Results 31 to 40 of about 24,113 (221)

Integrative Modeling in the Age of Machine Learning: A Summary of HADDOCK Strategies in CAPRI Rounds 47–55

Proteins: Structure, Function, and Bioinformatics, EarlyView.
ABSTRACT The HADDOCK team participated in CAPRI rounds 47–55 as server, manual predictor, and scorers. Throughout these CAPRI rounds, we used a plethora of computational strategies to predict the structure of protein complexes. Of the 10 targets comprising 24 interfaces, we achieved acceptable or better models for 3 targets in the human category and 1 ...
Victor Reys, Marco Giulini, Vlad Cojocaru, Anna Engel, Xiaotong Xu, Jorge Roel‐Touris, Cunliang Geng, Francesco Ambrosetti, Brian Jiménez‐García, Zuzana Jandova, Panagiotis I. Koukos, Charlotte van Noort, João M. C. Teixeira, Siri C. van Keulen, Manon Réau, Rodrigo V. Honorato, Alexandre M. J. J. Bonvin   +16 more
wiley   +1 more source

A new approach to in silico SNP detection and some new SNPs in the Bacillus anthracis genome

BMC Research Notes, 2011
Background Bacillus anthracis is one of the most monomorphic pathogens known. Identification of polymorphisms in its genome is essential for taxonomic classification, for determination of recent evolutionary changes, and for evaluation of pathogenic ...
Francoeur Joe, Brodzik Andrzej K
doaj   +1 more source

Performance of pyDock in 8th CAPRI: Energy‐Based Scoring Applied to Docking and AlphaFold Models

Proteins: Structure, Function, and Bioinformatics, EarlyView.
ABSTRACT The 8th CAPRI edition has shown a significant evolution in the field of protein–protein complex structure prediction. We have participated in all 11 targets proposed in this edition, involving domain‐domain, protein–protein, protein‐peptide, and protein‐DNA interactions, including homo‐ and hetero‐meric interfaces.
Luis Angel Rodríguez‐Lumbreras, Mireia Rosell, Miguel Romero‐Durana, Víctor Monteagudo, Fabian Glaser, Juan Fernandez‐Recio   +5 more
wiley   +1 more source

Single Nucleotide Polymorphism Typing of Bacillus anthracis from Sverdlovsk Tissue

Emerging Infectious Diseases, 2008
A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient’s B. anthracis genotype into 1 of 12 subgroups.
Richard T. Okinaka, Melinda Henrie, Karen K. Hill, KristinS. Lowery, Matthew Van Ert, Talima Pearson, James Schupp, Leo Kenefic, Jodi Beaudry, Steven A. Hofstadler, Paul J. Jackson, Paul Keim   +11 more
doaj   +1 more source

Gasdermin‐Mediated Pyroptosis: Novel Strategies Against Colorectal Cancer

Cancer Science, EarlyView.
Pyroptosis is a double‐edged sword in colorectal cancer (CRC): chronic low‐grade pyroptosis promotes tumor progression, whereas acute induction of pyroptosis in cancer cells triggers antitumor immunity and enhances therapeutic response. Targeting gasdermin‐mediated pyroptosis represents a promising strategy for CRC treatment.
Kaibo Guo, Yuqian Feng, Jiamin Lu, Nuerbiye Abudurexiti, Xinlei Zhou, Mengfan Wei, Song Zheng   +6 more
wiley   +1 more source

Identification of Bacillus anthracis specific chromosomal sequences by suppressive subtractive hybridization

BMC Genomics, 2004
Background Bacillus anthracis, Bacillus thuringiensis and Bacillus cereus are closely related members of the B. cereus-group of bacilli. Suppressive subtractive hybridization (SSH) was used to identify specific chromosomal sequences unique to B ...
Redkar Rajendra, Lewandowski Anna, Bishara Joanne, Williams Leanne E, Schumacher Jennifer A, Lamonica Janine M, Dwyer Kathleen G, Patra Guy, DelVecchio Vito G   +8 more
doaj   +1 more source

Naturally Occurring CodY Variants Alter Ligand Binding, DNA Target Affinity, and Virulence in Clostridioides difficile

Molecular Microbiology, EarlyView.
Single amino acid substitutions in the global regulator CodY can alter nutrient sensing and virulence regulation in Clostridioides difficile. We show that the CodY(Y146N) and CodY(V58A) variants display altered ligand binding and reduced promoter binding, leading to derepression of toxin regulatory pathways and increased virulence in vivo.
Md Kamrul Hasan, Sourav Roy, Revathi Govind   +2 more
wiley   +1 more source

Novel and emerging antimicrobial strategies in the management of oral infections

Periodontology 2000, EarlyView.
Abstract Background Antibiotics marked a pivotal turning point in human civilization, enhancing social interactions and extending human life expectancy. In addition to their success in treating systemic infectious diseases, they have significantly improved periodontal treatment outcomes as an adjunct therapy.
Ozge Unlu, Nil Yakar, Alpdogan Kantarci
wiley   +1 more source

CRISPR-Cas9-mediated barcode insertion into Bacillus thuringiensis for surrogate tracking

Microbiology Spectrum
The use of surrogate organisms can enable researchers to safely conduct research on pathogens and in a broader set of conditions. Being able to differentiate between the surrogates used in the experiments and background contamination as well as between ...
Steven A. Higgins, Fadime Kara Murdoch, Jonathon M. Clifton, Jennifer H. Brooks, Keegan L. Fillinger, Jason K. Middleton, Bradley S. Heater   +6 more
doaj   +1 more source

Caenorhabditis elegans Predation on Bacillus anthracis: Decontamination of Spore Contaminated Soil with Germinants and Nematodes

Frontiers in Microbiology, 2018
Remediation of Bacillus anthracis-contaminated soil is challenging and approaches to reduce overall spore levels in environmentally contaminated soil or after intentional release of the infectious disease agent in a safe, low-cost manner are needed.
Bettina Schelkle, Young Choi, Leslie W. Baillie, William Richter, Fatih Buyuk, Elif Celik, Morgan Wendling, Mitat Sahin, Theresa Gallagher   +8 more
doaj   +1 more source