Browse Articles

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.

Read More...

Retinal biomarkers for the detection of neurological disease using deep learning

Kim et al. | Sep 04, 2026

Retinal biomarkers for the detection of neurological disease using deep learning

The authors looked at whether retinal features, specifically lens clarity, optic nerve cupping, and hyperreflective foci, can serve as biomarkers for neuro-ophthalmological diseases, which share pathological mechanisms with neurodegeneration and may indicate broader neurological risk. Using multimodal clinical data and machine learning, they investigated the potential of retinal imaging as a complementary diagnostic tool for more accurate and accessible detection of neurological disorders.

Read More...

pH-dependent drug interactions with acid reducing agents

Lin et al. | Nov 12, 2024

pH-dependent drug interactions with acid reducing agents
Image credit: The authors

Some cancer treatments lose efficacy when combined with treatments for excessive stomach acid, due to the changes in the stomach environment caused by the stomach acid treatments. Lin and Lin investigate information on oral cancer drugs to see what information is available on interactions of these drugs.

Read More...

A novel approach for early detection of Alzheimer’s disease using deep neural networks with magnetic resonance imaging

Ganesh et al. | Mar 20, 2022

A novel approach for early detection of Alzheimer’s disease using deep neural networks with magnetic resonance imaging

In the battle against Alzheimer's disease, early detection is critical to mitigating symptoms in patients. Here, the authors use a collection of MRI scans, layering with deep learning computer modeling, to investigate early stages of AD which can be hard to catch by human eye. Their model is successful, able to outperform previous models, and detected regions of interest in the brain for further consideration.

Read More...

Ground-based Follow-up Observations of TESS Exoplanet Candidates

Tang et al. | May 29, 2020

Ground-based Follow-up Observations of  TESS Exoplanet Candidates

The goal of this study was to further confirm, characterize, and classify LHS 3844 b, an exoplanet detected by the Transiting Exoplanet Survey Satellite (TESS). Additionally, we strove to determine the likeliness of LHS 3844 b and similar planets as qualified candidates for observation with the James Webb Space Telescope (JWST).

Read More...

Temperatures of 20°C Produce Increased Net Primary Production in Chlorella sp.

Biddinger et al. | Feb 25, 2020

Temperatures of 20°C Produce Increased Net Primary Production in <em>Chlorella sp.</em>

Chlorella sp. are unicellular green algae that use photosynthesis to reduce carbon dioxide into glucose. In this study, authors sought to determine the temperature that Chlorella sp. is maximally efficient at photosynthesis, and therefore removing the most carbon dioxide from the system. This activity could be harnessed to naturally remove carbon dioxide from the environment, fighting the effects of climate change.

Read More...