Nature – Pathogens
- C-C motif chemokine receptor 2 and 7 synergistically control inflammatory monocyte recruitment but the infecting virus dictates monocyte function in the brain April 24, 2024
- Long-term monitoring of SARS-CoV-2 seroprevalence and variants in Ethiopia provides prediction for immunity and cross-immunity April 24, 2024
- Bacillus velezensis iturins inhibit the hemolytic activity of Staphylococcus aureus April 24, 2024
- A giant virus infecting the amoeboflagellate Naegleria April 24, 2024
- Age and sex influence antibody profiles associated with tuberculosis progression April 24, 2024
Nature – AMR
- Biodiversity of carbapenem-resistant bacteria in clinical samples from the Southwest Amazon region (Rondônia/Brazil) April 23, 2024
- Detection and genomic characterization of Klebsiella pneumoniae and Escherichia coli harboring tet(X4) in black kites (Milvus migrans) in Pakistan April 20, 2024
- A role for the stringent response in ciprofloxacin resistance in Pseudomonas aeruginosa April 13, 2024
- A folate inhibitor exploits metabolic differences in Pseudomonas aeruginosa for narrow-spectrum targeting April 9, 2024
- Author Correction: The plasmidome associated with Gram-negative bloodstream infections: a large-scale observational study using complete plasmid assemblies April 9, 2024
Outbreaks
- Measles global outbreak continues to spread April 16, 2024
- Dad goes Viral on TikTok: Daughter has Pinworms April 16, 2024
CDC
- COVID-19 Vaccination Coverage, and Rates of SARS-CoV-2 Infection and COVID-19–Associated Hospitalization Among Residents in Nursing Homes — National Healthcare Safety Network, United States, October 2023–February 2024 April 18, 2024
- Durability of Original Monovalent mRNA Vaccine Effectiveness Against COVID-19 Omicron–Associated Hospitalization in Children and Adolescents — United States, 2021–2023 April 18, 2024
Food Safety News
- The additive ban is halfway home in Illinois April 24, 2024
- EFSA shares 2022 data on pesticide residues in food April 24, 2024
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Author Archives: WeimerMicroLab
Biological machine learning combined with bacterial population genomics reveals common and rare allelic variants of genes to cause disease
WeimerMicroLab’s latest manuscript by DJ Darwin R. Bandoy & Bart C. Weimer is out! Click here to read “Biological machine learning combined with bacterial population genomics reveals common and rare allelic variants of genes to cause disease.”
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Machine Learning How to Culture UnCulturables?
Contributed by Shawn Higdon How much of the microbial biodiversity on planet Earth has mankind managed to grow in the laboratory? I think the number thrown around as a rough approximation in early biology classes is 5 percent. Five percent, … Continue reading
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Preprint is Out!
Contributed by Darwin Bandoy, DVM We are proud to announce the preprint publication of our paper wherein we identified a misclassified species of Hungatella from the Human Microbiome Project. This project demonstrates the power of pangenome analysis to resolve species identity … Continue reading
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Qualifying Exam Preparation for PhD students in Life Sciences and Biotechnology
Contributed by Darwin Bandoy, DVM I am still over the clouds for passing my qualifying exam. And I am pretty sure most PhD students are curious how I made my preparations. So, I will be describing what I did. Read, … Continue reading
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Comprehensive Carbohydrate Active Enzyme Analysis with meta-dbCAN
Contributed by Shawn Higdon The focus of my graduate research involves the investigation of nitrogen-fixing bacteria inhabiting a terrestrial environment that is rich in complex carbohydrate – the aerial root exudate (mucilage) of an isolated maize landrace. Within this arc, … Continue reading
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Post Conference Reflections: Bay Area Microbial Pathogenesis Symposium
Contributed by Darwin Bandoy DVM I presented a poster at BAMPS (Bay Area Microbial Pathogenesis Symposium) with my work on using machine learning bacterial genome-wide association study. First of all, it was radically different as most posters focus on defining … Continue reading
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Analyzing RNAseq Data with DESeq2
Contributed by Shawn Higdon RNA sequencing experiments are extremely powerful in terms of the amount of information that is capable of being revealed for a given experimental system. While performing these experiments demands passing through several hurdles in the lab … Continue reading
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Metagenome wide association studies: data mining the microbiome
Contributed by Darwin Bandoy, DVM Increased sequencing capability offers an unprecedented look into the microbiome and the association with complex diseases. Associations are mined to determine the changes occurring with microbiome and metabolic conditions like diabetes and obesity, as well … Continue reading
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Pangenome guided pharmacophore modelling of enterohemorrhagic Escherichia coli sdiA
Contributed by Darwin Bandoy, DVM I am proud to present my published work in the F1000Research journal. This journal is unique due to the open peer review platform. Open peer review publishes the article first after a basic editorial screening … Continue reading
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Fast Transcript Quantification with Salmon
Contributed by Shawn Higdon Interpretation of Sequencing data from experiments targeting gene expression in any biological system requires a series of computational and analytical steps. After going through the motions of pre-processing sequencing reads into a state of high quality … Continue reading
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