Nature – Pathogens
- Loss of TRIM29 mitigates viral myocarditis by attenuating PERK-driven ER stress response in male mice April 25, 2024
- Bat-borne H9N2 influenza virus evades MxA restriction and exhibits efficient replication and transmission in ferrets April 25, 2024
- Estimating SARS-CoV-2 infection probabilities with serological data and a Bayesian mixture model April 25, 2024
- SARS-CoV-2 and its ORF3a, E and M viroporins activate inflammasome in human macrophages and induce of IL-1α in pulmonary epithelial and endothelial cells April 25, 2024
- Analysis of the potential regulatory mechanisms of female and latent genital tuberculosis affecting ovarian reserve function using untargeted metabolomics April 25, 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
- SARS-CoV-2 Viral Shedding and Rapid Antigen Test Performance — Respiratory Virus Transmission Network, November 2022–May 2023 April 25, 2024
- Investigation of Presumptive HIV Transmission Associated with Receipt of Platelet-Rich Plasma Microneedling Facials at a Spa Among Former Spa Clients — New Mexico, 2018–2023 April 25, 2024
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Category Archives: uncategorized
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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