Frontiers in Genetics | Computational Genomics

Original Research

Published on 25 Jun 2025

A machine learning framework for predicting cognitive impairment in aging populations using urinary metal and demographic data

in Computational Genomics

Fengchun Ren
Xiao Zhao
Qin Yang
Huaqiang Liao
Yudong Zhang
Xuemei Liu

Frontiers in Genetics

doi 10.3389/fgene.2025.1631228

2,085 views

Original Research

Published on 24 Jun 2025

An analysis of gene expression profiles through machine learning uncovers the new diagnostic signature for diabetic foot ulcers

in Computational Genomics

Yingnan Li
Ning Xiao
Zhuoqun Wang
Wenhai Wang
Fengjiao Li
Jiren Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1620749

2,612 views

Original Research

Published on 23 Jun 2025

CYLD as a key regulator of myocardial infarction-to-heart failure transition revealed by multi-omics integration

in Computational Genomics

Jingya Xu
Zhonghua Dong
Zhaodong Li
Xuan Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1592985

2,747 views

Original Research

Published on 23 Jun 2025

Insights into the evolution and regulation of miRNAs from the view of their DNA replication temporal domains

in Computational Genomics

Xudong Wu
Tingting Liu

Frontiers in Genetics

doi 10.3389/fgene.2025.1544802

1,528 views

Original Research

Published on 20 Jun 2025

Generalized information criteria for personalized gene network inference

in Computational Genomics

Heewon Park
Seiya Imoto
Sadanori Konishi

Frontiers in Genetics

doi 10.3389/fgene.2025.1583756

1,367 views

Original Research

Published on 20 Jun 2025

Integrative bioinformatics analysis of pyroptosis-related genes and immune infiltration patterns in childhood asthma

in Computational Genomics

Di Lian
Chenye Lin
Meiling Xie
JianXing Wei
Xueling Huang
Ke Lian
Qiuyu Tang

Frontiers in Genetics

doi 10.3389/fgene.2025.1557709

2,396 views

Original Research

Published on 20 Jun 2025

Identification of neutrophil extracellular trap-related biomarkers in ulcerative colitis based on bioinformatics and machine learning

in Computational Genomics

Jiao Li
Yupei Liu
Zhiyi Sun
Suqi Zeng
Caisong Zheng

Frontiers in Genetics

doi 10.3389/fgene.2025.1589999

3,572 views
1 citation

Original Research

Published on 19 Jun 2025

Identification of biomarkers associated with mitochondrial dysfunction and programmed cell death in chronic obstructive pulmonary disease via transcriptomics

in Computational Genomics

Xiaojuan Yang
Yutao Duan
Lei Qiu
Xia Huang
Fei Li

Frontiers in Genetics

doi 10.3389/fgene.2025.1567173

2,503 views
1 citation

Original Research

Published on 18 Jun 2025

Integrative bioinformatics analysis and experimental validation reveals key genes and regulatory mechanisms in the development of gout

in Computational Genomics

Ye Yuan
Zhiqiang Gao
Jianhong Chen
Yuejing Liu
Jingguo Zhou

Frontiers in Genetics

doi 10.3389/fgene.2025.1598835

2,386 views

Original Research

Published on 11 Jun 2025

iKcr-DRC: prediction of lysine crotonylation sites in proteins based on a novel attention module and DenseNet

in Computational Genomics

Xin Wei
Siqin Hu
Jian Tu
Muhammad Akmal Remli

Frontiers in Genetics

doi 10.3389/fgene.2025.1574832

1,798 views

Original Research

Published on 10 Jun 2025

Auto-branch multi-task learning for simultaneous prediction of multiple correlated traits associated with Alzheimer’s disease

in Computational Genomics

Jiaqi Liang
Zhao Xue
Wenchao Zhou
Xiangjie Guo
Yalu Wen

Frontiers in Genetics

doi 10.3389/fgene.2025.1538544

1,669 views

Original Research

Published on 04 Jun 2025

MOLUNGN: a multi-omics graph neural network for biomarker discovery and accurate lung cancer classification

in Computational Genomics

Daifeng Zhang
Guoqiang Bian
Yuanbin Zhang
Jiadong Xie
Chenjun Hu

Frontiers in Genetics

doi 10.3389/fgene.2025.1610284

4,429 views
1 citation

Original Research

Published on 02 Jun 2025

From genetic data to kinship clarity: employing machine learning for detecting incestuous relations

in Computational Genomics

Dejan Šorgić
Aleksandra Stefanović
Mladen Popović
Dušan Keckarević

Frontiers in Genetics

doi 10.3389/fgene.2025.1578581

3,337 views
2 citations

Original Research

Published on 30 May 2025

Integrative transcriptomics and single-cell transcriptomics analyses reveal potential biomarkers and mechanisms of action in papillary thyroid carcinoma

in Computational Genomics

Wanchen Cao
Kai Gao
Yi Zhao

Frontiers in Genetics

doi 10.3389/fgene.2025.1536198

2,577 views

Original Research

Published on 30 May 2025

Reference-free deconvolution of complex samples based on cross-cell-type differential analysis: Systematic evaluations with various feature selection options

in Computational Genomics

Weiwei Zhang
Zhonghe Tian
Ling Peng

Frontiers in Genetics

doi 10.3389/fgene.2025.1570781

1,730 views

Original Research

Published on 30 May 2025

Identification of biomarkers for the diagnosis of chronic kidney disease (CKD) with dilated cardiomyopathy (DCM) by bioinformatics analysis and machine learning

