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Machine learning-based enzyme engineering of PETase for improved efficiency in plastic degradation

Gupta et al. | Jan 31, 2023

 Machine learning-based enzyme engineering of PETase for improved efficiency in plastic degradation
Image credit: Markus Spiske

Here, recognizing the recognizing the growing threat of non-biodegradable plastic waste, the authors investigated the ability to use a modified enzyme identified in bacteria to decompose polyethylene terephthalate (PET). They used simulations to screen and identify an optimized enzyme based on machine learning models. Ultimately, they identified a potential mutant PETases capable of decomposing PET with improved thermal stability.

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A Data-Centric Analysis of “Stop and Frisk” in New York City

Bhat et al. | Apr 18, 2021

A Data-Centric Analysis of “Stop and Frisk” in New York City

The death of George Floyd has shed light on the disproportionate level of policing affecting non-Whites in the United States of America. To explore whether non-Whites were disproportionately targetted by New York City's "Stop and Frisk" policy, the authors analyze publicly available data on the practice between 2003-2019. Their results suggest African Americans were indeed more likely to be stopped by the police until 2012, after which there was some improvement.

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Optimizing surface contact area and electrolyte type to develop a more effective rechargeable battery

Rajapakse et al. | Oct 27, 2024

Optimizing surface contact area and electrolyte type to develop a more effective rechargeable battery
Image credit: Rajapakse and Rajapakse 2024.

Rechargeable batteries are playing an increasingly prominent role in our lives due to the ongoing transition from fossil energy sources to green energy. The purpose of this study was to investigate variables that impact the effectiveness of rechargeable batteries. Alkaline (non-rechargeable) and rechargeable batteries share common features that are critical for the operation of a battery. The positive and negative electrodes, also known as the cathode and anode, are where the energy of the battery is stored. The electrolyte is what facilitates the transfer of cations and anions in a battery to generate electricity. Due to the importance of these components, we felt that a systematic investigation examining the surface area of the cathode and anode as well the impact of electrolytes with different properties on battery performance was justified. Utilizing a copper cathode and aluminum anode coupled with a water in salt electrolyte, a model rechargeable battery system was developed to test two hypotheses: a) increasing the contact area between the electrodes and electrolyte would improve battery capacity, and b) more soluble salt-based electrolytes would improve battery capacity. After soaking in an electrolyte solution, the battery was charged and the capacity, starting voltage, and ending voltage of each battery were measured. The results of this study supported our hypothesis that larger anode/cathodes surface areas and more ionic electrolytes such as sodium chloride, potassium chloride and potassium sulfate resulted in superior battery capacity. Incorporating these findings can help maximize the efficiency of commercial rechargeable batteries.

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Exploring differences in men’s marijuana consumption and cigarette smoking by race and citizenship status

Miriyala et al. | Sep 04, 2024

Exploring differences in men’s marijuana consumption and cigarette smoking by race and citizenship status

This study examined the relationship between citizenship status, racial background, and the use of marijuana and cigarettes among males in California using data from the 2017–2018 California Health Interview Survey. Findings indicated that non-citizens and naturalized citizens were less likely to use marijuana compared to US-born citizens, while Asian and Latino males were less likely to consume marijuana than White males. Additionally, various racial groups were more likely to smoke cigarettes compared to White males, suggesting that targeted health interventions based on citizenship status and race could be beneficial.

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Predicting smoking status based on RNA sequencing data

Yang et al. | Aug 30, 2024

Predicting smoking status based on RNA sequencing data
Image credit: Yang and Stanley 2024

Given an association between nicotine addiction and gene expression, we hypothesized that expression of genes commonly associated with smoking status would have variable expression between smokers and non-smokers. To test whether gene expression varies between smokers and non-smokers, we analyzed two publicly-available datasets that profiled RNA gene expression from brain (nucleus accumbens) and lung tissue taken from patients identified as smokers or non-smokers. We discovered statistically significant differences in expression of dozens of genes between smokers and non-smokers. To test whether gene expression can be used to predict whether a patient is a smoker or non-smoker, we used gene expression as the training data for a logistic regression or random forest classification model. The random forest classifier trained on lung tissue data showed the most robust results, with area under curve (AUC) values consistently between 0.82 and 0.93. Both models trained on nucleus accumbens data had poorer performance, with AUC values consistently between 0.65 and 0.7 when using random forest. These results suggest gene expression can be used to predict smoking status using traditional machine learning models. Additionally, based on our random forest model, we proposed KCNJ3 and TXLNGY as two candidate markers of smoking status. These findings, coupled with other genes identified in this study, present promising avenues for advancing applications related to the genetic foundation of smoking-related characteristics.

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The influence of music on lexical decision-making in adolescents

Fisher et al. | Apr 28, 2024

The influence of music on lexical decision-making in adolescents

The lexical decision task is designed to test aspects of vocabulary retrieval from short-term and long-term memory by prompting the subject to differentiate between words and non-words. From this task, researchers can determine the effects of certain stimuli on linguistic processing. Numerous studies have investigated the effects of music on various cognitive capacities, like memory and vocabulary. In the current study, we hypothesized that participants would show greater accuracy rates on the lexical decision task when exposed to a selected piece of classical music while completing the task, as compared to completing the task in silence. We tested this hypothesis on a group of 25 participants who completed the lexical decision task once in silence and once while listening to Beethoven's “Moonlight Sonata, 1st Movement”. The results suggest a positive association between the effects of classical background music and improved accuracy. Our results indicate that listening to certain types of music may enhance linguistic processes such as reading and writing. Further research with a larger group of participants is necessary to better understand the association between music and linguistic processing abilities.

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Applying centrality analysis on a protein interaction network to predict colorectal cancer driver genes

Saha et al. | Nov 18, 2023

Applying centrality analysis on a protein interaction network to predict colorectal cancer driver genes

In this article the authors created an interaction map of proteins involved in colorectal cancer to look for driver vs. non-driver genes. That is they wanted to see if they could determine what genes are more likely to drive the development and progression in colorectal cancer and which are present in altered states but not necessarily driving disease progression.

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