Frontiers in Bioinformatics

Original Research

Published on 06 Sep 2024

Molecular docking and molecular dynamic simulation studies to identify potential terpenes against Internalin A protein of Listeria monocytogenes

in Drug Discovery in Bioinformatics

Deepasree K
Subhashree Venugopal

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1463750

6,395 views
9 citations

Review

Published on 04 Sep 2024

PhIP-Seq: methods, applications and challenges

in Protein Bioinformatics

Ziru Huang
Samarappuli Mudiyanselage Savini Gunarathne
Wenwen Liu
Yuwei Zhou
Yuqing Jiang
Shiqi Li
Jian Huang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1424202

15,627 views
5 citations

Brief Research Report

Published on 02 Sep 2024

Rvisdiff: An R package for interactive visualization of differential expression

in Data Visualization

David Barrios
Carlos Prieto

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1349205

2,778 views
2 citations

Original Research

Published on 28 Aug 2024

Rhizobium etli CFN42 and Sinorhizobium meliloti 1021 bioinformatic transcriptional regulatory networks from culture and symbiosis

in Network Bioinformatics

Hermenegildo Taboada-Castro
Alfredo José Hernández-Álvarez
Juan Miguel Escorcia-Rodríguez
Julio Augusto Freyre-González
Edgardo Galán-Vásquez
Sergio Encarnación-Guevara

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1419274

3,510 views

Perspective

Published on 21 Aug 2024

Design principles for molecular animation

in Data Visualization

Stuart G. Jantzen
Gaël McGill
Jodie Jenkinson

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1353807

4,866 views
2 citations

Technology and Code

Published on 16 Aug 2024

A layout framework for genome-wide multiple sequence alignment graphs

in Network Bioinformatics

Jeremias Schebera
Dirk Zeckzer
Daniel Wiegreffe

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1358374

2,556 views

Original Research

Published on 09 Aug 2024

In silico studies of benzothiazole derivatives as potential inhibitors of Anopheles funestus and Anopheles gambiae trehalase

in Drug Discovery in Bioinformatics

Temitope A. Ogunnupebi
Gbolahan O. Oduselu
Oluwadunni F. Elebiju
Olayinka O. Ajani
Ezekiel Adebiyi

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1428539

7,869 views
3 citations

Technology and Code

Published on 09 Aug 2024

RIPS (rapid intuitive pathogen surveillance): a tool for surveillance of genome sequence data from foodborne bacterial pathogens

in Data Visualization

Tim Muruvanda
Hugh Rand
James Pettengill
Arthur Pightling

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1415078

2,296 views
1 citation

Editorial

Published on 09 Aug 2024

Editorial: Big data and artificial intelligence for genomics and therapeutics – Proceedings of the 19th Annual Meeting of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS)

in Integrative Bioinformatics

Huixiao Hong
Inimary Toby-Ogundeji
Robert J. Doerksen
Zhaohui Steve Qin

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1470107

2,009 views

Editorial

Published on 09 Aug 2024

Editorial: Machine learning approaches to antimicrobials: discovery and resistance

in Drug Discovery in Bioinformatics

Shira L. Broschat
Shirley W. I. Siu
Cesar de la Fuente-Nunez

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1458237

3,469 views
2 citations

Original Research

Published on 26 Jul 2024

Predictive identification and design of potent inhibitors targeting resistance-inducing candidate genes from E. coli whole-genome sequences

in Integrative Bioinformatics

Abdullahi Tunde Aborode
Neeraj Kumar
Christopher Busayo Olowosoke
Tope Abraham Ibisanmi
Islamiyyah Ayoade
Haruna Isiyaku Umar
Abdullahi Temitope Jamiu
Basit Bolarinwa
Zainab Olapade
Abidemi Ruth Idowu

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1411935

4,449 views
6 citations

Original Research

Published on 25 Jul 2024

A hybrid approach for predicting transcription factors

in Protein Bioinformatics

Sumeet Patiyal
Palak Tiwari
Mohit Ghai
Aman Dhapola
Anjali Dhall
Gajendra P. S. Raghava

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1425419

3,503 views
3 citations

Original Research

Published on 15 Jul 2024

CAEM-GBDT: a cancer subtype identifying method using multi-omics data and convolutional autoencoder network

in Integrative Bioinformatics

Jiquan Shen
Xuanhui Guo
Hanwen Bai
Junwei Luo

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1403826

2,444 views
2 citations

Original Research

Published on 10 Jul 2024

AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters

in Evolutionary Bioinformatics

Steven Weaver
Vanessa M. Dávila Conn
Daniel Ji
Hannah Verdonk
Santiago Ávila-Ríos
Andrew J. Leigh Brown
Joel O. Wertheim
Sergei L. Kosakovsky Pond

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1400003

3,705 views
6 citations

Mini Review

Published on 08 Jul 2024

A systematic overview of single-cell transcriptomics databases, their use cases, and limitations

in Single Cell Bioinformatics

Mahnoor N. Gondal
Saad Ur Rehman Shah
Arul M. Chinnaiyan
Marcin Cieslik

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1417428

11,291 views
17 citations

Original Research

Published on 08 Jul 2024

Network analysis of driver genes in human cancers

in Network Bioinformatics

Shruti S. Patil
Steven A. Roberts
Assefaw H. Gebremedhin

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1365200

4,163 views
3 citations

Review

Published on 03 Jul 2024

DNA structural features and variability of complete MHC locus sequences

in Genomic Analysis

Trudy M. Wassenaar
Terry Harville
Jonathan Chastain
Visanu Wanchai
David W. Ussery

