Frontiers in Genetics | Computational Genomics

Original Research

Published on 13 Sep 2024

Role of telomere dysfunction and immune infiltration in idiopathic pulmonary fibrosis: new insights from bioinformatics analysis

in Computational Genomics

Chenkun Fu
Xin Tian
Shuang Wu
Xiaojuan Chu
Yiju Cheng
Xiao Wu
Wengting Yang

Frontiers in Genetics

doi 10.3389/fgene.2024.1447296

3,938 views
3 citations

Original Research

Published on 04 Sep 2024

Identification and validation of diagnostic genes associated with neutrophil extracellular traps of type 2 diabetes mellitus

in Computational Genomics

Meifang He
Jin Niu
Haihua Cheng
Chaoying Guo

Frontiers in Genetics

doi 10.3389/fgene.2024.1373807

4,961 views

Review

Published on 03 Sep 2024

A comprehensive review of artificial intelligence for pharmacology research

in Computational Genomics

Bing Li
Kan Tan
Angelyn R. Lao
Haiying Wang
Huiru Zheng
Le Zhang

Frontiers in Genetics

doi 10.3389/fgene.2024.1450529

9,798 views
4 citations

Original Research

Published on 22 Aug 2024

A high-precision genome size estimator based on the k-mer histogram correction

in Computational Genomics

Xiangyu Liao
Wufei Zhu
Chaoyun Liu

Frontiers in Genetics

doi 10.3389/fgene.2024.1451730

3,232 views
1 citation

Original Research

Published on 21 Aug 2024

Identification of TIMP1-induced dysregulation of epithelial-mesenchymal transition as a key pathway in inflammatory bowel disease and small intestinal neuroendocrine tumors shared pathogenesis

in Computational Genomics

Minh Tuan Tran

Frontiers in Genetics

doi 10.3389/fgene.2024.1376123

5,933 views
6 citations

Methods

Published on 15 Aug 2024

SAFE-MIL: a statistically interpretable framework for screening potential targeted therapy patients based on risk estimation

in Computational Genomics

Yanfang Guan
Zhengfa Xue
Jiayin Wang
Xinghao Ai
Rongrong Chen
Xin Yi
Shun Lu
Yuqian Liu

Frontiers in Genetics

doi 10.3389/fgene.2024.1381851

1,948 views
1 citation

Original Research

Published on 12 Aug 2024

Prognostic value of four immune-related genes in lower-grade gliomas: a biomarker discovery study

in Computational Genomics

Shuowen Wang
Zijun Wang
Zhuo Liu
Jianxin Wu

Frontiers in Genetics

doi 10.3389/fgene.2024.1403587

2,267 views
3 citations

Original Research

Published on 09 Aug 2024

TF-EPI: an interpretable enhancer-promoter interaction detection method based on Transformer

in Computational Genomics

Bowen Liu
Weihang Zhang
Xin Zeng
Martin Loza
Sung-Joon Park
Kenta Nakai

Frontiers in Genetics

doi 10.3389/fgene.2024.1444459

4,009 views
3 citations

Original Research

Published on 08 Aug 2024

Integrative analysis reveals novel insights into juvenile idiopathic arthritis pathogenesis and shared molecular pathways with associated traits

in Computational Genomics

N. Pudjihartono
D. Ho
J. M. O’Sullivan

Frontiers in Genetics

doi 10.3389/fgene.2024.1448363

4,614 views
4 citations

Original Research

Published on 02 Aug 2024

MSFN: a multi-omics stacked fusion network for breast cancer survival prediction

in Computational Genomics

Ge Zhang
Chenwei Ma
Chaokun Yan
Huimin Luo
Jianlin Wang
Wenjuan Liang
Junwei Luo

Frontiers in Genetics

doi 10.3389/fgene.2024.1378809

2,927 views
7 citations

Original Research

Published on 30 Jul 2024

Exploring the molecular landscape of osteosarcoma through PTTG family genes using a detailed multi-level methodology

in Computational Genomics

Yulin Lu
Danjun Wang
Guoao Chen
Zitong Shan
Dongmei Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1431668

2,219 views
4 citations

Original Research

Published on 29 Jul 2024

The identification and expression analysis of walnut Acyl-ACP thioesterases

in Computational Genomics

Hui Wang
Jianqing Shi
Wanhui Guo
Xiaohui Sun
Shuhui Niu
Li Chen
Shenghong Liu
Lei Ma

Frontiers in Genetics

doi 10.3389/fgene.2024.1409159

1,938 views
1 citation

Methods

Published on 26 Jul 2024

AsmMix: an efficient haplotype-resolved hybrid de novo genome assembling pipeline

in Computational Genomics

Chao Liu
Pei Wu
Xue Wu
Xia Zhao
Fang Chen
Xiaofang Cheng
Hongmei Zhu
Ou Wang
Mengyang Xu

Frontiers in Genetics

doi 10.3389/fgene.2024.1421565

2,954 views

Original Research

Published on 26 Jul 2024

Identification and experimental validation of programmed cell death- and mitochondria-associated biomarkers in osteoporosis and immune microenvironment

in Computational Genomics

Xiu Yang
Zheng-Chao Zhang
Yun-Nan Lu
Han-Lin Chen
Hong-Shen Wang
Tao Lin
Qing-Quan Chen
Jin-Shui Chen
Wu-Bing He

