Frontiers in Bioinformatics

Original Research

Published on 17 Jun 2025

Utility of regional STR marker variations in Tunisian and sub-Saharan populations: insights into forensic and population genetics

Asma Attaoui
Hajer Foddha
Houcemeddine Othman
Hassen Ben Abdennebi
Amel Haj Khelil

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1550730

420 views

Original Research

Published on 11 Jun 2025

Optimization of clustering parameters for single-cell RNA analysis using intrinsic goodness metrics

Nicolina Sciaraffa
Antonino Gagliano
Luigi Augugliaro
Claudia Coronnello

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1562410

732 views

Original Research

Published on 09 Jun 2025

TICTAC: target illumination clinical trial analytics with cheminformatics

Jeremiah I. Abok
Jeremy S. Edwards
Jeremy J. Yang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1579865

751 views

Brief Research Report

Published on 06 Jun 2025

Interactive visualization of large molecular systems with VTX: example with a minimal whole-cell model

Maxime Maria
Valentin Guillaume
Simon Guionnière
Nicolas Dacquay
Cyprien Plateau–Holleville
Vincent Larroque
Jean Lardé
Yassine Naimi
Jean-Philip Piquemal
Guillaume Levieux

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1588661

1,200 views

Technology and Code

Published on 06 Jun 2025

DeepPredict: a state-of-the-art web server for protein secondary structure and relative solvent accessibility prediction

Wafa Alanazi
Di Meng
Gianluca Pollastri

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1607402

893 views

Original Research

Accepted on 30 May 2025

Design of cross-reactive antigens with machine learning and high-throughput experimental evaluation

Chelsy Chesterman
Thomas Desautels
Luz-Jeannette Sierra
Kathryn Arrildt
Adam Zemla
Edmond Lau
Shivshankar Sundaram
Jason Laliberte
Lynn Chen
Aaron Ruby

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1580967

262 views

Perspective

Published on 30 May 2025

Trail-blazing and keeping pace: building, retaining and expanding image analysis expertise

David Kirchenbuechler
Mariana De Niz
Constadina Arvanitis

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1613866

750 views

Original Research

Published on 29 May 2025

In silico analysis of Triphala-derived polyphenols as inhibitors of TIR–TIR homodimerization in the inflammatory pathway

Durgadevi Rajendran
Nalini Easwaran

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1565700

1,152 views

Original Research

Published on 29 May 2025

Bridging the gap between hepatocellular carcinoma management guidelines and personalised medicine: a Bayesian network study

Yi-Chun Wang
Daniel Bulte
Michael Brady

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1574797

683 views

Brief Research Report

Published on 26 May 2025

Quality over quantity: how to get the best results when using docking for repurposing

Lenin Domínguez-Ramírez
Maricruz Anaya-Ruiz
Paulina Cortés-Hernández

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1536504

1,144 views

Original Research

Published on 26 May 2025

CytoLNCpred-a computational method for predicting cytoplasm associated long non-coding RNAs in 15 cell-lines

Shubham Choudhury
Naman Kumar Mehta
Gajendra P. S. Raghava

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1585794

881 views

Brief Research Report

Published on 22 May 2025

MORE-RNAseq: a pipeline for quantifying retrotransposition-capable LINE1 expression based on RNA-seq data

Yutaka Nakachi
Jianbin Du
Risa Watanabe
Yutaro Yanagida
Miki Bundo
Kazuya Iwamoto

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1575346

1,101 views

Original Research

Published on 19 May 2025

Integrative multi-omics study identifies sex-specific molecular signatures and immune modulation in bladder cancer

Yizhou Wang
Priyanka Bhandary
Kevin Griffin
Jason H. Moore
Xue Li
Zhiping Paul Wang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1575790

1,480 views

Original Research

Accepted on 13 May 2025

NeSyDPP4-QSAR: Discovering DPP-4 Inhibitors for Diabetes Treatment with a Neuro-symbolic AI Approach

Delower Hossain
Ehsan Saghapour
Jake Y Chen

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1603133

386 views

Original Research

Published on 13 May 2025

Exploiting subtractive genomics to identify novel drug targets and new immunogenic candidates against Bordetella pertussis: an in silico study

Mahshid Khazani Asforooshani
Narjes Noori Goodarzi
Behzad Shahbazi
Nayereh Rezaie Rahimi
Kimia Mahdavian
Mahdi Rohani
Farzad Badmasti

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1570054

1,225 views

Technology and Code

Published on 08 May 2025

micRoclean: an R package for decontaminating low-biomass 16S-rRNA microbiome data

Rachel Griffard-Smith
Emily Schueddig
Diane E. Mahoney
Prabhakar Chalise
Devin C. Koestler
Dong Pei

Frontiers in Bioinformatics

doi 10.3389/fbinf.2025.1556361

1,050 views

469 Publications

Volume 5 - 2025

Utility of regional STR marker variations in Tunisian and sub-Saharan populations: insights into forensic and population genetics

Optimization of clustering parameters for single-cell RNA analysis using intrinsic goodness metrics

TICTAC: target illumination clinical trial analytics with cheminformatics

Interactive visualization of large molecular systems with VTX: example with a minimal whole-cell model

DeepPredict: a state-of-the-art web server for protein secondary structure and relative solvent accessibility prediction

Design of cross-reactive antigens with machine learning and high-throughput experimental evaluation

Trail-blazing and keeping pace: building, retaining and expanding image analysis expertise

In silico analysis of Triphala-derived polyphenols as inhibitors of TIR–TIR homodimerization in the inflammatory pathway

Bridging the gap between hepatocellular carcinoma management guidelines and personalised medicine: a Bayesian network study

Quality over quantity: how to get the best results when using docking for repurposing

CytoLNCpred-a computational method for predicting cytoplasm associated long non-coding RNAs in 15 cell-lines

MORE-RNAseq: a pipeline for quantifying retrotransposition-capable LINE1 expression based on RNA-seq data

Integrative multi-omics study identifies sex-specific molecular signatures and immune modulation in bladder cancer

NeSyDPP4-QSAR: Discovering DPP-4 Inhibitors for Diabetes Treatment with a Neuro-symbolic AI Approach

Exploiting subtractive genomics to identify novel drug targets and new immunogenic candidates against Bordetella pertussis: an in silico study

micRoclean: an R package for decontaminating low-biomass 16S-rRNA microbiome data