Frontiers in Bioinformatics

Technology and Code

Published on 16 Aug 2024

A layout framework for genome-wide multiple sequence alignment graphs

Jeremias Schebera
Dirk Zeckzer
Daniel Wiegreffe

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1358374

2,459 views

Original Research

Published on 09 Aug 2024

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

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1428539

7,834 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

Tim Muruvanda
Hugh Rand
James Pettengill
Arthur Pightling

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1415078

2,267 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)

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1470107

1,989 views

Editorial

Published on 09 Aug 2024

Editorial: Machine learning approaches to antimicrobials: discovery and resistance

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1458237

3,452 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

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

4,389 views
6 citations

Original Research

Published on 25 Jul 2024

A hybrid approach for predicting transcription factors

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1425419

3,455 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

Jiquan Shen
Xuanhui Guo
Hanwen Bai
Junwei Luo

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1403826

2,406 views
2 citations

Original Research

Published on 10 Jul 2024

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

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

3,662 views
6 citations

Original Research

Published on 08 Jul 2024

Network analysis of driver genes in human cancers

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1365200

4,051 views
3 citations

Mini Review

Published on 08 Jul 2024

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

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1417428

11,203 views
17 citations

Review

Published on 03 Jul 2024

DNA structural features and variability of complete MHC locus sequences

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1392613

5,260 views
6 citations

Original Research

Published on 01 Jul 2024

Maximum-scoring path sets on pangenome graphs of constant treewidth

Broňa Brejová
Travis Gagie
Eva Herencsárová
Tomáš Vinař

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1391086

2,235 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

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

2,834 views
1 citation

Perspective

Published on 20 Jun 2024

Bioinformatics proficiency among African students

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

4,472 views
1 citation

Original Research

Published on 19 Jun 2024

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

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1390607

6,495 views
15 citations

Original Research

Published on 24 May 2024

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

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

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1397968

4,334 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

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

4,417 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

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

4,199 views
4 citations

Original Research

Published on 14 May 2024

Pathway-based analyses of gene expression profiles at low doses of ionizing radiation

Xihaier Luo
Seyednami Niyakan
Patrick Johnstone
Sean McCorkle
Gilchan Park
Vanessa López-Marrero
Shinjae Yoo
Edward R. Dougherty
Xiaoning Qian
Francis J. Alexander

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1280971

6,019 views
4 citations

Editorial

Published on 03 May 2024

Editorial: Computational methods for analysis of DNA methylation data, volume II

Pietro Di Lena
Christine Nardini
Matteo Pellegrini

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1415791

1,663 views

Original Research

Published on 16 Apr 2024

PAGER-scFGA: unveiling cell functions and molecular mechanisms in cell trajectories through single-cell functional genomics analysis

Fengyuan Huang
Robert S. Welner
Jake Y. Chen
Zongliang Yue

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1336135

3,379 views
1 citation

Review

Published on 11 Apr 2024

From complex data to clear insights: visualizing molecular dynamics trajectories

Hayet Belghit
Mariano Spivak
Manuel Dauchez
Marc Baaden
Jessica Jonquet-Prevoteau

Frontiers in Bioinformatics

doi 10.3389/fbinf.2024.1356659

11,029 views
8 citations

606 Publications

volumes

Volume 4 - 2024

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

Network analysis of driver genes in human cancers

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

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

Pathway-based analyses of gene expression profiles at low doses of ionizing radiation

Editorial: Computational methods for analysis of DNA methylation data, volume II

PAGER-scFGA: unveiling cell functions and molecular mechanisms in cell trajectories through single-cell functional genomics analysis

From complex data to clear insights: visualizing molecular dynamics trajectories

Volume 3 - 2023

Prediction of polyspecificity from antibody sequence data by machine learning