Frontiers in Genetics | Computational Genomics

Original Research

Published on 02 Oct 2025

Analyses of haplotypes of TLR2 and TLR3 genes for COVID-19 prognosis in a cohort of professionals who worked in the first pandemic wave in Belém-PA, Brazil

in Computational Genomics

Marcos Jessé Abrahão Silva
Luiza Raquel Tapajós Figueira
Daniele Melo Sardinha
Eliete Costa da Cruz
Natasha Cristina Oliveira Andrade
Sebastião Kauã De Sousa Bispo
Thiago Augusto Ferreira Dos Anjos
Everaldina Cordeiro Dos Santos
Ana Judith Pires Garcia
Luana Nepomuceno Gondim Costa Lima

Frontiers in Genetics

doi 10.3389/fgene.2025.1659269

1,622 views
1 citation

Data Report

Published on 01 Oct 2025

Annotated genome of Aedes japonicus japonicus using a hybrid-assembly approach

in Computational Genomics

Friederike Reuss
Tilman Schell
Haruhiko Isawa
Shinji Kasai
Sven Klimpel
Ruth Müller
Markus Pfenninger
Judith Kochmann

Frontiers in Genetics

doi 10.3389/fgene.2025.1667262

2,669 views

Original Research

Published on 29 Sep 2025

Immune-molecular nexus in reproductive disorders: mechanisms linking POI and RSA

in Computational Genomics

Chen Chen
Xinyue Zhang
Wenxin Li
Yueqin Liu
Dan Zhao
Subo Zhang
Xiaolan Zhu

Frontiers in Genetics

doi 10.3389/fgene.2025.1652519

2,954 views

Original Research

Published on 25 Sep 2025

Cross-modal predictive modeling of multi-omic data in 3D airway organ tissue equivalents during viral infection

in Computational Genomics

Mostafa Rezapour
Patrick M. McNutt
David A. Ornelles
Stephen J. Walker
Sean V. Murphy
Anthony Atala
Metin Nafi Gurcan

Frontiers in Genetics

doi 10.3389/fgene.2025.1658577

3,107 views

Original Research

Published on 22 Sep 2025

Identification of platelet function-related genes in STEMI patients

in Computational Genomics

Jingjing Zhu
Shuangya Yang
Qing Guo
Yifan Yang
Bei Shi

Frontiers in Genetics

doi 10.3389/fgene.2025.1651794

1,947 views

Original Research

Published on 19 Sep 2025

A hypergraph neural network for prioritizing Alzheimer’s disease risk genes

in Computational Genomics

Meng Ma
Chao Deng
Yan Liu
Qingqing Cao
Fang Liu
Yan Zhang

Frontiers in Genetics

doi 10.3389/fgene.2025.1668200

1,960 views
1 citation

Original Research

Published on 17 Sep 2025

Uncovering differential gene expression between mtRNA-positive and -negative osteosarcoma cells: implications beyond mitochondrial function

in Computational Genomics

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

Frontiers in Genetics

doi 10.3389/fgene.2025.1588581

2,054 views

Original Research

Published on 17 Sep 2025

Genetic and in silico functional characterization of a novel structural variant in the PAH gene by long-reads sequencing and structural modeling

in Computational Genomics

Viviana Gallardo
Alexis Gaete
Jonathan Maldonado
Paulina Morales
Angela Peña
Valerie Hamilton
Víctor Faundes
Lorena Santa María

Frontiers in Genetics

doi 10.3389/fgene.2025.1669007

2,458 views

Original Research

Published on 17 Sep 2025

BioSemAF-BiLSTM: a protein sequence feature extraction framework based on semantic and evolutionary information

in Computational Genomics

Zihan Zhang
Yixuan Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1616880

2,112 views
2 citations

Original Research

Published on 12 Sep 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

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

Frontiers in Genetics

doi 10.3389/fgene.2025.1587274

2,708 views

Original Research

Published on 10 Sep 2025

Diphenyl pyridine intervention improves S. aureus-induced pneumonia by globally regulating transcriptome profile

in Computational Genomics

Wei Duan
Qingfeng Zhu
Hai Ci
Jingang Zhang
Zhiwei Tian
Wanyu Li
Zhengfu Yang

Frontiers in Genetics

doi 10.3389/fgene.2025.1624327

1,744 views

Original Research

Published on 10 Sep 2025

Genome-wide evolution and function analysis of ALOG gene family in cotton

in Computational Genomics

Zhen Liu
Siyu Shen
Zhijuan Cui
Tao Wang
Pengtao Li
Yangyang Wei
Renhai Peng

Frontiers in Genetics

doi 10.3389/fgene.2025.1625634

1,844 views
1 citation

Original Research

Published on 05 Sep 2025

Integrative analysis of single-cell and microarray data reveals SPI1-centered macrophage regulatory signatures in ulcerative colitis

