User profiles for Daan F. van den Berg

Daan Frits van den Berg

Other name: Daan F van den Berg
TU Delft Brouns lab
Verified email at tudelft.nl
Cited by 357

[HTML][HTML] Severe COVID-19: NLRP3 inflammasome dysregulated

DF Van den Berg, AA Te Velde - Frontiers in immunology, 2020 - frontiersin.org
SARS-CoV-2 might directly activate NLRP3 inflammasome resulting in an endogenous
adjuvant activity necessary to mount a proper adaptive immune response against the virus. …

The gRAMP CRISPR-Cas effector is an RNA endonuclease complexed with a caspase-like peptidase

…, AC Haagsma, A Rodríguez-Molina, DF van den Berg… - Science, 2021 - science.org
Type III CRISPR-Cas immunity is widespread in prokaryotes and is generally mediated by
multisubunit effector complexes. These complexes recognize complementary viral transcripts …

Phage tRNAs evade tRNA-targeting host defenses through anticodon loop mutations

DF van den Berg, BA van der Steen, AR Costa… - Elife, 2023 - elifesciences.org
Transfer RNAs (tRNAs) in bacteriophage genomes are widespread across bacterial host
genera, but their exact function has remained unclear for more than 50 years. Several …

[PDF][PDF] Genomic characterization of four novel bacteriophages infecting the clinical pathogen Klebsiella pneumoniae

…, AR Costa, DF Van Den Berg, T Van Rossum… - DNA …, 2021 - academic.oup.com
Bacteriophages are an invaluable source of novel genetic diversity. Sequencing of phage
genomes can reveal new proteins with potential uses as biotechnological and medical tools, …

Accumulation of defense systems in phage-resistant strains of Pseudomonas aeruginosa

…, H van den Bossche, BE Bonilla, BA van der Steen… - Science …, 2024 - science.org
Prokaryotes encode multiple distinct anti-phage defense systems in their genomes. However,
the impact of carrying a multitude of defense systems on phage resistance remains unclear…

[HTML][HTML] MukBEF-dependent chromosomal organization in widened Escherichia coli

…, JWJ Kerssemakers, DF van den Berg… - Frontiers in …, 2023 - frontiersin.org
The bacterial chromosome is spatially organized through protein-mediated compaction,
supercoiling, and cell-boundary confinement. Structural Maintenance of Chromosomes (SMC) …

Accumulation of defense systems drives panphage resistance in Pseudomonas aeruginosa

…, H van den Bossche, BE Bonilla, BA van der Steen… - Biorxiv, 2022 - biorxiv.org
Prokaryotes carry multiple distinct anti-viral defense systems. However, the impact of carrying
a multitude of defense systems on virus resistance remains unclear, especially in a clinical …

An OmpW-dependent T4-like phage infects Serratia sp. ATCC 39006

M Mahler, LM Malone, DF van den Berg… - Microbial …, 2023 - microbiologyresearch.org
Serratia sp. ATCC 39006 is a Gram-negative bacterium that has been used to study the function
of phage defences, such as CRISPR–Cas, and phage counter-defence mechanisms. To …

Benchmarking in optimization: Best practice and open issues

T Bartz-Beielstein, C Doerr, D Berg, J Bossek… - arXiv preprint arXiv …, 2020 - arxiv.org
This survey compiles ideas and recommendations from more than a dozen researchers with
different backgrounds and from different institutes around the world. Promoting best practice …

[PDF][PDF] Fireworks Algorithm versus Plant Propagation Algorithm.

W Vrielink, D Van den Berg - IJCCI, 2019 - scitepress.org
van den Berg, 2019). Nonetheless, these principles create algorithms that are more
widely applicable, as is so aptly described by Kenneth Sörensen (Sörensen, 2015). Many “novel” …