A reusable NLP pipeline for clinical narratives preprocessing and characterization

Section 1: Use Case Identifiers

Use Case ID: HHS-CDC-00026
Agency: HHS
Op Div/Staff Div: CDC
Use Case Topic Area: Health & Medical
Is the AI use case found in the below list of general commercial AI products and services?
None of the above.
What is the intended purpose and expected benefits of the AI?
Data cleaning of Clinical narratives from health records. At scale, clinical narratives are a dataset available to CDC currently underutilized as there is not a structured pipeline to identify structured information output. We are currently working on setting up a process to create a pipeline that cleans data markup (html, rtf, xml) and identifies signs and symptoms using pre-trained Named Entity Recognition (NER) tasks from relevant models published in peer review journals.





The use of these pretrained models significantly reduces the amount of time a human to spend tagging data and provides additional features and increased consistency from unstructured data for identification of more novel insights.
Describe the AI system's outputs.
The objective of this project is to take unstructured data, clean it, and use pretrained Named Entity Recognition (NER) tools to extract signs/symptoms in deidentified electronic health records that can be used to characterize a cohort or make further analysis.
Stage of Development: Initiated
Is the AI use case rights-impacting, safety-impacting, both, or neither?
Neither

Section 2: Use Case Summary

Date Initiated: 07/2024
Date when Acquisition and/or Development began: N/A
Date Implemented: N/A
Date Retired: N/A
Was the AI system involved in this use case developed (or is it to be developed) under contract(s) or in-house?
N/A
Provide the Procurement Instrument Identifier(s) (PIID) of the contract(s) used.
N/A
Is this AI use case supporting a High-Impact Service Provider (HISP) public-facing service?
N/A
Does this AI use case disseminate information to the public?
N/A
How is the agency ensuring compliance with Information Quality Act guidelines, if applicable?
N/A
Does this AI use case involve personally identifiable information (PII) that is maintained by the agency?
N/A
Has the Senior Agency Official for Privacy (SAOP) assessed the privacy risks associated with this AI use case?
ongoing

Section 3: Data and Code

Do you have access to an enterprise data catalog or agency-wide data repository that enables you to identify whether or not the necessary datasets exist and are ready to develop your use case?
N/A
Describe any agency-owned data used to train, fine-tune, and/or evaluate performance of the model(s) used in this use case.
N/A
Is there available documentation for the model training and evaluation data that demonstrates the degree to which it is appropriate to be used in analysis or for making predictions?
N/A
Which, if any, demographic variables does the AI use case explicitly use as model features?
N/A
Does this project include custom-developed code?
N/A
Does the agency have access to the code associated with the AI use case?
N/A
If the code is open-source, provide the link for the publicly available source code.
N/A

Section 4: AI Enablement and Infrastructure

Does this AI use case have an associated Authority to Operate (ATO) for an AI system?
N/A
System Name: N/A
How long have you waited for the necessary developer tools to implement the AI use case?
N/A
For this AI use case, is the required IT infrastructure provisioned via a centralized intake form or process inside the agency?
N/A
Do you have a process in place to request access to computing resources for model training and development of the AI involved in this use case?
N/A
Has communication regarding the provisioning of your requested resources been timely?
N/A
How are existing data science tools, libraries, data products, and internally-developed AI infrastructure being re-used for the current AI use case?
N/A
Has information regarding the AI use case, including performance metrics and intended use of the model, been made available for review and feedback within the agency?
N/A