Frontiers in Genetics | Computational Genomics

Original Research

Published on 06 May 2024

MIFAM-DTI: a drug-target interactions predicting model based on multi-source information fusion and attention mechanism

in Computational Genomics

Jianwei Li
Lianwei Sun
Lingbo Liu
Ziyu Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1381997

3,555 views
4 citations

Original Research

Published on 30 Apr 2024

In search of the ratio of miRNA expression as robust biomarkers for constructing stable diagnostic models among multi-center data

in Computational Genomics

Cuidie Ma
Yonghao Zhang
Rui Ding
Han Chen
Xudong Wu
Lida Xu
Changyuan Yu

Frontiers in Genetics

doi 10.3389/fgene.2024.1381917

2,375 views
6 citations

Original Research

Published on 26 Apr 2024

Predict lncRNA-drug associations based on graph neural network

in Computational Genomics

Peng Xu
Chuchu Li
Jiaqi Yuan
Zhenshen Bao
Wenbin Liu

Frontiers in Genetics

doi 10.3389/fgene.2024.1388015

4,746 views
32 citations

Original Research

Published on 25 Apr 2024

Bayesian hidden mark interaction model for detecting spatially variable genes in imaging-based spatially resolved transcriptomics data

in Computational Genomics

Jie Yang
Xi Jiang
Kevin Wang Jin
Sunyoung Shin
Qiwei Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1356709

2,407 views
4 citations

Original Research

Published on 24 Apr 2024

A multi-organization epigenetic age prediction based on a channel attention perceptron networks

in Computational Genomics

Jian Zhao
Haixia Li
Jing Qu
Xizeng Zong
Yuchen Liu
Zhejun Kuang
Han Wang

Frontiers in Genetics

doi 10.3389/fgene.2024.1393856

2,277 views
2 citations

Technology and Code

Published on 24 Apr 2024

SVhawkeye: an ultra-fast software for user-friendly visualization of targeted structural fragments from BAM files

in Computational Genomics

Yuhui Xiao
Tao Yu
Fan Liang
Tingping Hou

Frontiers in Genetics

doi 10.3389/fgene.2024.1352443

3,857 views
3 citations

Original Research

Published on 18 Apr 2024

Single-cell and bulk RNAseq unveils the immune infiltration landscape and targeted therapeutic biomarkers of psoriasis

in Computational Genomics

Wenhui Deng
Yijiao Yan
Chengzhi Shi
Daoshun Sui

Frontiers in Genetics

doi 10.3389/fgene.2024.1365273

5,853 views
3 citations

Original Research

Published on 18 Apr 2024

Identification of common genes and pathways between type 2 diabetes and COVID-19

in Computational Genomics

Ya Wang
Kai Li
Shuangyang Mo
Peishan Yao
Jiaxing Zeng
Shunyu Lu
Shanyu Qin

Frontiers in Genetics

doi 10.3389/fgene.2024.1249501

3,886 views
3 citations

Original Research

Published on 16 Apr 2024

iDNA-OpenPrompt: OpenPrompt learning model for identifying DNA methylation

in Computational Genomics

Xia Yu
Jia Ren
Haixia Long
Rao Zeng
Guoqiang Zhang
Anas Bilal
Yani Cui

Frontiers in Genetics

doi 10.3389/fgene.2024.1377285

2,676 views
21 citations

Methods

Published on 16 Apr 2024

OGNNMDA: a computational model for microbe-drug association prediction based on ordered message-passing graph neural networks

in Computational Genomics

Jiabao Zhao
Linai Kuang
An Hu
Qi Zhang
Dinghai Yang
Chunxiang Wang

Frontiers in Genetics

doi 10.3389/fgene.2024.1370013

2,038 views
5 citations

Original Research

Published on 10 Apr 2024

Critical gene signature and immunological characterization in peripheral vascular atherosclerosis: novel insights from mendelian randomization and transcriptomics

in Computational Genomics

Wei Xie
Shumin Chen
Hanqing Luo
Chuiyu Kong
Dongjin Wang

Frontiers in Genetics

doi 10.3389/fgene.2024.1361445

4,760 views
1 citation

Original Research

Published on 08 Apr 2024

Unveiling the hub genes in the SIGLECs family in colon adenocarcinoma with machine learning

in Computational Genomics

Tiantian Li
Ji Yao

Frontiers in Genetics

doi 10.3389/fgene.2024.1375100

1,968 views

Original Research

Published on 05 Apr 2024

TMBcalc: a computational pipeline for identifying pan-cancer Tumor Mutational Burden gene signatures

in Computational Genomics

Grete Francesca Privitera
Salvatore Alaimo
Anna Caruso
Alfredo Ferro
Stefano Forte
Alfredo Pulvirenti

Frontiers in Genetics

doi 10.3389/fgene.2024.1285305

3,871 views
1 citation

Original Research

Published on 05 Apr 2024

Analysis of weighted gene co-expression networks and clinical validation identify hub genes and immune cell infiltration in the endometrial cells of patients with recurrent implantation failure

in Computational Genomics

Zhenteng Liu
Shoucui Lai
Qinglan Qu
Xuemei Liu
Wei Zhang
Dongmei Zhao
Shunzhi He
Yuxia Sun
Hongchu Bao