Frontiers in Genetics

doi 10.3389/fgene.2024.1439171

4,046 views
2 citations

Original Research

Published on 24 Jul 2024

Identification and validation of aging-related genes in neuropathic pain using bioinformatics

in Computational Genomics

Hui Gao
Guoqi Dong
Yong Yao
Huayuan Yang

Frontiers in Genetics

doi 10.3389/fgene.2024.1430275

4,806 views
3 citations

Correction

Published on 16 Jul 2024

Corrigendum: Hyperglycemia decreases epithelial cell proliferation and attenuates neutrophil activity by reducing ICAM-1 and LFA-1 expression levels

in Computational Genomics

Dongxu Qiu
Lei Zhang
Junkun Zhan
Qiong Yang
Hongliang Xiong
Weitong Hu
Qiao Ji
Jiabing Huang

Frontiers in Genetics

doi 10.3389/fgene.2024.1431933

1,151 views

Original Research

Published on 16 Jul 2024

An integrated bioinformatics analysis to identify the shared biomarkers in patients with obstructive sleep apnea syndrome and nonalcoholic fatty liver disease

in Computational Genomics

Rou Zhang
Zhijuan Liu
Ran Li
Xiaona Wang
Li Ai
Yongxia Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1356105

4,088 views

Original Research

Published on 15 Jul 2024

MGPPI: multiscale graph neural networks for explainable protein–protein interaction prediction

in Computational Genomics

Shiwei Zhao
Zhenyu Cui
Gonglei Zhang
Yanlong Gong
Lingtao Su

Frontiers in Genetics

doi 10.3389/fgene.2024.1440448

3,928 views
3 citations

Original Research

Published on 11 Jul 2024

Cross-species single-cell landscapes identify the pathogenic gene characteristics of inherited retinal diseases

in Computational Genomics

Hualei Hu
Fei Liu
Pan Gao
Yuwen Huang
Danna Jia
Jamas Reilly
Xiang Chen
Yunqiao Han
Kui Sun
Jiong Luo

Frontiers in Genetics

doi 10.3389/fgene.2024.1409016

5,045 views
2 citations

Original Research

Published on 10 Jul 2024

Relationships between systemic sclerosis and atherosclerosis: screening for mitochondria-related biomarkers

in Computational Genomics

Fei Wang
Xiao Yan Lyu
Yi Ming Qin
Mei Juan Xie

Frontiers in Genetics

doi 10.3389/fgene.2024.1375331

5,145 views
6 citations

Methods

Published on 10 Jul 2024

PSPI: A deep learning approach for prokaryotic small protein identification

in Computational Genomics

Matthew Weston
Haiyan Hu
Xiaoman Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1439423

2,475 views

Original Research

Published on 10 Jul 2024

Stacked generalization as a computational method for the genomic selection

in Computational Genomics

Sunhee Kim
Sang-Ho Chu
Yong-Jin Park
Chang-Yong Lee

Frontiers in Genetics

doi 10.3389/fgene.2024.1401470

1,704 views
1 citation

Original Research

Published on 10 Jul 2024

GIHP: Graph convolutional neural network based interpretable pan-specific HLA-peptide binding affinity prediction

in Computational Genomics

Lingtao Su
Yan Yan
Bo Ma
Shiwei Zhao
Zhenyu Cui

Frontiers in Genetics

doi 10.3389/fgene.2024.1405032

3,423 views
3 citations

Original Research

Published on 09 Jul 2024

HapKled: a haplotype-aware structural variant calling approach for Oxford nanopore sequencing data

in Computational Genomics

Zhendong Zhang
Yue Liu
Xin Li
Yadong Liu
Yadong Wang
Tao Jiang

Frontiers in Genetics

doi 10.3389/fgene.2024.1435087

2,438 views

2,640 articles

articles

Role of telomere dysfunction and immune infiltration in idiopathic pulmonary fibrosis: new insights from bioinformatics analysis

Identification and validation of diagnostic genes associated with neutrophil extracellular traps of type 2 diabetes mellitus

A comprehensive review of artificial intelligence for pharmacology research

A high-precision genome size estimator based on the k-mer histogram correction

Identification of TIMP1-induced dysregulation of epithelial-mesenchymal transition as a key pathway in inflammatory bowel disease and small intestinal neuroendocrine tumors shared pathogenesis

SAFE-MIL: a statistically interpretable framework for screening potential targeted therapy patients based on risk estimation

Prognostic value of four immune-related genes in lower-grade gliomas: a biomarker discovery study

TF-EPI: an interpretable enhancer-promoter interaction detection method based on Transformer

Integrative analysis reveals novel insights into juvenile idiopathic arthritis pathogenesis and shared molecular pathways with associated traits

MSFN: a multi-omics stacked fusion network for breast cancer survival prediction

Exploring the molecular landscape of osteosarcoma through PTTG family genes using a detailed multi-level methodology

The identification and expression analysis of walnut Acyl-ACP thioesterases

AsmMix: an efficient haplotype-resolved hybrid de novo genome assembling pipeline

Identification and experimental validation of programmed cell death- and mitochondria-associated biomarkers in osteoporosis and immune microenvironment

Identification and validation of aging-related genes in neuropathic pain using bioinformatics

Corrigendum: Hyperglycemia decreases epithelial cell proliferation and attenuates neutrophil activity by reducing ICAM-1 and LFA-1 expression levels

An integrated bioinformatics analysis to identify the shared biomarkers in patients with obstructive sleep apnea syndrome and nonalcoholic fatty liver disease

MGPPI: multiscale graph neural networks for explainable protein–protein interaction prediction

Cross-species single-cell landscapes identify the pathogenic gene characteristics of inherited retinal diseases

Relationships between systemic sclerosis and atherosclerosis: screening for mitochondria-related biomarkers

PSPI: A deep learning approach for prokaryotic small protein identification

Stacked generalization as a computational method for the genomic selection

GIHP: Graph convolutional neural network based interpretable pan-specific HLA-peptide binding affinity prediction

HapKled: a haplotype-aware structural variant calling approach for Oxford nanopore sequencing data