in Computational Genomics

Yeqing Yu
Chengwei Yu
Shanshan Dai
Yixu Liu
Lanlan Hu
Weimin Lu

Frontiers in Genetics

doi 10.3389/fgene.2025.1617834

3,324 views

Original Research

Published on 03 Sep 2025

Multi-omics integration uncovers key transcriptional regulators in triple-negative breast cancer spatial heterogeneity

in Computational Genomics

Ning Zhang
Ye Zhang
Rui-Fei Yang
Min Tan
Hai-Qing Chu
Abdur Rehman
Lu-Yu Yang
Ya-Yu Li
Fahad M. Alshabrmi
Xin Zhou

Frontiers in Genetics

doi 10.3389/fgene.2025.1614254

4,428 views
2 citations

Correction

Published on 29 Aug 2025

Correction: Engineering novel features for diabetes complication prediction using synthetic electronic health records

in Computational Genomics

Daniel Voskergian
Burcu Bakir-Gungor
Malik Yousef

Frontiers in Genetics

doi 10.3389/fgene.2025.1687832

1,213 views

Original Research

Published on 25 Aug 2025

DeepRNAac4C: a hybrid deep learning framework for RNA N4-acetylcytidine site prediction

in Computational Genomics

Guohua Huang
Runjuan Xiao
Chunying Peng
Jinyun Jiang
Weihong Chen

Frontiers in Genetics

doi 10.3389/fgene.2025.1622899

2,011 views

Original Research

Published on 22 Aug 2025

Multi-omic insights into mitochondrial dysfunction and prostatic disease: evidence from transcriptomics, proteomics, and methylomics

in Computational Genomics

Binbin Gong
Feixiang Yang
Ning Zhang
Zhengyang Wu
Tianrui Liu
Kun Wang
Xiangyu Zhang
Yangyang Zhang
Zhengyao Song
Chaozhao Liang

Frontiers in Genetics

doi 10.3389/fgene.2025.1609933

4,182 views

Correction

Published on 21 Aug 2025

Correction: 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.2025.1683914

1,402 views

Original Research

Published on 15 Aug 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

2,685 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

1,501 views
1 citation

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

3,611 views
2 citations

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

3,584 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

2,060 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

3,690 views
1 citation

2,653 articles

articles

Analyses of haplotypes of TLR2 and TLR3 genes for COVID-19 prognosis in a cohort of professionals who worked in the first pandemic wave in Belém-PA, Brazil

Annotated genome of Aedes japonicus japonicus using a hybrid-assembly approach

Immune-molecular nexus in reproductive disorders: mechanisms linking POI and RSA

Cross-modal predictive modeling of multi-omic data in 3D airway organ tissue equivalents during viral infection

Identification of platelet function-related genes in STEMI patients

A hypergraph neural network for prioritizing Alzheimer’s disease risk genes

Uncovering differential gene expression between mtRNA-positive and -negative osteosarcoma cells: implications beyond mitochondrial function

Genetic and in silico functional characterization of a novel structural variant in the PAH gene by long-reads sequencing and structural modeling

BioSemAF-BiLSTM: a protein sequence feature extraction framework based on semantic and evolutionary information

Dissecting and validation the biomarker of heart failure progression in patients with atherosclerosis by single-cell sequencing, bioinformatics, and machine learning

Diphenyl pyridine intervention improves S. aureus-induced pneumonia by globally regulating transcriptome profile

Genome-wide evolution and function analysis of ALOG gene family in cotton

Integrative analysis of single-cell and microarray data reveals SPI1-centered macrophage regulatory signatures in ulcerative colitis

Multi-omics integration uncovers key transcriptional regulators in triple-negative breast cancer spatial heterogeneity

Correction: Engineering novel features for diabetes complication prediction using synthetic electronic health records

DeepRNAac4C: a hybrid deep learning framework for RNA N4-acetylcytidine site prediction

Multi-omic insights into mitochondrial dysfunction and prostatic disease: evidence from transcriptomics, proteomics, and methylomics

Correction: Analysis and validation of novel biomarkers related to palmitoylation in adenomyosis

Integrative machine learning and Mendelian randomization identify causal laboratory biomarkers for coronary artery lesions in Kawasaki disease: a prospective study

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

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

Analysis and validation of novel biomarkers related to palmitoylation in adenomyosis

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

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