Frontiers in Bioinformatics

Original Research

Published on 14 Sep 2021

Differential Interactome Based Drug Repositioning Unraveled Abacavir, Exemestane, Nortriptyline Hydrochloride, and Tolcapone as Potential Therapeutics for Colorectal Cancers

Hande Beklen
Sema Arslan
Gizem Gulfidan
Beste Turanli
Pemra Ozbek
Betul Karademir Yilmaz
Kazim Yalcin Arga

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.710591

3,994 views
6 citations

Original Research

Published on 10 Sep 2021

NOBIAS: Analyzing Anomalous Diffusion in Single-Molecule Tracks With Nonparametric Bayesian Inference

Ziyuan Chen
Laurent Geffroy
Julie S. Biteen

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.742073

7,457 views
26 citations

Review

Published on 08 Sep 2021

Detecting Rewiring Events in Protein-Protein Interaction Networks Based on Transcriptomic Data

Markus Hollander
Trang Do
Thorsten Will
Volkhard Helms

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.724297

7,442 views
13 citations

Original Research

Published on 07 Sep 2021

From In-Person to the Online World: Insights Into Organizing Events in Bioinformatics

Alessandra Lima da Silva
Ana Paula de Abreu
Diego Mariano
Felipe Caixeta
Fenícia Brito Santos
Fernanda Stussi D. Lage
Gabriel Quintanilha-Peixoto
Heron. O. Hilário
Joicymara. S. Xavier
Lucio. R. Queiroz

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.711463

5,611 views
3 citations

Original Research

Published on 07 Sep 2021

Antibody Class(es) Predictor for Epitopes (AbCPE): A Multi-Label Classification Algorithm

Kiran Kadam
Noor Peerzada
Rajiv Karbhal
Sangeeta Sawant
Jayaraman Valadi
Urmila Kulkarni-Kale

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.709951

5,875 views
12 citations

Original Research

Published on 06 Sep 2021

Large-Scale Protein Interactions Prediction by Multiple Evidence Analysis Associated With an In-Silico Curation Strategy

Yasmmin Côrtes Martins
Artur Ziviani
Marisa Fabiana Nicolás
Ana Tereza Ribeiro de Vasconcelos

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.731345

6,306 views
4 citations

Original Research

Published on 03 Sep 2021

A Mechanistic Site-Of-Action Model: A Tool for Informing Right Target, Right Compound, And Right Dose for Therapeutic Antagonistic Antibody Programs

Georgi I. Kapitanov
Jeffrey R. Chabot
Jatin Narula
Mahua Roy
Hendrik Neubert
Joe Palandra
Vahid Farrokhi
Jay S. Johnson
Robert Webster
Hannah M. Jones

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.731340

7,725 views
5 citations

Original Research

Published on 30 Aug 2021

Mutation Edgotype Drives Fitness Effect in Human

Mohamed Ghadie
Yu Xia

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.690769

3,212 views
5 citations

Brief Research Report

Published on 30 Aug 2021

Protein Complex Organization Imposes Constraints on Proteome Dysregulation in Cancer

Gökçe Senger
Martin H. Schaefer

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.723482

2,920 views
5 citations

Technology and Code

Published on 25 Aug 2021

Peptimetric: Quantifying and Visualizing Differences in Peptidomic Data

Erik Hartman
Simon Mahdavi
Sven Kjellström
Artur Schmidtchen

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.722466

4,954 views
1 citation

Original Research

Published on 19 Aug 2021

Predicted B Cell Epitopes Highlight the Potential for COVID-19 to Drive Self-Reactive Immunity

Rhiane Moody
Kirsty L. Wilson
Jennifer C. Boer
Jessica K. Holien
Katie L. Flanagan
Anthony Jaworowski
Magdalena Plebanski

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.709533

7,336 views
18 citations

Original Research

Published on 16 Aug 2021

Short Tandem Repeats as a High-Resolution Marker for Capturing Recent Orangutan Population Evolution

Alina-Alexandra Voicu
Michael Krützen
Tugce Bilgin Sonay

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.695784

3,475 views
2 citations

Original Research

Published on 13 Aug 2021

Dynamic Solution Space Division-Based Methods for Calculating Reaction Deletion Strategies for Constraint-Based Metabolic Networks for Substance Production: DynCubeProd

Yier Ma
Takeyuki Tamura

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.716112

1,936 views
1 citation

Original Research

Published on 13 Aug 2021

Predicting the Effects of Drug Combinations Using Probabilistic Matrix Factorization

