-scale, balanced training data to be robust, generalizable, and effective in the context of healthcare. This has been a major issue for developing ML models for the coronavirus-disease 2019 (COVID-19) pandemic where data is highly imbalanced, particularly within electronic health records (EHR) research. Conventional approaches in ML use cross-entropy loss (CEL) that often suffers from poor margin classification. For the first time, we show that contrastive loss (CL) improves the performance of CEL especially for imbalanced EHR data and the related COVID-19 analyses. This study has been approved by the Institutional Review Board at the Icahn School of Medicine at Mount Sinai. We use EHR data from five hospitals within the Mount Sinai Health System (MSHS) to predict mortality, intubation, and intensive care unit (ICU) transfer in hospitalized COVID-19 patients over 24 and 48 hour time windows. We train two sequential architectures (RNN and RETAIN) using two loss functions (CEL and CL). Models are tested on full sample data set which contain all available data and restricted data set to emulate higher class imbalance.CL models consistently outperform CEL models with the restricted data set on these tasks with differences ranging from 0.04 to 0.15 for AUPRC and 0.05 to 0.1 for AUROC. For the restricted sample, only the CL model maintains proper clustering and is able to identify important features, such as pulse oximetry. CL outperforms CEL in instances of severe class imbalance, on three EHR outcomes with respect to three performance metrics: predictive power, clustering, and feature importance. We believe that the developed CL framework can be expanded and used for EHR ML work in general.

cs.LG↗