Frontiers in Genetics | Computational Genomics

Original Research

Accepted on 11 Aug 2025

Uncovering Differential Gene Expression Between mtRNA-Positive and -Negative Osteosarcoma Cells: Implications Beyond Mitochondrial Function

in Computational Genomics

Xiaoyuan Meng
Zhongcheng Han
Yeerke Wuerkan
Zhigang Wang
Le Ma
Hongbo Liu

Frontiers in Genetics

doi 10.3389/fgene.2025.1588581

Review

Accepted on 11 Aug 2025

Gene-LLMs: A Comprehensive Survey of Transformer-Based Genomic Language Models for Regulatory and Clinical Genomics

in Computational Genomics

Balakrishnan P
Anny Leema
Dhivyashree A Anny Leema
Mohammad Saad
Mohan Babu

Frontiers in Genetics

doi 10.3389/fgene.2025.1634882

110 views

Methods

Published on 08 Aug 2025

BANSMDA: a computational model for predicting potential microbe-disease associations based on bilinear attention networks and sparse autoencoders

in Computational Genomics

Xianzhi Liu
Mingmin Liang
Ge Yu
Shichang Tang
Ouxiang Wu
Bin Zeng
Lei Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1618472

200 views

Original Research

Published on 05 Aug 2025

The role of mitochondria-related genes and immune infiltration in carotid atherosclerosis: identification of hub targets through bioinformatics and machine learning approaches

in Computational Genomics

Dan Liu
Kun Guo
Min Li
Xiaochen Yu
Xue Guan
Xiuru Guan

Frontiers in Genetics

doi 10.3389/fgene.2025.1597445

555 views

Original Research

Accepted on 04 Aug 2025

Dissecting and Validation the Biomarker of Heart Failure Progression in Patients With Atherosclerosis by Single-cell Sequencing, Bioinformatics, and Machine Learning

in Computational Genomics

Liankai Wang
Lihua Ni
Huabo Li
Juan Du
Ke Zhou
Fugui Zhang

Frontiers in Genetics

doi 10.3389/fgene.2025.1587274

172 views

Original Research

Published on 04 Aug 2025

Analysis and validation of novel biomarkers related to palmitoylation in adenomyosis

in Computational Genomics

Hongyu Zhang
Yufeng Li
Huijuan Cao
Yiling Zhao
Hongwen Zhu
Tiansheng Qin

Frontiers in Genetics

doi 10.3389/fgene.2025.1614573

543 views

Original Research

Published on 01 Aug 2025

Research on the diagnosis model of osteoarthritis based on methylation-related genes using machine learning algorithms

in Computational Genomics

Xu Cui
Houlin Ji
Shengyang Guo
Ju Liu
Linyuan Zhang
Yongwei Jia
Yin Cui
Xiaoxiao Zhou

Frontiers in Genetics

doi 10.3389/fgene.2025.1595676

687 views

Original Research

Published on 31 Jul 2025

Identification of key ferroptosis-related genes and therapeutic target in nasopharyngeal carcinoma

in Computational Genomics

Yuanyuan Gu
Yaozhuang Zhou
Chunhua Xie
Guangyao He
Maosheng Zhang

Frontiers in Genetics

doi 10.3389/fgene.2025.1595456

645 views

Original Research

Published on 30 Jul 2025

SLC38A1 and STX11 are mitochondria-related biomarkers associated with immune infiltration in osteoarthritis

in Computational Genomics

Wenxue Lv
Mingxiu Yu
Wenhai Yan
Yuli Cai
Weiguo Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1585775

766 views

Original Research

Accepted on 29 Jul 2025

Integrative Machine Learning and Mendelian Randomization Identify Causal Laboratory Biomarkers for Coronary Artery Lesions in Kawasaki Disease: A Prospective Study

in Computational Genomics

Hancao Yang
Meng Wu
Keqing Liang
Yi Li
Ran Yang
Beibei Yuan
Ming Wu
Jin Xu

Frontiers in Genetics

doi 10.3389/fgene.2025.1646032

148 views

Review

Published on 29 Jul 2025

Decoding circRNA translation: challenges and advances in computational method development

in Computational Genomics

Jingjing Zhang
Rui Zhou
Huiling Zhang
Yin Peng
Jintao Meng
Wenhui Xi
Yanjie Wei

Frontiers in Genetics

doi 10.3389/fgene.2025.1654305

505 views

Original Research

Published on 29 Jul 2025

Commonalities and differences in gene expression patterns in major depressive disorder and chronic spontaneous urticaria: implications for comorbidity

in Computational Genomics

Yibo Jiang
Wen Li
Lihao Zheng
Nan Ba

Frontiers in Genetics

doi 10.3389/fgene.2025.1560832

546 views

Original Research

Published on 24 Jul 2025

A bioinformatics analysis of the correlation between hepatic ischemia–reperfusion injury and postoperative cognitive dysfunction

in Computational Genomics

Qing Hu
Haijie Liu
Yunfei Bao
Zhihao Feng
Hongbo Zhang
Jianling Li

Frontiers in Genetics

doi 10.3389/fgene.2025.1607446

812 views

Original Research

Published on 23 Jul 2025

EPI-DynFusion: enhancer-promoter interaction prediction model based on sequence features and dynamic fusion mechanisms

in Computational Genomics

Ao Zhang
Jianhua Jia
Mingwei Sun
Xin Wei

Frontiers in Genetics

doi 10.3389/fgene.2025.1614222

877 views

Methods

Published on 23 Jul 2025

A likelihood ratio framework for inferring close kinship from dynamically selected SNPs

in Computational Genomics

Jianye Ge
Bruce Budowle
Michael Cariaso
Kristen Mittelman
David Mittelman

Frontiers in Genetics

doi 10.3389/fgene.2025.1635734

1,007 views

Original Research

Published on 17 Jul 2025

Incorporating graph representation and mutual attention mechanism for MiRNA-MRNA interaction prediction

in Computational Genomics

Tai-Long Shi
Lei Wang
Leon Wong
Zhu-Hong You
Chang-Qing Yu
Chen Jiang
Si-Zhe Liang

Frontiers in Genetics

doi 10.3389/fgene.2025.1637427

888 views