Frontiers in Bioinformatics

Original Research

Published on 01 Sep 2023

The origin of eukaryotes and rise in complexity were synchronous with the rise in oxygen

in Evolutionary Bioinformatics

Jack M. Craig
Sudhir Kumar
S. Blair Hedges

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1233281

6,339 views
8 citations

Editorial

Published on 21 Aug 2023

Editorial: Insights in integrative bioinformatics–2021

in Integrative Bioinformatics

Zhi-Ping Liu

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1267370

1,007 views

Original Research

Published on 17 Aug 2023

Improved prediction of MHC-peptide binding using protein language models

in Protein Bioinformatics

Nasser Hashemi
Boran Hao
Mikhail Ignatov
Ioannis Ch. Paschalidis
Pirooz Vakili
Sandor Vajda
Dima Kozakov

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1207380

6,468 views
12 citations

Methods

Published on 10 Aug 2023

Orthogonal outlier detection and dimension estimation for improved MDS embedding of biological datasets

in Single Cell Bioinformatics

Wanxin Li
Jules Mirone
Ashok Prasad
Nina Miolane
Carine Legrand
Khanh Dao Duc

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1211819

1,570 views

Review

Published on 04 Aug 2023

Omics data integration in computational biology viewed through the prism of machine learning paradigms

in Integrative Bioinformatics

Aziz Fouché
Andrei Zinovyev

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1191961

4,678 views
3 citations

Editorial

Published on 04 Aug 2023

Editorial: Transparent machine learning in bio-medicine

in Integrative Bioinformatics

Juan G. Diaz Ochoa
André Marquardt

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1264803

1,495 views
1 citation

Methods

Published on 04 Aug 2023

Optimizing Voronoi-based quantifications for reaching interactive analysis of 3D localizations in the million range

in Computational BioImaging

Florian Levet

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1249291

2,281 views
2 citations

Opinion

Published on 04 Aug 2023

Better research software tools to elevate the rate of scientific discovery or why we need to invest in research software engineering

in Computational BioImaging

Joran Deschamps
Damian Dalle Nogare
Florian Jug

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1255159

1,902 views
5 citations

Methods

Published on 03 Aug 2023

Molecular timetrees using relaxed clocks and uncertain phylogenies

in Evolutionary Bioinformatics

Jose Barba-Montoya
Sudip Sharma
Sudhir Kumar

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1225807

2,713 views
3 citations

Original Research

Published on 02 Aug 2023

XMR: an explainable multimodal neural network for drug response prediction

in Computational BioImaging

Zihao Wang
Yun Zhou
Yu Zhang
Yu K. Mo
Yijie Wang

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1164482

3,480 views
6 citations

Original Research

Published on 27 Jul 2023

3′ RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism

in Integrative Bioinformatics

Ryan S. McClure
Yvonne Rericha
Katrina M. Waters
Robyn L. Tanguay

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1234218

2,691 views
2 citations

Original Research

Published on 27 Jul 2023

Optimal ranking and directional signature classification using the integral strategy of multi-objective optimization-based association rule mining of multi-omics data

in Integrative Bioinformatics

Saurav Mallik
Soumita Seth
Amalendu Si
Tapas Bhadra
Zhongming Zhao

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1182176

1,686 views
1 citation

Perspective

Published on 27 Jul 2023

Current successes and remaining challenges in protein function prediction

in Protein Bioinformatics

Constance J. Jeffery

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1222182

4,660 views
15 citations

Review

Published on 26 Jul 2023

A review on deep learning applications in highly multiplexed tissue imaging data analysis

in Computational BioImaging

Mohammed Zidane
Ahmad Makky
Matthias Bruhns
Alexander Rochwarger
Sepideh Babaei
Manfred Claassen
Christian M. Schürch

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1159381

7,356 views
17 citations

Perspective

Published on 26 Jul 2023

Digital staining facilitates biomedical microscopy

in Computational BioImaging

Michael John Fanous
Nir Pillar
Aydogan Ozcan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1243663

3,110 views
6 citations

Perspective

Published on 25 Jul 2023

Moving beyond the desktop: prospects for practical bioimage analysis via the web

in Computational BioImaging

Wei Ouyang
Kevin W. Eliceiri
Beth A. Cimini

Frontiers in Bioinformatics

doi 10.3389/fbinf.2023.1233748

2,827 views
7 citations