Frontiers in Bioinformatics

Review

Published on 27 Jan 2026

Applications of AI to single-cell and spatial transcriptomics: current state-of-the-art and challenges

in Single Cell Bioinformatics

Boris Tchatchoua Ngassam
Huilin Niu
Sunny Pang
Valeryia Shydlouskaya
Tallulah S. Andrews

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1715821

536 views

Original Research

Published on 27 Jan 2026

Protein embeddings reveal a continuous molecular landscape of host adaptation in waterfowl parvoviruses

in Evolutionary Bioinformatics

Nihui Shao
Yunfei Guo

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1738737

267 views

Original Research

Published on 27 Jan 2026

Identification and bioinformatics analysis of a novel member of the lumbrokinase gene family in earthworms

in Integrative Bioinformatics

Xiong Rongchuan
Li Jianhong
Liu Tingchang
Su Chengyuan
Chen Hong
Chen Zhengpeng
Tang Chaozhi
Zhao Xinxia

Frontiers in Bioinformatics

doi 10.3389/fbinf.2026.1736746

214 views

Original Research

Published on 21 Jan 2026

Cross-disease transcriptomic meta-analysis and network pharmacology reveal key therapeutic targets in rheumatoid arthritis, systemic lupus erythematosus and multiple sclerosis

in Integrative Bioinformatics

K. Lakshmi
Sundararajan Vino

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1744094

493 views

Technology and Code

Published on 21 Jan 2026

Deep learning software and revised 2D model to segment bone in micro-CT scans

in Computational BioImaging

Andrew H. Lee
Ganesh Talluri
Manan Damani
Brandon Vera Covarrubias
Helena Hanna
Jeremy Chavez
Julian M. Moore
Jacob Baradarian
Michael Molgaard
Beau Nielson

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1677527

634 views

Perspective

Accepted on 20 Jan 2026

From Signal Overload to Shared Insight: Creating and Structuring Scientific Visuals for Comprehension and Dialogue

in Data Visualization

Joost Bakker
Dirma Janse
Martijn van Overbruggen
Maarten van der Sanden

Frontiers in Bioinformatics

Original Research

Accepted on 19 Jan 2026

Boolean network and meshless simulations for the comparison of transport and reaction mechanisms arising in one-short tri-exponential and uniform infusion electro-chemotherapeutic treatments

in Integrative Bioinformatics

Fabián Mauricio Vélez Salazar
Iván David Patiño Arcila
Ismael E. Rivera Madrid
Marlon R. Fulla

Frontiers in Bioinformatics

Technology and Code

Published on 19 Jan 2026

TRANSAID: a hybrid deep learning framework for translation site prediction with integrated biological feature scoring

in RNA Bioinformatics

Yan Li
Boran Wang
Zhen Liu
Wei Wei
Caiyi Fei
Shi Xu
Tiyun Han
Wei Geng
Zengding Wu

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1676149

456 views

Methods

Accepted on 14 Jan 2026

Label-free TIMING: an Efficient, Reliable and Scalable AI workflow for Automated Profiling of Cell-cell interaction behaviors in Nanowell Arrays

in Computational BioImaging

Anuj S Todkar
Shyam Reddy Kotha
Lin Bai
Saikiran Mandula
Hannah Wilson
Daniel D Meyer
Rebecca Berdeaux
Badrinath Roysam
Navin Varadarajan

Frontiers in Bioinformatics

219 views

Original Research

Published on 14 Jan 2026

PreBP: an interpretable, optimized ensemble framework using routine complete blood count for rapid pathogen identification in bacterial pneumonia

in Integrative Bioinformatics

Xiaoxi Hao
Dingjian Liang
Yimin Shen
Cuimin Sun
Wei Lan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1769816

575 views

Original Research

Published on 14 Jan 2026

An integrated subtractive genomics and immunoinformatic approach for designing a multi-epitope peptide vaccine against methicillin-resistant Staphylococcus aureus

in Integrative Bioinformatics

Nandha Kumar Subramani
Subhashree Venugopal
Anand Prem Rajan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1745495