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1392613

5,358 views
6 citations

Original Research

Published on 01 Jul 2024

Maximum-scoring path sets on pangenome graphs of constant treewidth

in Genomic Analysis

Broňa Brejová
Travis Gagie
Eva Herencsárová
Tomáš Vinař

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1391086

2,254 views

Original Research

Published on 24 Jun 2024

The evolution of mammalian Rem2: unraveling the impact of purifying selection and coevolution on protein function, and implications for human disorders

in Evolutionary Bioinformatics

Alexander G. Lucaci
William E. Brew
Jason Lamanna
Avery Selberg
Vincenzo Carnevale
Anna R. Moore
Sergei L. Kosakovsky Pond

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1381540

2,851 views
1 citation

Perspective

Published on 20 Jun 2024

Bioinformatics proficiency among African students

in Protein Bioinformatics

Ashraf Akintayo Akintola
Abdullahi Tunde Aborode
Muhammed Taofiq Hamza
Augustine Amakiri
Benjamin Moore
Suliat Abdulai
Oluyinka Ajibola Iyiola
Lateef Adegboyega Sulaimon
Effiong Effiong
Adedeji Ogunyemi

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1328714

4,496 views
1 citation

Original Research

Published on 19 Jun 2024

A comprehensive multi-omics analysis reveals unique signatures to predict Alzheimer’s disease

in Integrative Bioinformatics

Michael Vacher
Rodrigo Canovas
Simon M. Laws
James D. Doecke

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1390607

6,549 views
15 citations

Original Research

Published on 24 May 2024

Human cytokine and coronavirus nucleocapsid protein interactivity using large-scale virtual screens

in Protein Bioinformatics

Phillip J. Tomezsko
Colby T. Ford
Avery E. Meyer
Adam M. Michaleas
Rafael Jaimes

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1397968

4,377 views
12 citations

Original Research

Published on 24 May 2024

Effects of highly active antiretroviral therapy initiation on epigenomic DNA methylation in persons living with HIV

in Genomic Analysis

Joshua Zhang
Mary E. Sehl
Roger Shih
Elizabeth Crabb Breen
Fengxue Li
Ake T. Lu
Jay H. Bream
Priya Duggal
Jeremy Martinson
Steven M. Wolinsky

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1357889

4,438 views
5 citations

Original Research

Published on 24 May 2024

Decreased but persistent epigenetic age acceleration is associated with changes in T-cell subsets after initiation of highly active antiretroviral therapy in persons living with HIV

in Genomic Analysis

Mary E. Sehl
Elizabeth Crabb Breen
Roger Shih
Fengxue Li
Joshua Zhang
Peter Langfelder
Steve Horvath
Jay H. Bream
Priya Duggal
Jeremy Martinson

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1356509

4,223 views
5 citations

611 articles

articles

Molecular docking and molecular dynamic simulation studies to identify potential terpenes against Internalin A protein of Listeria monocytogenes

PhIP-Seq: methods, applications and challenges

Rvisdiff: An R package for interactive visualization of differential expression

Rhizobium etli CFN42 and Sinorhizobium meliloti 1021 bioinformatic transcriptional regulatory networks from culture and symbiosis

Design principles for molecular animation

A layout framework for genome-wide multiple sequence alignment graphs

In silico studies of benzothiazole derivatives as potential inhibitors of Anopheles funestus and Anopheles gambiae trehalase

RIPS (rapid intuitive pathogen surveillance): a tool for surveillance of genome sequence data from foodborne bacterial pathogens

Editorial: Big data and artificial intelligence for genomics and therapeutics – Proceedings of the 19th Annual Meeting of the MidSouth Computational Biology and Bioinformatics Society (MCBIOS)

Editorial: Machine learning approaches to antimicrobials: discovery and resistance

Predictive identification and design of potent inhibitors targeting resistance-inducing candidate genes from E. coli whole-genome sequences

A hybrid approach for predicting transcription factors

CAEM-GBDT: a cancer subtype identifying method using multi-omics data and convolutional autoencoder network

AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters

A systematic overview of single-cell transcriptomics databases, their use cases, and limitations

Network analysis of driver genes in human cancers

DNA structural features and variability of complete MHC locus sequences

Maximum-scoring path sets on pangenome graphs of constant treewidth

The evolution of mammalian Rem2: unraveling the impact of purifying selection and coevolution on protein function, and implications for human disorders

Bioinformatics proficiency among African students

A comprehensive multi-omics analysis reveals unique signatures to predict Alzheimer’s disease

Human cytokine and coronavirus nucleocapsid protein interactivity using large-scale virtual screens

Effects of highly active antiretroviral therapy initiation on epigenomic DNA methylation in persons living with HIV

Decreased but persistent epigenetic age acceleration is associated with changes in T-cell subsets after initiation of highly active antiretroviral therapy in persons living with HIV