Frontiers in Genetics | Computational Genomics

Original Research

Published on 29 Nov 2024

Correlating gene expression levels with transcription factor binding sites facilitates identification of key transcription factors from transcriptome data

in Computational Genomics

Tinghua Huang
Siqi Niu
Fanghong Zhang
Binyu Wang
Jianwu Wang
Guoping Liu
Min Yao

Frontiers in Genetics

doi 10.3389/fgene.2024.1511456

1,081 views
1 citation

Original Research

Published on 25 Nov 2024

CAMDA 2023: Finding patterns in urban microbiomes

in Computational Genomics

Haydeé Contreras-Peruyero
Imanol Nuñez
Mirna Vazquez-Rosas-Landa
Daniel Santana-Quinteros
Antón Pashkov
Mario E. Carranza-Barragán
Rafael Perez-Estrada
Shaday Guerrero-Flores
Eugenio Balanzario
Víctor Muñiz Sánchez

Frontiers in Genetics

doi 10.3389/fgene.2024.1449461

1,379 views

Original Research

Published on 22 Nov 2024

GCRTcall: a transformer based basecaller for nanopore RNA sequencing enhanced by gated convolution and relative position embedding via joint loss training

in Computational Genomics

Qingwen Li
Chen Sun
Daqian Wang
Jizhong Lou

Frontiers in Genetics

doi 10.3389/fgene.2024.1443532

1,365 views
3 citations

Original Research

Published on 22 Nov 2024

asmbPLS: biomarker identification and patient survival prediction with multi-omics data

in Computational Genomics

Runzhi Zhang
Susmita Datta

Frontiers in Genetics

doi 10.3389/fgene.2024.1444054

1,041 views

Original Research

Published on 20 Nov 2024

Genome-wide identification and expression analysis of phosphate-sensing SPX proteins in oats

in Computational Genomics

Yinke Du
Jie Gong
Ziyi Dou
Wei Zheng
Renwei Sun
Shiqing Gao

Frontiers in Genetics

doi 10.3389/fgene.2024.1469704

1,295 views

Technology and Code

Published on 20 Nov 2024

DElite: a tool for integrated differential expression analysis

in Computational Genomics

Davide Baldazzi
Michele Doni
Beatrice Valenti
Maria Elena Ciuffetti
Stefano Pezzella
Roberta Maestro

Frontiers in Genetics

doi 10.3389/fgene.2024.1440994

1,521 views

Original Research

Published on 15 Nov 2024

Subtyping colorectal cancer based on septic shock-associated genes: prognosis and immune characteristics

in Computational Genomics

Jinkai Zhao
Jiaan Chen
Jiancheng Zhang
Xuming Pan
Buhai Xu
Jinli Miao
Wenmin Wang
Guangjun Jin

Frontiers in Genetics

doi 10.3389/fgene.2024.1468424

1,068 views

Original Research

Published on 14 Nov 2024

Multi-fusion strategy network-guided cancer subtypes discovering based on multi-omics data

in Computational Genomics

Jian Liu
Xinzheng Xue
Pengbo Wen
Qian Song
Jun Yao
Shuguang Ge

Frontiers in Genetics

doi 10.3389/fgene.2024.1466825

1,453 views
1 citation

Original Research

Published on 13 Nov 2024

Comprehensive analysis of molecular mechanisms underlying kidney stones: gene expression profiles and potential diagnostic markers

in Computational Genomics

Kaisaier Aji
Aierken Aikebaier
Asimujiang Abula
Guang Lu Song

Frontiers in Genetics

doi 10.3389/fgene.2024.1440774

1,721 views
1 citation

Review

Published on 13 Nov 2024

What are microsatellites and how to choose the best tool: a user-friendly review of SSR and 74 SSR mining tools

in Computational Genomics

Sandy Ingrid Aguiar Alves
Carlos Willian Dias Dantas
Daralyns Borges Macedo
Rommel Thiago Jucá Ramos

Frontiers in Genetics

doi 10.3389/fgene.2024.1474611

3,930 views
3 citations

Original Research

Published on 13 Nov 2024

Integrative analysis of single-cell transcriptomic and multilayer signaling networks in glioma reveal tumor progression stage

in Computational Genomics

Fereshteh Fallah Atanaki
Leila Mirsadeghi
Mohsen Riahi Manesh
Kaveh Kavousi

Frontiers in Genetics

doi 10.3389/fgene.2024.1446903

1,624 views
1 citation

Original Research

Published on 12 Nov 2024

PSATF-6mA: an integrated learning fusion feature-encoded DNA-6 mA methylcytosine modification site recognition model based on attentional mechanisms

in Computational Genomics

Yanmei Kang
Hongyuan Wang
Yubo Qin
Guanlin Liu
Yi Yu
Yongjian Zhang

Frontiers in Genetics

doi 10.3389/fgene.2024.1498884

737 views

Original Research

Published on 11 Nov 2024

AI-enabled pipeline for virus detection, validation, and SNP discovery from next-generation sequencing data

in Computational Genomics

Abozar Ghorbani
Mahsa Rostami
Pietro Hiram Guzzi

Frontiers in Genetics

doi 10.3389/fgene.2024.1492752

2,542 views
1 citation

Editorial

Published on 05 Nov 2024

Editorial: Emerging talents in computational genomics

in Computational Genomics

Junichi Iwata
Kenta Nakai

Frontiers in Genetics

doi 10.3389/fgene.2024.1512594

776 views

Original Research

Published on 05 Nov 2024

Genome-wide comparative analysis of photosynthetic enzymatic genes provides novel insights into foxtail millet and other cereals

in Computational Genomics

Arpit Raturi
Shivam Shekhar
Ratnesh Kumar Jha
Divya Chauhan
Saurabh Pandey
Sarita Kumari
Ashutosh Singh

Frontiers in Genetics

doi 10.3389/fgene.2024.1449113

1,428 views
1 citation

Original Research

Published on 29 Oct 2024

Number of human protein interactions correlates with structural, but not regulatory conservation of the respective genes

in Computational Genomics

Rijalda Mekic
Marianna A. Zolotovskaia
Maksim Sorokin
Tharaa Mohammad
Nina Shaban
Ivan Musatov
Victor Tkachev
Alexander Modestov
Alexander Simonov
Denis Kuzmin

Frontiers in Genetics

doi 10.3389/fgene.2024.1472638

1,522 views
1 citation