Daniel Bojar

Affiliations

Department of Chemistry and Molecular Biology and Wallenberg Centre for Molecular and Translational Medicine, University of Gothenburg, 41390 Gothenburg, Sweden.

ORCID: 0000-0002-3008-7851

Publications (29)

Glycowork: A Python package for glycan data science and machine learning.

Glycobiology

Avec: Luc Thomès , Rebekka Burkholz , Daniel Bojar

The evolving world of milk oligosaccharides: Biochemical diversity understood by computational advances.

Carbohydrate research

Avec: Jon Lundstrøm , Daniel Bojar

Decoding glycomics with a suite of methods for differential expression analysis.

Cell reports methods

Avec: Jon Lundstrøm , James Urban , Daniel Bojar

A CRISPR/Cas9-based central processing unit to program complex logic computation in human cells.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Hyojin Kim , Daniel Bojar , Martin Fussenegger

A Useful Guide to Lectin Binding: Machine-Learning Directed Annotation of 57 Unique Lectin Specificities.

ACS chemical biology

Avec: Daniel Bojar , Lawrence Meche , Guanmin Meng , William Eng , David F Smith , Richard D Cummings , Lara K Mahal

Construction of Caffeine-Inducible Gene Switches in Mammalian Cells.

Methods in molecular biology (Clifton, N.J.)

Avec: Daniel Bojar

Deep learning explains the biology of branched glycans from single-cell sequencing data.

iScience

Avec: Rui Qin , Lara K Mahal , Daniel Bojar

GlyLES: Grammar-based Parsing of Glycans from IUPAC-condensed to SMILES.

Journal of cheminformatics

Avec: Roman Joeres , Daniel Bojar , Olga V Kalinina

Predicting glycan structure from tandem mass spectrometry via deep learning.

Nature methods

Avec: James Urban , Chunsheng Jin , Kristina A Thomsson , Niclas G Karlsson , Callum M Ives , Elisa Fadda , Daniel Bojar

Decoding glycosylation potential from protein structure across human glycoproteins with a multi-view recurrent neural network.

bioRxiv : the preprint server for biology

Avec: Ben Kellman , Julien Mariethoz , Yujie Zhang , Sigal Shaul , Mia Jeffris , Daniel Sandoval , Mia Jeffris , Erick Armingol , Bokan Bao , Frederique Lisacek , Daniel Bojar , Nathan Lewis

O-glycosylation contributes to mammalian glycoRNA biogenesis.

bioRxiv : the preprint server for biology

Avec: Jennifer Porat , Christopher P Watkins , Chunsheng Jin , Xixuan Xie , Xiao Tan , Charlotta G Lebedenko , Helena Hemberger , Woojung Shin , Peiyuan Chai , James J Collins , Benjamin A Garcia , Daniel Bojar , Ryan A Flynn

The Role of Fucose-Containing Glycan Motifs Across Taxonomic Kingdoms.

Frontiers in molecular biosciences

Avec: Luc Thomès , Daniel Bojar

Deep-Learning Resources for Studying Glycan-Mediated Host-Microbe Interactions.

Cell host & microbe

Avec: Daniel Bojar , Rani K Powers , Diogo M Camacho , James J Collins

Gene switch for l-glucose-induced biopharmaceutical production in mammalian cells.

Biotechnology and bioengineering

Avec: Tobias Strittmatter , Sabina Egli , Adrian Bertschi , Richard Plieninger , Daniel Bojar , Mingqi Xie , Martin Fussenegger

Protocol for constructing glycan biosynthetic networks using glycowork.

STAR protocols

Avec: Jon Lundstrøm , Luc Thomès , Daniel Bojar

Mammalian milk glycomes: Connecting the dots between evolutionary conservation and biosynthetic pathways.

Cell reports

Avec: Luc Thomès , Viktoria Karlsson , Jon Lundstrøm , Daniel Bojar

Breast Milk Oligosaccharides Contain Immunomodulatory Glucuronic Acid and LacdiNAc.

Molecular & cellular proteomics : MCP

Avec: Chunsheng Jin , Jon Lundstrøm , Emma Korhonen , Ana S Luis , Daniel Bojar

GlycoDraw: a python implementation for generating high-quality glycan figures.

Glycobiology

Avec: Jon Lundstrøm , James Urban , Luc Thomès , Daniel Bojar

The Role of Protein Engineering in Biomedical Applications of Mammalian Synthetic Biology.

Small (Weinheim an der Bergstrasse, Germany)

Avec: Daniel Bojar , Martin Fussenegger

Improving the Technique of Pelvic Floor Muscle Contraction in Active Nulliparous Women Attending a Structured High-Low Impact Aerobics Program-A Randomized Control Trial.

