Evidence map›Paper›PMID 38736693›Full record

ReviewComputational and structural biotechnology journal2024

Knowledge-guided learning methods for integrative analysis of multi-omics data.

Wenrui Li, Jenna Ballard, Yize Zhao, Qi Long

Abstract readReview
In one paragraph

Review in Computational and structural biotechnology journal, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing 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

13 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
  5. Article
  6. Review
  7. Review
  8. Review
  9. Laser capture microdissection.Nature reviews. Methods primers · 2025
    Article
  10. Review
  11. Article
  12. Article
  13. Review
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

4 authors.

Wenrui LiDepartment of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, 423 Guardian Drive, Philadelphia, 19104, PA, USA.
Jenna BallardGraduate Group in Genomics and Computational Biology, Perelman School of Medicine, University of Pennsylvania, 3700 Hamilton Walk, Philadelphia, 19104, PA, USA.
Yize ZhaoDepartment of Biostatistics, School of Public Health, Yale University, 60 College Street, New Haven, 06510, CT, USA.
Qi LongDepartment of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, 423 Guardian Drive, Philadelphia, 19104, PA, USA.

Funding

Advancing Analysis of Multi-omics Data in Alzheimer's Disease ResearchRF1AG063481 · NIA · UNIVERSITY OF PENNSYLVANIA · PI LONG, QI · 2019 to 2020
$3.8M
Statistical Modeling of Alzheimer's Disease Progression Integrating Brain Imaging and -Omics DataR01AG071174 · NIA · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI KUNDU, SUPRATEEK, LONG, QI · 2021 to 2025
$3.3M
Integrative analysis for patient-centered outcomes and time-to-event data in Alzheimer's diseaseRF1AG081413 · NIA · YALE UNIVERSITY · PI SUN, YIFEI, ZHAO, YIZE · 2023 to 2023
$2.3M
Novel integrative imaging genetics analysis for Alzheimer's disease riskand progressionRF1AG068191 · NIA · YALE UNIVERSITY · PI ZHAO, YIZE · 2021 to 2021
$1.9M
Novel integrative imaging genetics analysis for Alzheimer's disease riskand progressionR01AG068191 · NIA · YALE UNIVERSITY · PI ZHAO, YIZE · 2024 to 2025
$1.2M
NIA NIH HHS R01 AG068191NIA NIH HHS R01 AG071174NIA NIH HHS RF1 AG063481NIA NIH HHS RF1 AG068191NIA NIH HHS RF1 AG081413
6 · The paper itself

Abstract

Integrative analysis of multi-omics data has the potential to yield valuable and comprehensive insights into the molecular mechanisms underlying complex diseases such as cancer and Alzheimer's disease. However, a number of analytical challenges complicate multi-omics data integration. For instance, -omics data are usually high-dimensional, and sample sizes in multi-omics studies tend to be modest. Furthermore, when genes in an important pathway have relatively weak signal, it can be difficult to detect them individually. There is a growing body of literature on knowledge-guided learning methods that can address these challenges by incorporating biological knowledge such as functional genomics and functional proteomics into multi-omics data analysis. These methods have been shown to outperform their counterparts that do not utilize biological knowledge in tasks including prediction, feature selection, clustering, and dimension reduction. In this review, we survey recently developed methods and applications of knowledge-guided multi-omics data integration methods and discuss future research directions.

Indexed as

ClusteringDimension reductionFeature selectionIntegrationKnowledge-guided learningMulti-omicsPrediction

Identifiers

PMID38736693
PMCPMC11087912

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.