Evidence map›Paper›PMID 40104076›Full record

ArticleFrontiers in oral health2025

Comparison of light gradient boosting and logistic regression for interactomic hub genes in

Pradeep Kumar Yadalam, Shubhangini Chatterjee, Prabhu Manickam Natarajan, Carlos M Ardila

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Frontiers in oral health, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Trial
  2. 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

4 authors.

Pradeep Kumar YadalamDepartment of Periodontics, Saveetha Dental College, Saveetha Institute of Medical and Technical Sciences, Saveetha University, Chennai, India.
Shubhangini ChatterjeeDepartment of Periodontics, Saveetha Dental College, Saveetha Institute of Medical and Technical Sciences, Saveetha University, Chennai, India.
Prabhu Manickam NatarajanDepartment of Clinical Sciences, Center of Medical and Bio-allied Health and Research, College of Dentistry, Ajman University, Ajman, United Arab Emirates.
Carlos M ArdilaDepartment of Basic Sciences, Faculty of Dentistry, Universidad de Antioquia U de A, Medellín, Colombia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Introduction: Methods: Using the GSE222136 dataset, we analyzed differential gene expression in periodontitis and Alzheimer's disease. The GEO2R tool was used to identify differentially expressed genes under different conditions, providing insights into molecular mechanisms. Bioinformatics tools such as Cytoscape and CytoHubba were employed to create gene expression networks to identify hub genes. Logistic regression and light gradient boosting were used to predict interactomic hub genes, with outliers removed and machine learning algorithms applied. Results: The data were cross-validated and divided into training and testing segments. The top hub genes identified were TNFRSF9, LZIC, TNFRSF8, SLC45A1, GPR157, and SLC25A33, which are induced by Discussion: The logistic regression model demonstrated superior accuracy and balance compared to the light gradient boosting model, indicating its potential for future improvements in predicting hub genes in periodontal and Alzheimer's diseases.

Indexed as

Aggregatibacter actinomycetemcomitansAlzheimer's diseaseFusobacterium nucleatumhub genesinteractomelight gradient boostingperiodontal diseasePorphyromonas gingivalis

Identifiers

PMID40104076
PMCPMC11914103

What Socratic holds

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LicenceCC BY
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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 Socratic graph.