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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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Optimizing data augmentation to improve machine learning accuracy on endemic frog calls

Anand et al. | Mar 09, 2025

Optimizing data augmentation to improve machine learning accuracy on endemic frog calls
Image credit: Anand and Sampath 2025

The mountain chain of the Western Ghats on the Indian peninsula, a UNESCO World Heritage site, is home to about 200 frog species, 89 of which are endemic. Distinctive to each frog species, their vocalizations can be used for species recognition. Manually surveying frogs at night during the rain in elephant and big cat forests is difficult, so being able to autonomously record ambient soundscapes and identify species is essential. An effective machine learning (ML) species classifier requires substantial training data from this area. The goal of this study was to assess data augmentation techniques on a dataset of frog vocalizations from this region, which has a minimal number of audio recordings per species. Consequently, enhancing an ML model’s performance with limited data is necessary. We analyzed the effects of four data augmentation techniques (Time Shifting, Noise Injection, Spectral Augmentation, and Test-Time Augmentation) individually and their combined effect on the frog vocalization data and the public environmental sounds dataset (ESC-50). The effect of combined data augmentation techniques improved the model's relative accuracy as the size of the dataset decreased. The combination of all four techniques improved the ML model’s classification accuracy on the frog calls dataset by 94%. This study established a data augmentation approach to maximize the classification accuracy with sparse data of frog call recordings, thereby creating a possibility to build a real-world automated field frog species identifier system. Such a system can significantly help in the conservation of frog species in this vital biodiversity hotspot.

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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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Reading recall: A comparison of reading comprehension

Rudins et al. | Nov 16, 2022

Reading recall: A comparison of reading comprehension

Researchers query whether reading comprehension is the same, worse, or better when using e-books as compared with standard paper texts. This study evaluated this question in the elementary school population. Our hypothesis was that information would be retained equally whether read from paper or from an electronic device. Each participant read four stories, alternating between electronic and paper media types. After each reading, the participants completed a five-question test covering the information read. The study participants correctly answered 167 out of 200 comprehension questions when reading from an electronic device. These same participants correctly answered 145 out of 200 comprehension questions when reading from paper. At a significance level of p < 0.05, the results showed that there was a statistically significant difference in reading comprehension between the two media, demonstrating better comprehension when using electronic media. The unexpected results of this study demonstrate a shift in children’s performance and desirability of using electronic media as a reading source.

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Do trumpet players have a greater expiratory capacity than those who do not play a wind instrument?

Homsi et al. | Feb 01, 2022

Do trumpet players have a greater expiratory capacity than those who do not play a wind instrument?

With healthy lung performance being critical to daily function and maintenance of physical health, the authors of this study explored the impact of airflow training from playing a wind instrument on respiratory system function. With careful quantification of peak expiratory flow of individuals who played the trumpet, the authors found no expiratory capacity difference between students who played the trumpet and students who did not play a wind instrument.

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