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Use of NLP to Extract Risk Indicators for Immunologic Disease from the Text of EHRs (UNIITE)

Award Number: R21AI164100
ORGANIZATION: NATIONAL INSTITUTE OF ALLERGY & INFECTIOUS DISEASES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 02/18/2022
PERIOD OF PERFORMANCE END DATE: 01/31/2026

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Use of NLP to Extract Risk Indicators for Immunologic Disease from the Text of EHRs (UNIITE) - Title: Use of NLP to extract risk Indicators for Immunologic disease from the Text of EHRs. (UNIITE) Summary: The Health Information Technology for Economic and Clinical Health (HITECH) Act, enabled widespread adoption of electronic health records (EHRs). In lockstep, healthcare systems have seen the impact of biomedical informatics techniques such as natural language processing (NLP) for mining inference and classifying EHR data. Combining digital health records and available analytical tools represents an opportunity to improve care for patients who suffer from rare disease such as primary immune deficiency (PID) where optimal outcomes are predicated upon early detection. However, only a fraction of PID patients receive a diagnosis before sustaining serious infections. This underscores a need for novel methods to improve diagnostic rates and for driving understanding about PID. At present, barriers to detecting PIDs include recognizing heterogeneous clinical features, distinguishing infections in PID from that of the normal host, and general lack of awareness about the diseases. Creating precise analytical methods to mine and make predictions from EHR data represents a potential solution to these challenges. As such our goals are to develop a system for automatic extraction of PID risk indicators from EHR notes for the purpose of improving widespread diagnosis and advancing knowledge about human immunologic disease. Our preliminary work suggests that structured EHR data such as problem list elements and diagnostic codes can be used to develop a probabilistic framework for assessing risk of PID but they are limited and do not exemplify the full range of concepts needed to optimally characterize PID. Data elements mined from text can couple to presently available EHR structured data and ontologies for improved annotation of PID. Building a framework of PID-specific risk indicators will enable NLP approaches for PID detection and improved understanding about human immune dysfunction. The Specific Aims for our proposal are as follows: 1.) To use a data-driven approach for identifying and enumerating PID risk indicators from EHR text. 2.) To develop NLP methods for automatically extracting key PID risk indicators from EHR text. Our proposal leverages a very large corpus of EHR note text captured from over 3000 PID patients prior to their ultimate diagnosis, as well as over 285,000 control patients. Mining this dataset and synergistically using state-of-the-art NLP methodologies will build the foundation of a potent and interoperable text mining system for PID risk detection. We expect this work to advance disease detection, characterization of specific human immune defects and allow for additional inference which combines clinical, laboratory, and molecular information about PID.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2025 ( Subtotal = $0 )
2025	2024	VIRGINIA POLYTECHNIC INSTITUTE & STATE UNIVERSITY	300 TURNER ST NW	BLACKSBURG	VA	24060	MONTGOMERY	USA	Allergy and Infectious Diseases Research	002	3	12/5/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$0
2025	2024	VIRGINIA POLYTECHNIC INSTITUTE & STATE UNIVERSITY	300 TURNER ST NW	BLACKSBURG	VA	24060	MONTGOMERY	USA	Allergy and Infectious Diseases Research	001	3	10/28/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$71,295
2025	2022	LIBERTY UNIVERSITY INC	1971 UNIVERSITY BLVD	LYNCHBURG	VA	24515	LYNCHBURG CITY	USA	Allergy and Infectious Diseases Research	000	2	10/28/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	-$71,295
														Subtotal = $0

Issue Date FY: 2024 ( Subtotal = $169,779 )
2024	2024	VIRGINIA POLYTECHNIC INSTITUTE & STATE UNIVERSITY	300 TURNER ST NW	BLACKSBURG	VA	24060	MONTGOMERY	USA	Allergy and Infectious Diseases Research	002	3	4/26/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$17,016
2024	2024	VIRGINIA POLYTECHNIC INSTITUTE & STATE UNIVERSITY	300 TURNER ST NW	BLACKSBURG	VA	24060	MONTGOMERY	USA	Allergy and Infectious Diseases Research	001	3	2/5/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$152,763
2024	2022	LIBERTY UNIVERSITY INC	1971 UNIVERSITY BLVD	LYNCHBURG	VA	24515	LYNCHBURG CITY	USA	Allergy and Infectious Diseases Research	000	2	2/5/2024	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$0
														Subtotal = $169,779

Issue Date FY: 2023 ( Subtotal = $0 )
2023	2022	LIBERTY UNIVERSITY INC	1971 UNIVERSITY BLVD	LYNCHBURG	VA	24515	LYNCHBURG CITY	USA	Allergy and Infectious Diseases Research	000	2	1/31/2023	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$0
														Subtotal = $0

Issue Date FY: 2022 ( Subtotal = $209,417 )
2022	2022	BAYLOR COLLEGE OF MEDICINE	1 BAYLOR PLZ	HOUSTON	TX	77030	HARRIS	USA	Allergy and Infectious Diseases Research	001	1	6/3/2022	NEW	-$251,824
2022	2022	BAYLOR COLLEGE OF MEDICINE	ONE BAYLOR PLAZA	HOUSTON	TX	77030	HARRIS	USA	Allergy and Infectious Diseases Research	000	1	2/17/2022	NEW	$251,824
2022	2022	LIBERTY UNIVERSITY, INC.	1971 UNIVERSITY BLVD	LYNCHBURG	VA	24515	LYNCHBURG CITY	USA	Allergy and Infectious Diseases Research	002	2	6/6/2022	CHANGE OF GRANTEE / TRAINING INSTITUTION / AWARDING INSTITUTION	$209,417
														Subtotal = $209,417

Grand Total All Awards = $379,196

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Use of NLP to Extract Risk Indicators for Immunologic Disease from the Text of EHRs (UNIITE)

Award Number: R21AI164100

ORGANIZATION: NATIONAL INSTITUTE OF ALLERGY & INFECTIOUS DISEASES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 02/18/2022

PERIOD OF PERFORMANCE END DATE: 01/31/2026

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