Published Work

Library

Publications

2026

Estimating in silico causal effects of DNA methylation on gene expression through genetic anchors in airway epithelium in asthma

Kim, Soyeon; Caldino Bohn, Rebecca I.; Sriram, Aditya; Park, Hyun Jung; Huang, Ziyu; Chen, Wei; Celedón, Juan C.;

Science Advances · 12 (17) · 2026

2025

Session Introduction: Precision Medicine: Integrating Large-Scale Data and Intermediate Phenotypes for Understanding Health and Treating Disease

Brenner, Steven E; Ioannidis, Nilah M; Obafemi-Ajayi, Tayo; O’Donnell-Luria, Anne;

Biocomputing 2026: Proceedings of the Pacific Symposium · 596-599 · 2025

DeepDiff-SHAP: Interpretable deep learning for subgroup-specific causal hypothesis generation using conditional SHAP

Sriram, Aditya; Kim, Soyeon; Carcillo, Joseph A; Park, Hyun Jung;

Biocomputing 2026: Proceedings of the Pacific Symposium · 722-737 · 2025

DeepDiff-SHAP: Interpretable deep learning for subgroup-specific causal inference using conditional SHAP

Sriram, Aditya; Kim, Soyeon; Carcillo, Joseph A; Park, Hyun Jung;

bioRxiv · 2025.08. 14.670190 · 2025

Epstein-Barr virus seropositivity, immune dysregulation, and mortality in pediatric sepsis

Sriram, Aditya; Kernan, Kate F; Qin, Yidi; Aldewereld, Zachary; Walton, Andrew H; Cabler, Stephanie; Storch, Gregory; Cheynet, Valerie; Brengel-Pesce, Karen; Canna, Scott;

JAMA network open · 8 (8) · e2527487 · 2025

2024

DeepEXPOKE: A Deep Learning Framework with Polygenic Risk Scores as Knockoffs for Deconvoluting Genetic and Non-Genetic Exposure Risks in Sepsis and Coronary Heart Disease

Sriram, Aditya; Bohn, Rebecca; Kernan, Kate; Carcillo, Joseph; Kim, Soyeon; Park, Hyun Jung;

medRxiv · 2024.10. 15.24315572 · 2024

Mild hypoxia accelerates cerebral cavernous malformation disease through CX3CR1-CX3CL1 signaling

Frias-Anaya, Eduardo; Gallego-Gutierrez, Helios; Gongol, Brendan; Weinsheimer, Shantel; Lai, Catherine Chinhchu; Orecchioni, Marco; Sriram, Aditya; Bui, Cassandra M; Nelsen, Bliss; Hale, Preston;

Arteriosclerosis, thrombosis, and vascular biology · 44 (6) · 1246-1264 · 2024

Unveiling the Gut Microbiome Network Fingerprint: A Deep Learning Approach to Predict Immunotherapy Response in Melanoma Patients

Sun, Jie; Fan, Zhenjiang; Sriram, Aditya; Park, Hyun Jung;

bioRxiv · 2024.10. 21.619471 · 2024

2023

Deep neural networks with knockoff features identify nonlinear causal relations and estimate effect sizes in complex biological systems

Fan, Zhenjiang; Kernan, Kate F; Sriram, Aditya; Benos, Panayiotis V; Canna, Scott W; Carcillo, Joseph A; Kim, Soyeon; Park, Hyun Jung;

GigaScience · 12 · giad044 · 2023

Refining empiric subgroups of pediatric sepsis using machine-learning techniques on observational data

Qin, Yidi; Caldino Bohn, Rebecca I; Sriram, Aditya; Kernan, Kate F; Carcillo, Joseph A; Kim, Soyeon; Park, Hyun Jung;

Frontiers in Pediatrics · 11 · 1035576 · 2023

2022

Biological Pathways Enriched For Genes Associated With Lesion Burden In Cerebral Cavernous Malformation

Sriram, Aditya; Weinsheimer, Shantel; Nelson, Jeffrey; Mabray, Marc; Zabramski, Joseph M; Akers, Amy; Hart, Blaine; Morrison, Leslie; McCulloch, Charles E; Kim, Helen;

Stroke · 53 (Suppl_1) · A109-A109 · 2022

Genetic risk factors associated with SARS-CoV-2 susceptibility in multiethnic populations

Sriram, Aditya Dandapani;

· 2022

2020

Assessment of autism zebrafish mutant models using a high-throughput larval phenotyping platform

Colón-Rodríguez, Alexandra; Uribe-Salazar, José M; Weyenberg, KaeChandra B; Sriram, Aditya; Quezada, Alejandra; Kaya, Gulhan; Jao, Emily; Radke, Brittany; Lein, Pamela J; Dennis, Megan Y;

Frontiers in cell and developmental biology · 8 · 586296 · 2020

2014

Body Size Preference of Marine Animals in Relation to Extinction Selectivity

Sriram, Aditya; Idgunji, Sidhant; Heim, Noel A; Payne, Jonathan;

AGU Fall Meeting Abstracts · 2014 · ED41A-3412 · 2014

2013

Ostracod Body Size as a Variable of Biomass

Pathi, Amogh; Sriram, A; Guo, D; Heim, NA; Payne, Jonathan;

AGU Fall Meeting Abstracts · 2013 · ED41A-0713 · 2013

Other

Striped Tunnels: Reliable Transport from Unreliable Paths

Gupta, Vidur; Hernandez-Meza, Carlos; Fisher, Sebastian; Sriram, Aditya;

Body Size Preference of Animals in Relation to Extinction Selectivity

Idgunji, Sidhant; Sriram, Aditya; Heim, Noel; Payne, Jonathan;