489 views

Original Research

Accepted on 12 Jan 2026

Benchmarking multiple gene ontology enrichment tools reveals high biological significance, ranking, and stringency heterogeneity among datasets

in Integrative Bioinformatics

Fábio Henrique Schuster De Oliveira
Felipe Acker Gomes
Bruno César Feltes

Frontiers in Bioinformatics

194 views

Original Research

Accepted on 12 Jan 2026

IRMKD: An Application of Instance Relation Matrix in Plant Disease Recognition

in Integrative Bioinformatics

Jinqing Huang
Jian Su
Tengfei Cheng

Frontiers in Bioinformatics

Original Research

Accepted on 12 Jan 2026

GPXplore: An Intelligent Computational Framework for Precise Gene Promoter Extraction

in Genomic Analysis

Samarth Godara
Shbana Begam
Anil Kumar Singh

Frontiers in Bioinformatics

114 views

Perspective

Accepted on 12 Jan 2026

Movement beyond data. Epistemic and pictorial challenges of understanding moving life

in Data Visualization

Janina Wellmann

Frontiers in Bioinformatics

104 views

Original Research

Published on 12 Jan 2026

REST missense mutations reveal disrupted Re1 motif binding and co-repressor interactions in uterine fibroids

in Genomic Analysis

Srineevas Sriram
Chandresh Palanichamy
P. T. Subash
Manshi Kumari Gupta
C. Sudandiradoss

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1703356

759 views

Original Research

Published on 12 Jan 2026

CIT kinase phosphorylation as significant regulatory node for cellular checkpoints

in Protein Bioinformatics

Jaytha Thomas
Fathimathul Lubaba
Mukhtar Ahmed
Althaf Mahin
Levin John
Athira Perunelly Gopalakrishnan
Suhail Subair
Prathik Basthikoppa Shivamurthy
Rajesh Raju
Sowmya Soman

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1734030

520 views

Original Research

Published on 12 Jan 2026

SpaLLM: a general framework for spatial domain identification with large language models

in Single Cell Bioinformatics

Zeyu Zou
Ziheng Duan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1713975

370 views

Original Research

Published on 12 Jan 2026

Integrative transcriptomic analysis reveals microglial metabolic-inflammatory crosstalk of HK2–HSPA5–TNF axis after intracerebral hemorrhage

in Single Cell Bioinformatics

Yi Zhang
Yongqian Liu
Wei Meng
Xiaobo Yu
Xiaojun Xu

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1740715

368 views

Original Research

Published on 12 Jan 2026

High-dimensional co-expression network analysis reveals persistent TRH gene expression throughout axolotl telencephalon regeneration

in Single Cell Bioinformatics

Iveth Gómez-Morales
Adriana P. Mendizabal-Ruiz
J. Alejandro Morales
Teresa Romero-Gutiérrez

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1697212

427 views

Review

Published on 12 Jan 2026

Recent trends in machine learning and deep learning-based prediction of G-protein coupled receptor-ligand binding affinities

in Drug Discovery in Bioinformatics

Joshua Stephenson
Konda Reddy Karnati

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1712577

819 views

Original Research

Accepted on 08 Jan 2026

Evaluating Transcriptomic Integration for Cyanobacterial Constraint-based Metabolic Modelling

in Integrative Bioinformatics

Thomas Pugsley
Guy Hanke
Christopher Duffy

Frontiers in Bioinformatics

159 views

Original Research

Accepted on 08 Jan 2026

Integrated Experimental and Computational Insights into the Anti-Inflammatory Potential of Flower-Derived Exosome-Like Nanoparticles Targeting the NF-κB Pathway

in Drug Discovery in Bioinformatics

Sreyoshi Routh
Venkatraman Manickam

Frontiers in Bioinformatics

211 views

Original Research

Published on 08 Jan 2026

KG2ML: integrating knowledge graphs and positive unlabeled learning for identifying disease-associated genes

in Drug Discovery in Bioinformatics

Praveen Kumar
Vincent T. Metzger
Swastika T. Purushotham
Priyansh Kedia
Cristian G. Bologa
Christophe G. Lambert
Jeremy J. Yang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1727953

577 views