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Refinement of Single Nucleotide Polymorphisms of Atopic Dermatitis related Filaggrin through R packages

Naravane et al. | Oct 12, 2022

Refinement of Single Nucleotide Polymorphisms of Atopic Dermatitis related Filaggrin through R packages

In the United States, there are currently 17.8 million affected by atopic dermatitis (AD), commonly known as eczema. It is characterized by itching and skin inflammation. AD patients are at higher risk for infections, depression, cancer, and suicide. Genetics, environment, and stress are some of the causes of the disease. With the rise of personalized medicine and the acceptance of gene-editing technologies, AD-related variations need to be identified for treatment. Genome-wide association studies (GWAS) have associated the Filaggrin (FLG) gene with AD but have not identified specific problematic single nucleotide polymorphisms (SNPs). This research aimed to refine known SNPs of FLG for gene editing technologies to establish a causal link between specific SNPs and the diseases and to target the polymorphisms. The research utilized R and its Bioconductor packages to refine data from the National Center for Biotechnology Information's (NCBI's) Variation Viewer. The algorithm filtered the dataset by coding regions and conserved domains. The algorithm also removed synonymous variations and treated non-synonymous, frameshift, and nonsense separately. The non-synonymous variations were refined and ordered by the BLOSUM62 substitution matrix. Overall, the analysis removed 96.65% of data, which was redundant or not the focus of the research and ordered the remaining relevant data by impact. The code for the project can also be repurposed as a tool for other diseases. The research can help solve GWAS's imprecise identification challenge. This research is the first step in providing the refined databases required for gene-editing treatment.

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Anticancer, anti-inflammatory, and apoptotic activities of MAT20, a poly-herbal formulation.

Kashyap Jha et al. | Mar 29, 2022

Anticancer, anti-inflammatory, and apoptotic activities of MAT20, a poly-herbal formulation.

Kashyap Jha et al. look at the formulation of MAT20, a crude extract of the moringa, amla, and tulsi leaves, as a potential complementary and alternative medicine. Using HeLa cells, they find MAT20 up-regulates expression of inflammation and cell cytotoxicity markers. Their data is important for understanding the anti-cancer and anti-inflammatory properties of MAT20.

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Exponential regression analysis of the Canadian Zero Emission Vehicle market’s effects on climate emissions in 2030

Ajay et al. | Feb 25, 2023

Exponential regression analysis of the Canadian Zero Emission Vehicle market’s effects on climate emissions in 2030
Image credit: Andrew Roberts

Here, the authors explored how the sale and use of electric vehicles could reduce emissions from the transport industry in Canada. By fitting the sale of total of electric vehicles with an exponential model, the authors predicted the number of electric vehicle sales through 2030 and related that to the average emission for such vehicles. Ultimately, they found that the sale and use of electric vehicles alone would likely not meet the 45% reduction in emissions from the transport industry suggested by the Canadian government

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Application of gene therapy for reversing T-cell dysfunction in cancer

Hyun Lee et al. | Aug 25, 2022

Application of gene therapy for reversing T-cell dysfunction in cancer

Since cancer cells inhibit T-cell activity, the authors investigated a method to reverse T-cell disfunction with gene therapy, so that the T-cells would become effective once again in fighting cancer cells. They used the inhibition of proprotein convertases (PCSK1) in T cells and programmed death-ligand 1 (CD274) in cancer cells. They observed the recovery of IL-2 expression in Jurkat cells, with increased recovery noted in a co-culture sample. This study suggests a novel strategy to reactivate T cells.

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Model selection and optimization for poverty prediction on household data from Cambodia

Wong et al. | Sep 29, 2023

Model selection and optimization for poverty prediction on household data from Cambodia
Image credit: Paul Szewczyk

Here the authors sought to use three machine learning models to predict poverty levels in Cambodia based on available household data. They found teat multilayer perceptron outperformed the other models, with an accuracy of 87 %. They suggest that data-driven approaches such as these could be used more effectively target and alleviate poverty.

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