Ron Nafshi
Timothy R. Lezon

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.708815

5,787 views
11 citations

Original Research

Published on 12 Aug 2021

Quality Assessment of Protein Docking Models Based on Graph Neural Network

Ye Han
Fei He
Yongbing Chen
Wenyuan Qin
Helong Yu
Dong Xu

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.693211

3,882 views
9 citations

Original Research

Published on 19 Jul 2021

Identification of Biomarkers Controlling Cell Fate In Blood Cell Development

Maryam Nazarieh
Marc Hoeppner
Volkhard Helms

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.653054

3,163 views

Technology and Code

Published on 07 Jul 2021

EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data

Zoe Parker Cates
Antonio Facciuolo
Daniel Hogan
Philip J. Griebel
Scott Napper
Anthony J. Kusalik

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.694324

2,878 views
5 citations

Mini Review

Published on 06 Jul 2021

The Effect of Mutations in the TPR and Ankyrin Families of Alpha Solenoid Repeat Proteins

Matylda Anna Izert
Patrycja Emanuela Szybowska
Maria Wiktoria Górna
Matthew Merski

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.696368

4,461 views
3 citations

Technology and Code

Published on 25 Jun 2021

TRAL 2.0: Tandem Repeat Detection With Circular Profile Hidden Markov Models and Evolutionary Aligner

Matteo Delucchi
Paulina Näf
Spencer Bliven
Maria Anisimova

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.691865

7,062 views
16 citations

Original Research

Published on 24 Jun 2021

CoeViz 2: Protein Graphs Derived From Amino Acid Covariance

Daniel Corcoran
Nicholas Maltbie
Shivchander Sudalairaj
Frazier N. Baker
Joseph Hirschfeld
Aleksey Porollo

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.653681

8,520 views
7 citations

Original Research

Published on 18 Jun 2021

Centrality Measures in Residue Interaction Networks to Highlight Amino Acids in Protein–Protein Binding

Guillaume Brysbaert
Marc F. Lensink

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.684970

6,441 views
13 citations

Specialty Grand Challenge

Published on 17 Jun 2021

Grand Challenges in Bioinformatics Data Visualization

Seán I. O'Donoghue

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.669186

22,037 views
39 citations

Original Research

Published on 15 Jun 2021

COVID-19 Multi-Targeted Drug Repurposing Using Few-Shot Learning

Yang Liu
You Wu
Xiaoke Shen
Lei Xie

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.693177

5,012 views
27 citations

Brief Research Report

Published on 08 Jun 2021

N-Glycosylation Network Construction and Analysis to Modify Glycans on the Spike (S) Glycoprotein of SARS-CoV-2

Sridevi Krishnan
Giri P. Krishnan

Frontiers in Bioinformatics

doi 10.3389/fbinf.2021.667012

3,848 views
6 citations

85 Publications

volumes

Differential Interactome Based Drug Repositioning Unraveled Abacavir, Exemestane, Nortriptyline Hydrochloride, and Tolcapone as Potential Therapeutics for Colorectal Cancers

NOBIAS: Analyzing Anomalous Diffusion in Single-Molecule Tracks With Nonparametric Bayesian Inference

Detecting Rewiring Events in Protein-Protein Interaction Networks Based on Transcriptomic Data

From In-Person to the Online World: Insights Into Organizing Events in Bioinformatics

Antibody Class(es) Predictor for Epitopes (AbCPE): A Multi-Label Classification Algorithm

Large-Scale Protein Interactions Prediction by Multiple Evidence Analysis Associated With an In-Silico Curation Strategy

A Mechanistic Site-Of-Action Model: A Tool for Informing Right Target, Right Compound, And Right Dose for Therapeutic Antagonistic Antibody Programs

Mutation Edgotype Drives Fitness Effect in Human

Protein Complex Organization Imposes Constraints on Proteome Dysregulation in Cancer

Peptimetric: Quantifying and Visualizing Differences in Peptidomic Data

Predicted B Cell Epitopes Highlight the Potential for COVID-19 to Drive Self-Reactive Immunity

Short Tandem Repeats as a High-Resolution Marker for Capturing Recent Orangutan Population Evolution

Dynamic Solution Space Division-Based Methods for Calculating Reaction Deletion Strategies for Constraint-Based Metabolic Networks for Substance Production: DynCubeProd

Predicting the Effects of Drug Combinations Using Probabilistic Matrix Factorization

Quality Assessment of Protein Docking Models Based on Graph Neural Network

Identification of Biomarkers Controlling Cell Fate In Blood Cell Development

EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data

The Effect of Mutations in the TPR and Ankyrin Families of Alpha Solenoid Repeat Proteins

TRAL 2.0: Tandem Repeat Detection With Circular Profile Hidden Markov Models and Evolutionary Aligner

CoeViz 2: Protein Graphs Derived From Amino Acid Covariance

Centrality Measures in Residue Interaction Networks to Highlight Amino Acids in Protein–Protein Binding

Grand Challenges in Bioinformatics Data Visualization

COVID-19 Multi-Targeted Drug Repurposing Using Few-Shot Learning

N-Glycosylation Network Construction and Analysis to Modify Glycans on the Spike (S) Glycoprotein of SARS-CoV-2