Evidence map›Paper›PMID 37479735›Full record

ReviewNPJ digital medicine2023

The IMPACT framework and implementation for accessible in silico clinical phenotyping in the digital era.

Andrew Wen, Huan He, Sunyang Fu, Sijia Liu, Kurt Miller, Liwei Wang, Kirk E Roberts, Steven D Bedrick, William R Hersh, Hongfang Liu

Abstract readReview
In one paragraph

Review in NPJ digital medicine, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Andrew Wen *Department of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.ORCID http://orcid.org/0000-0001-9090-8028
Huan He *Department of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.ORCID http://orcid.org/0000-0003-1312-4195
Sunyang FuDepartment of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.
Sijia LiuDepartment of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.
Kurt MillerDepartment of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.
Liwei WangDepartment of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA.
Kirk E RobertsSchool of Biomedical Informatics, University of Texas Health Science Center, Houston, TX, 77030, USA.ORCID http://orcid.org/0000-0001-6525-5213
Steven D BedrickDepartment of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, 97239, USA.ORCID http://orcid.org/0000-0002-0163-9397
William R HershDepartment of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, 97239, USA.
Hongfang LiuDepartment of AI & Informatics, Mayo Clinic, Rochester, MN, 55905, USA. Hongfang.Liu@uth.tmc.edu.

Funding

Open Health Natural Language Processing CollaboratoryU01TR002062 · NCATS · MAYO CLINIC ROCHESTER · PI JIANG, XIAOQIAN, LIU, HONGFANG · 2017 to 2021
$7.6M
Semi-structured Information Retrieval in Clinical Text for Cohort IdentificationR01LM011934 · NLM · UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON · PI HERSH, WILLIAM R, LIU, HONGFANG · 2014 to 2025
$5.1M
NCATS NIH HHS U01 TR002062NLM NIH HHS R01 LM011934
6 · The paper itself

Abstract

Clinical phenotyping is often a foundational requirement for obtaining datasets necessary for the development of digital health applications. Traditionally done via manual abstraction, this task is often a bottleneck in development due to time and cost requirements, therefore raising significant interest in accomplishing this task via in-silico means. Nevertheless, current in-silico phenotyping development tends to be focused on a single phenotyping task resulting in a dearth of reusable tools supporting cross-task generalizable in-silico phenotyping. In addition, in-silico phenotyping remains largely inaccessible for a substantial portion of potentially interested users. Here, we highlight the barriers to the usage of in-silico phenotyping and potential solutions in the form of a framework of several desiderata as observed during our implementation of such tasks. In addition, we introduce an example implementation of said framework as a software application, with a focus on ease of adoption, cross-task reusability, and facilitating the clinical phenotyping algorithm development process.

Identifiers

PMID37479735
PMCPMC10362064

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.