in Computational Genomics

Yuhang Liu
Yong Wang
Wenyang Nie
Zhen Wang

Frontiers in Genetics

doi 10.3389/fgene.2025.1562891

3,646 views
1 citation

Editorial

Published on 29 May 2025

Editorial: Computational genomic and precision medicine

in Computational Genomics

Zeeshan Ahmed
Ramkumar Thirunavukarasu
Atlas Khan

Frontiers in Genetics

doi 10.3389/fgene.2025.1631668

2,208 views

Original Research

Published on 26 May 2025

Prediction of mild cognitive impairment using blood multi-omics data

in Computational Genomics

Daniel Frank Zhang
Cigdem Sevim Bayrak
Qi Zeng
Minghui Wang
Bin Zhang

Frontiers in Genetics

doi 10.3389/fgene.2025.1552063

2,501 views

Methods

Published on 22 May 2025

stGuide advances label transfer in spatial transcriptomics through attention-based supervised graph representation learning

in Computational Genomics

Yupeng Xu
Hao Dai
Jinwang Feng
Keren Xu
Qiu Wang
Pingting Gao
Chunman Zuo

Frontiers in Genetics

doi 10.3389/fgene.2025.1566675

2,450 views

Opinion

Published on 16 May 2025

From bites to bytes: understanding how and why individual malaria risk varies using artificial intelligence and causal inference

in Computational Genomics

Adèle Helena Ribeiro
Júlia M. P. Soler
Rodrigo M. Corder
Marcelo U. Ferreira
Dominik Heider

Frontiers in Genetics

doi 10.3389/fgene.2025.1599826

2,741 views
1 citation

Original Research

Published on 09 May 2025

Long-read sequencing reveals absence of 5mC in Ogataea parapolymorpha DL-1 genome and introduces telomere-to-telomere assembly

in Computational Genomics

Andrey Eremin
Alexander Sergeev
Arthur Kopylov
Vladimir Rodin
Daniil Malyshev
Tatiana Panova
Igor Polyakov
Maria Zvereva

Frontiers in Genetics

doi 10.3389/fgene.2025.1574332

2,024 views
1 citation

Technology and Code

Published on 02 May 2025

TCGADownloadHelper: simplifying TCGA data extraction and preprocessing

in Computational Genomics

Alexandra Anke Baumann
Olaf Wolkenhauer
Markus Wolfien

Frontiers in Genetics

doi 10.3389/fgene.2025.1569290

5,078 views
1 citation

Original Research

Published on 30 Apr 2025

Impact of nonsynonymous single nucleotide polymorphisms in PROCR gene on protein stability and thrombotic risk: a molecular dynamic approach

in Computational Genomics

Hytham Ahmed Abuagla
Khalid Mohamed Adam
Mohamed E. Elangeeb
Elsadig Mohamed Ahmed
Elshazali W. Ali
Ali M. Edris
Abubakr Ali Elamin MohamedAhmed
Elmoiz Idris Eltieb
Tarig Babikir Algak Khalid
Bahaeldin K. Elamin

Frontiers in Genetics

doi 10.3389/fgene.2025.1580993

1,941 views

Original Research

Published on 30 Apr 2025

High-precision lung cancer subtype diagnosis on imbalanced exosomal data via Exo-LCClassifier

in Computational Genomics

Siyu Zhan
Hao Yu
Shuang Liu
Ke Qin
Lu Guo

Frontiers in Genetics

doi 10.3389/fgene.2025.1583081

1,969 views
1 citation

2,640 articles

articles

A machine learning framework for predicting cognitive impairment in aging populations using urinary metal and demographic data

An analysis of gene expression profiles through machine learning uncovers the new diagnostic signature for diabetic foot ulcers

CYLD as a key regulator of myocardial infarction-to-heart failure transition revealed by multi-omics integration

Insights into the evolution and regulation of miRNAs from the view of their DNA replication temporal domains

Generalized information criteria for personalized gene network inference

Integrative bioinformatics analysis of pyroptosis-related genes and immune infiltration patterns in childhood asthma

Identification of neutrophil extracellular trap-related biomarkers in ulcerative colitis based on bioinformatics and machine learning

Identification of biomarkers associated with mitochondrial dysfunction and programmed cell death in chronic obstructive pulmonary disease via transcriptomics

Integrative bioinformatics analysis and experimental validation reveals key genes and regulatory mechanisms in the development of gout

iKcr-DRC: prediction of lysine crotonylation sites in proteins based on a novel attention module and DenseNet

Auto-branch multi-task learning for simultaneous prediction of multiple correlated traits associated with Alzheimer’s disease

MOLUNGN: a multi-omics graph neural network for biomarker discovery and accurate lung cancer classification

From genetic data to kinship clarity: employing machine learning for detecting incestuous relations

Integrative transcriptomics and single-cell transcriptomics analyses reveal potential biomarkers and mechanisms of action in papillary thyroid carcinoma

Reference-free deconvolution of complex samples based on cross-cell-type differential analysis: Systematic evaluations with various feature selection options

Identification of biomarkers for the diagnosis of chronic kidney disease (CKD) with dilated cardiomyopathy (DCM) by bioinformatics analysis and machine learning

Editorial: Computational genomic and precision medicine

Prediction of mild cognitive impairment using blood multi-omics data

stGuide advances label transfer in spatial transcriptomics through attention-based supervised graph representation learning

From bites to bytes: understanding how and why individual malaria risk varies using artificial intelligence and causal inference

Long-read sequencing reveals absence of 5mC in Ogataea parapolymorpha DL-1 genome and introduces telomere-to-telomere assembly

TCGADownloadHelper: simplifying TCGA data extraction and preprocessing

Impact of nonsynonymous single nucleotide polymorphisms in PROCR gene on protein stability and thrombotic risk: a molecular dynamic approach

High-precision lung cancer subtype diagnosis on imbalanced exosomal data via Exo-LCClassifier