Frontiers in Genetics

doi 10.3389/fgene.2024.1292757

3,885 views

Methods

Published on 20 Mar 2024

Automated recognition of chromosome fusion using an alignment-free natural vector method

in Computational Genomics

Hongyu Yu
Stephen S.-T. Yau

Frontiers in Genetics

doi 10.3389/fgene.2024.1364951

2,730 views
2 citations

Original Research

Published on 18 Mar 2024

Transcriptome profiling and analysis of patients with esophageal squamous cell carcinoma from Kazakhstan

in Computational Genomics

Aigul Sharip
Saule Rakhimova
Askhat Molkenov
Ainur Ashenova
Ulan Kozhamkulov
Ilyas Akhmetollayev
Andrei Zinovyev
Yuri Zhukov
Marat Omarov
Mukhtar Tuleutaev

Frontiers in Genetics

doi 10.3389/fgene.2024.1249751

3,885 views
2 citations

Review

Published on 14 Mar 2024

Intelligent computation in cancer gene therapy

in Computational Genomics

Roee Samuel
Ramez Daniel

Frontiers in Genetics

doi 10.3389/fgene.2024.1252246

3,903 views
3 citations

Original Research

Published on 13 Mar 2024

PCGIMA: developing the web server for human position-defined CpG islands methylation analysis

in Computational Genomics

Ming Xiao
Yi Xiao
Jun Yu
Le Zhang

Frontiers in Genetics

doi 10.3389/fgene.2024.1367731

3,145 views
2 citations

Original Research

Published on 05 Mar 2024

Flexible gold standards for transcription factor regulatory interactions in Escherichia coli K-12: architecture of evidence types

in Computational Genomics

Paloma Lara
Socorro Gama-Castro
Heladia Salgado
Claire Rioualen
Víctor H. Tierrafría
Luis J. Muñiz-Rascado
César Bonavides-Martínez
Julio Collado-Vides

Frontiers in Genetics

doi 10.3389/fgene.2024.1353553

2,444 views
2 citations

Original Research

Published on 01 Mar 2024

Finding potential lncRNA–disease associations using a boosting-based ensemble learning model

in Computational Genomics

Liqian Zhou
Xinhuai Peng
Lijun Zeng
Lihong Peng

Frontiers in Genetics

doi 10.3389/fgene.2024.1356205

3,293 views
13 citations

Original Research

Published on 29 Feb 2024

ACPPfel: Explainable deep ensemble learning for anticancer peptides prediction based on feature optimization

in Computational Genomics

Mingyou Liu
Tao Wu
Xue Li
Yingxue Zhu
Sen Chen
Jian Huang
Fengfeng Zhou
Hongmei Liu

Frontiers in Genetics

doi 10.3389/fgene.2024.1352504

4,307 views
15 citations

Original Research

Published on 29 Feb 2024

Establishment and analysis of artificial neural network diagnosis model for coagulation-related molecular subgroups in coronary artery disease

in Computational Genomics

Biwei Zheng
Yujing Li
Guoliang Xiong

Frontiers in Genetics

doi 10.3389/fgene.2024.1351774

2,204 views

Mini Review

Published on 28 Feb 2024

Mechanistic causes of sign epistasis and its applications

in Computational Genomics

Jinqiu Zhang
Feiyu Chen
Xianghua Li

Frontiers in Genetics

doi 10.3389/fgene.2024.1366917

4,533 views
9 citations

Original Research

Published on 23 Feb 2024

DeepCBS: shedding light on the impact of mutations occurring at CTCF binding sites

in Computational Genomics

Yiheng Wang
Xingli Guo
Zhixin Niu
Xiaotai Huang
Bingbo Wang
Lin Gao

Frontiers in Genetics

doi 10.3389/fgene.2024.1354208

3,777 views
1 citation

2,424 articles

articles

MIFAM-DTI: a drug-target interactions predicting model based on multi-source information fusion and attention mechanism

In search of the ratio of miRNA expression as robust biomarkers for constructing stable diagnostic models among multi-center data

Predict lncRNA-drug associations based on graph neural network

Bayesian hidden mark interaction model for detecting spatially variable genes in imaging-based spatially resolved transcriptomics data

A multi-organization epigenetic age prediction based on a channel attention perceptron networks

SVhawkeye: an ultra-fast software for user-friendly visualization of targeted structural fragments from BAM files

Single-cell and bulk RNAseq unveils the immune infiltration landscape and targeted therapeutic biomarkers of psoriasis

Identification of common genes and pathways between type 2 diabetes and COVID-19

iDNA-OpenPrompt: OpenPrompt learning model for identifying DNA methylation

OGNNMDA: a computational model for microbe-drug association prediction based on ordered message-passing graph neural networks

Critical gene signature and immunological characterization in peripheral vascular atherosclerosis: novel insights from mendelian randomization and transcriptomics

Unveiling the hub genes in the SIGLECs family in colon adenocarcinoma with machine learning

TMBcalc: a computational pipeline for identifying pan-cancer Tumor Mutational Burden gene signatures

Analysis of weighted gene co-expression networks and clinical validation identify hub genes and immune cell infiltration in the endometrial cells of patients with recurrent implantation failure

Automated recognition of chromosome fusion using an alignment-free natural vector method

Transcriptome profiling and analysis of patients with esophageal squamous cell carcinoma from Kazakhstan

Intelligent computation in cancer gene therapy

PCGIMA: developing the web server for human position-defined CpG islands methylation analysis

Flexible gold standards for transcription factor regulatory interactions in Escherichia coli K-12: architecture of evidence types

Finding potential lncRNA–disease associations using a boosting-based ensemble learning model

ACPPfel: Explainable deep ensemble learning for anticancer peptides prediction based on feature optimization

Establishment and analysis of artificial neural network diagnosis model for coagulation-related molecular subgroups in coronary artery disease

Mechanistic causes of sign epistasis and its applications

DeepCBS: shedding light on the impact of mutations occurring at CTCF binding sites