International journal of environmental research and public health

Avec: Magdalena Piernicka , Monika Błudnicka , Damian Bojar , Jakub Kortas , Anna Szumilewicz

The influence of one-time biofeedback electromyography session on the firing order in the pelvic floor muscle contraction in pregnant woman-A randomized controlled trial.

Frontiers in human neuroscience

Avec: Monika Błudnicka , Magdalena Piernicka , Jakub Kortas , Damian Bojar , Barbara Duda-Biernacka , Anna Szumilewicz

Elucidating the glycan-binding specificity and structure of

Beilstein journal of organic chemistry

Avec: Jon Lundstrøm , Emilie Gillon , Valérie Chazalet , Nicole Kerekes , Antonio Di Maio , Ten Feizi , Yan Liu , Annabelle Varrot , Daniel Bojar

Syntactic sugars: crafting a regular expression framework for glycan structures.

Bioinformatics advances

Avec: Alexander R Bennett , Daniel Bojar

Navigating the maze of mass spectra: a machine-learning guide to identifying diagnostic ions in O-glycan analysis.

Analytical and bioanalytical chemistry

Avec: James Urban , Roman Joeres , Luc Thomès , Kristina A Thomsson , Daniel Bojar

Purity by design: Reducing impurities in bioproduction by stimulus-controlled global translational downregulation of non-product proteins.

Metabolic engineering

Avec: Daniel Bojar , Tobias Fuhrer , Martin Fussenegger

Using graph convolutional neural networks to learn a representation for glycans.

Cell reports

Avec: Rebekka Burkholz , John Quackenbush , Daniel Bojar

LectinOracle: A Generalizable Deep Learning Model for Lectin-Glycan Binding Prediction.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Avec: Jon Lundstrøm , Emma Korhonen , Frédérique Lisacek , Daniel Bojar

Structural insights into host-microbe glycointeractions.

Current opinion in structural biology

Avec: Jon Lundstrøm , Daniel Bojar

Glycoinformatics in the Artificial Intelligence Era.

Chemical reviews

Avec: Daniel Bojar , Frederique Lisacek

Réseau de co-auteurs

Jon Lundstrøm 9 collaborations

Luc Thomès 6 collaborations

James Urban 4 collaborations

Martin Fussenegger 4 collaborations

Chunsheng Jin 3 collaborations

Rebekka Burkholz 2 collaborations

Lara K Mahal 2 collaborations

Roman Joeres 2 collaborations

Kristina A Thomsson 2 collaborations

Mia Jeffris 2 collaborations

Frederique Lisacek 2 collaborations

James J Collins 2 collaborations

Emma Korhonen 2 collaborations

Magdalena Piernicka 2 collaborations

Monika Błudnicka 2 collaborations

Damian Bojar 2 collaborations

Jakub Kortas 2 collaborations

Anna Szumilewicz 2 collaborations

Hyojin Kim 1 collaboration

Lawrence Meche 1 collaboration

Guanmin Meng 1 collaboration

William Eng 1 collaboration

David F Smith 1 collaboration

Richard D Cummings 1 collaboration

Rui Qin 1 collaboration

Olga V Kalinina 1 collaboration

Niclas G Karlsson 1 collaboration

Callum M Ives 1 collaboration

Elisa Fadda 1 collaboration

Ben Kellman 1 collaboration

Julien Mariethoz 1 collaboration

Yujie Zhang 1 collaboration

Sigal Shaul 1 collaboration

Daniel Sandoval 1 collaboration

Erick Armingol 1 collaboration

Bokan Bao 1 collaboration

Nathan Lewis 1 collaboration

Jennifer Porat 1 collaboration

Christopher P Watkins 1 collaboration

Xixuan Xie 1 collaboration

Xiao Tan 1 collaboration

Charlotta G Lebedenko 1 collaboration

Helena Hemberger 1 collaboration

Woojung Shin 1 collaboration

Peiyuan Chai 1 collaboration

Benjamin A Garcia 1 collaboration

Ryan A Flynn 1 collaboration

Rani K Powers 1 collaboration

Diogo M Camacho 1 collaboration

Tobias Strittmatter 1 collaboration

Sabina Egli 1 collaboration

Adrian Bertschi 1 collaboration

Richard Plieninger 1 collaboration

Mingqi Xie 1 collaboration

Viktoria Karlsson 1 collaboration

Ana S Luis 1 collaboration

Barbara Duda-Biernacka 1 collaboration

Emilie Gillon 1 collaboration

Valérie Chazalet 1 collaboration

Nicole Kerekes 1 collaboration

Antonio Di Maio 1 collaboration

Ten Feizi 1 collaboration

Yan Liu 1 collaboration

Annabelle Varrot 1 collaboration

Alexander R Bennett 1 collaboration

Tobias Fuhrer 1 collaboration

John Quackenbush 1 collaboration

Frédérique Lisacek 1 collaboration