Frontiers in Bioinformatics

Original Research

Published on 19 Sep 2025

Interpretable artificial intelligence based on immunoregulation-related genes predicts prognosis and immunotherapy response in lung adenocarcinoma

in Genomic Analysis

Minghao Wang
Yu Wang
Yitong Li
Chengyi Zhang
Canjun Li
Nan Bi

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1613761

432 views

Original Research

Published on 19 Sep 2025

Identification and therapeutic investigation of biomarker genes underpinning hepatocellular carcinoma: an in silico study utilising molecular docking and dynamics simulation

in Integrative Bioinformatics

Jishnu Ghosh
Abdullah M. Alshahrani
Aritra Palodhi
Debarghya Bhattacharyya
Subhadip Das
Sunil Kanti Mondal
Abul Kalam
S. Rehan Ahmad
Chittabrata Mal

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1567748

397 views

Original Research

Published on 19 Sep 2025

Integrated multi-optosis model for pan-cancer candidate biomarker and therapy target discovery

in Integrative Bioinformatics

Emanuell Rodrigues de Souza
Higor Almeida Cordeiro Nogueira
Ronaldo da Silva Francisco Junior
Ana Beatriz Garcia
Enrique Medina-Acosta

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1630518

369 views

Original Research

Accepted on 18 Sep 2025

Discovering molecules and plants with potential activity against gastric cancer: an in silico ensemble-based modeling analysis

in Drug Discovery in Bioinformatics

Micaela Villacrés
Alec Avila
Karina Jimenes-Vargas
António Machado
José M. Alvarez-Suarez
Eduardo Tejera

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1642039

Methods

Published on 18 Sep 2025

Quantitative measures to assess the quality of cellular indexing of transcriptomes and epitopes by sequencing data

in Single Cell Bioinformatics

Jie Sun
Robert Morrison
Soyeon Kim
Kairuo Yan
Hyun Jung Park

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1630161

1,307 views

Original Research

Published on 18 Sep 2025

BC-predict: mining of signal biomarkers and production of models for early-stage breast cancer subtyping and prognosis

in Integrative Bioinformatics

Sangeetha Muthamilselvan
Natarajan Vaithilingam
Ashok Palaniappan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1644695

453 views

Original Research

Published on 18 Sep 2025

Key genes associated with brain metastasis in non-small cell lung cancer: novel insights from bioinformatics analysis

in Integrative Bioinformatics

Shuang Zhao
He Zhang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1625664

397 views

Brief Research Report

Accepted on 16 Sep 2025

Optimizing Clustering of CDR3 Sequences Using Natural Language Processing, Word2Vec, and KMeans

in Integrative Bioinformatics

Sanskriti Baranwal
Ricardo Avila Sanchez
Clement-Andi Edet
Erick J Chastain
Inimary Toby-Ogundeji

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1623488

160 views

Original Research

Published on 16 Sep 2025

Drug discovery for chemotherapeutic resistance based on pathway-responsive gene sets and its application in breast cancer

in Drug Discovery in Bioinformatics

Dehua Feng
Jingwen Hao
Lingxu Li
Jian Chen
Xinying Liu
Ruijie Zhang
Huirui Han
Tianyi Li
Xuefeng Wang
Xia Li

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1661601

479 views

Original Research

Published on 15 Sep 2025

Discovering biomarkers for chronic sinusitis with nasal polyps: a study integrating bioinformatics analysis and experimental validation of macrophage polarization and metabolism-related genes

in Network Bioinformatics

Juan Zhou
Huan Wang
Jin Wang
Fuming Zhou

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1613136

496 views

Original Research

Accepted on 10 Sep 2025

Computational drug repurposing reveals Alectinib as a potential lead targeting Cathepsin S for therapeutic developments against cancer and chronic pain

in Drug Discovery in Bioinformatics

Mohammed Alrouji
Mohammed S Alshammari
Sharif Alhajlah
Syed Tasqeeruddin
Dinislam Khuzin
Anas Shamsi
Saleha Anwar

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1666573

221 views

Original Research

Published on 10 Sep 2025

Single-cell splicing QTL analysis in pancreatic islets

in Genomic Analysis

Jae-Won Cho
Jingyi Cao
Martin Hemberg

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1657895

266 views

Technology and Code

Published on 08 Sep 2025

PharmacoForge: pharmacophore generation with diffusion models

in Drug Discovery in Bioinformatics

Emma L. Flynn
Riya Shah
Ian Dunn
Rishal Aggarwal
David Ryan Koes

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1628800

702 views

FAIR² Data

Published on 08 Sep 2025

Structure-based prediction of SARS-CoV-2 variant properties using machine learning on mutational neighborhoods

in Integrative Bioinformatics

Max van den Boom
Erik Schultes
Thomas Hankemeier

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1634111

1,283 views

Technology and Code

Published on 05 Sep 2025

TCRscape: a single-cell multi-omic TCR profiling toolkit

in Single Cell Bioinformatics

Roman Perik-Zavodskii
Olga Perik-Zavodskaia
Marina Volynets
Saleh Alrhmoun
Sergey Sennikov

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1641491

869 views

Technology and Code

Published on 05 Sep 2025

An image analysis pipeline to quantify the spatial distribution of cell markers in stroma-rich tumors

in Computational BioImaging

Antoine A. Ruzette
Nina Kozlova
Kayla A. Cruz
Taru Muranen
Simon F. Nørrelykke

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1619790

529 views