Frontiers in Genetics | Computational Genomics

Original Research

Published on 16 Oct 2024

Identification of potential therapeutic targets for systemic lupus erythematosus based on GEO database analysis and Mendelian randomization analysis

in Computational Genomics

Aishanjiang Apaer
Yanyan Shi
Alimijiang Aobulitalifu
Fujie Wen
Adalaiti Muhetaer
Nuermaimaiti Ajimu
Maierhaba Sulitan
Lei Cheng

Frontiers in Genetics

doi 10.3389/fgene.2024.1454486

9,296 views
5 citations

Original Research

Published on 02 Oct 2024

TCRcost: a deep learning model utilizing TCR 3D structure for enhanced of TCR–peptide binding

in Computational Genomics

Fan Li
Xinyang Qian
Xiaoyan Zhu
Xin Lai
Xuanping Zhang
Jiayin Wang

Frontiers in Genetics

doi 10.3389/fgene.2024.1346784

2,764 views
5 citations

Original Research

Published on 01 Oct 2024

Transparent sparse graph pathway network for analyzing the internal relationship of lung cancer

in Computational Genomics

Zhibin Jin
Yuhu Shi
Lili Zhou

Frontiers in Genetics

doi 10.3389/fgene.2024.1437174

1,679 views
1 citation

Original Research

Published on 20 Sep 2024

Genomic analysis and mechanisms exploration of a stress tolerance and high-yield pullulan producing strain

in Computational Genomics

Jing Yang
Ning Sun
Wenru Wang
Ruihua Zhang
Siqi Sun
Biqi Li
Yue Shi
Junfeng Zeng
Shulei Jia

Frontiers in Genetics

doi 10.3389/fgene.2024.1469600

2,685 views
1 citation

Retraction

Published on 20 Sep 2024

Retraction: Mitochondrial-associated protein LRPPRC is related with poor prognosis potentially and exerts as an oncogene via maintaining mitochondrial function in pancreatic cancer

in Computational Genomics

Frontiers Editorial Office

Frontiers in Genetics

doi 10.3389/fgene.2024.1495469

1,659 views

Original Research

Published on 20 Sep 2024

CSER: a gene regulatory network construction method based on causal strength and ensemble regression

in Computational Genomics

Yujia Li
Yang Du
Mingmei Wang
Dongmei Ai

Frontiers in Genetics

doi 10.3389/fgene.2024.1481787

2,519 views
1 citation

Original Research

Published on 20 Sep 2024

DGDRP: drug-specific gene selection for drug response prediction via re-ranking through propagating and learning biological network

in Computational Genomics

Minwoo Pak
Dongmin Bang
Inyoung Sung
Sun Kim
Sunho Lee

Frontiers in Genetics

doi 10.3389/fgene.2024.1441558

4,633 views
2 citations

Review

Published on 19 Sep 2024

Methods for multi-omic data integration in cancer research

in Computational Genomics

Enrique Hernández-Lemus
Soledad Ochoa

Frontiers in Genetics

doi 10.3389/fgene.2024.1425456

12,512 views
31 citations

Original Research

Published on 18 Sep 2024

Bidirectional two-sample Mendelian randomization analysis investigates causal associations between cathepsins and inflammatory bowel disease

in Computational Genomics

Na Wang
Jun Liu
Bao Chai
Jianhong Yao
Xufang Du
Qi Mei
Xuena Wang

Frontiers in Genetics

doi 10.3389/fgene.2024.1436407

2,616 views
1 citation

Original Research

Published on 18 Sep 2024

Identification of novel targets associated with cholesterol metabolism in nonalcoholic fatty liver disease: a comprehensive study using Mendelian randomization combined with transcriptome analysis

in Computational Genomics

Juan Chen
Huajing Rao
Xiaoling Zheng

Frontiers in Genetics

doi 10.3389/fgene.2024.1464865

4,997 views
5 citations

Original Research

Published on 18 Sep 2024

Integrative multi-omics summary-based mendelian randomization identifies key oxidative stress-related genes as therapeutic targets for atrial fibrillation and flutter

in Computational Genomics

Shijian Chen
Junlong Sun
Wen Wen
Zhenfeng Chen
Ziheng Yu

Frontiers in Genetics

doi 10.3389/fgene.2024.1447872

6,201 views
8 citations

Original Research

Published on 16 Sep 2024

Graph neural pre-training based drug-target affinity prediction

in Computational Genomics

Qing Ye
Yaxin Sun

Frontiers in Genetics

doi 10.3389/fgene.2024.1452339

3,350 views
4 citations

Review

Published on 13 Sep 2024

Transcriptional bursting dynamics in gene expression

in Computational Genomics

Qiuyu Zhang
Wenjie Cao
Jiaqi Wang
Yihao Yin
Rui Sun
Zunyi Tian
Yuhan Hu
Yalan Tan
Ben-gong Zhang

Frontiers in Genetics

doi 10.3389/fgene.2024.1451461

8,345 views
9 citations

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

4,204 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

5,222 views
1 citation

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

10,751 views
6 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

3,592 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

6,360 views
7 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

2,083 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

2,442 views
4 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

4,313 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

4,959 views
5 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

3,244 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

2,475 views
5 citations

2,653 articles

articles

Identification of potential therapeutic targets for systemic lupus erythematosus based on GEO database analysis and Mendelian randomization analysis

TCRcost: a deep learning model utilizing TCR 3D structure for enhanced of TCR–peptide binding

Transparent sparse graph pathway network for analyzing the internal relationship of lung cancer

Genomic analysis and mechanisms exploration of a stress tolerance and high-yield pullulan producing strain

Retraction: Mitochondrial-associated protein LRPPRC is related with poor prognosis potentially and exerts as an oncogene via maintaining mitochondrial function in pancreatic cancer

CSER: a gene regulatory network construction method based on causal strength and ensemble regression

DGDRP: drug-specific gene selection for drug response prediction via re-ranking through propagating and learning biological network

Methods for multi-omic data integration in cancer research

Bidirectional two-sample Mendelian randomization analysis investigates causal associations between cathepsins and inflammatory bowel disease

Identification of novel targets associated with cholesterol metabolism in nonalcoholic fatty liver disease: a comprehensive study using Mendelian randomization combined with transcriptome analysis

Integrative multi-omics summary-based mendelian randomization identifies key oxidative stress-related genes as therapeutic targets for atrial fibrillation and flutter

Graph neural pre-training based drug-target affinity prediction

Transcriptional bursting dynamics in gene expression

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