Browse Articles

Characterization and Phylogenetic Analysis of the Cytochrome B Gene (cytb) in Salvelinus fontinalis, Salmo trutta and Salvelinus fontinalis X Salmo trutta Within the Lake Champlain Basin

Palermo et al. | Jan 24, 2014

Characterization and Phylogenetic Analysis of the Cytochrome B Gene (<em>cytb</em>) in <em>Salvelinus fontinalis</em>,<em> Salmo trutta</em> and <em>Salvelinus fontinalis X Salmo trutta</em> Within the Lake Champlain Basin

Recent declines in the brook trout population of the Lake Champlain Basin have made the genetic screening of this and other trout species of utmost importance. In this study, the authors collected and analyzed 21 DNA samples from Lake Champlain Basin trout populations and performed a phylogenetic analysis on these samples using the cytochrome b gene. The findings presented in this study may influence future habitat decisions in this region.

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Using explainable artificial intelligence to identify patient-specific breast cancer subtypes

Suresh et al. | Jan 12, 2024

Using explainable artificial intelligence to identify patient-specific breast cancer subtypes

Breast cancer is the most common cancer in women, with approximately 300,000 diagnosed with breast cancer in 2023. It ranks second in cancer-related deaths for women, after lung cancer with nearly 50,000 deaths. Scientists have identified important genetic mutations in genes like BRCA1 and BRCA2 that lead to the development of breast cancer, but previous studies were limited as they focused on specific populations. To overcome limitations, diverse populations and powerful statistical methods like genome-wide association studies and whole-genome sequencing are needed. Explainable artificial intelligence (XAI) can be used in oncology and breast cancer research to overcome these limitations of specificity as it can analyze datasets of diagnosed patients by providing interpretable explanations for identified patterns and predictions. This project aims to achieve technological and medicinal goals by using advanced algorithms to identify breast cancer subtypes for faster diagnoses. Multiple methods were utilized to develop an efficient algorithm. We hypothesized that an XAI approach would be best as it can assign scores to genes, specifically with a 90% success rate. To test that, we ran multiple trials utilizing XAI methods through the identification of class-specific and patient-specific key genes. We found that the study demonstrated a pipeline that combines multiple XAI techniques to identify potential biomarker genes for breast cancer with a 95% success rate.

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Friend or foe: Using DNA barcoding to identify arthropods found at home

Wang et al. | Mar 14, 2022

Friend or foe: Using DNA barcoding to identify arthropods found at home

Here the authors used morphological characters and DNA barcoding to identify arthropods found within a residential house. With this method they identified their species and compared them against pests lists provided by the US government. They found that none of their identified species were considered to be pests providing evidence against the misconception that arthropods found at home are harmful to humans. They suggest that these methods could be used at larger scales to better understand and aid in mapping ecosystems.

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Development of a novel machine learning platform to identify structural trends among NNRTI HIV-1 reverse transcriptase inhibitors

Ashok et al. | Jun 24, 2022

Development of a novel machine learning platform to identify structural trends among NNRTI HIV-1 reverse transcriptase inhibitors

With advancements in machine learning a large data scale, high throughput virtual screening has become a more attractive method for screening drug candidates. This study compared the accuracy of molecular descriptors from two cheminformatics Mordred and PaDEL, software libraries, in characterizing the chemo-structural composition of 53 compounds from the non-nucleoside reverse transcriptase inhibitors (NNRTI) class. The classification model built with the filtered set of descriptors from Mordred was superior to the model using PaDEL descriptors. This approach can accelerate the identification of hit compounds and improve the efficiency of the drug discovery pipeline.

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Efficacy of electrolytic treatment on degrading microplastics in tap water

Schroder et al. | Apr 23, 2023

Efficacy of electrolytic treatment on degrading microplastics in tap water
Image credit: Imani

Here seeking to identify a method to remove harmful microplastics from water, the authors investigated the viability of using electrolysis to degrade microplastics in tap water. Compared to control samples, they found electrolysis treatment to significantly the number of net microplastics, suggesting that this treatment could potentially implemented into homes or drinking water treatment facilities.

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Impact of study partner status and group membership on commitment device effectiveness among college students

Gupta et al. | Jun 03, 2022

Impact of study partner status and group membership on commitment device effectiveness among college students

Here seeking to identify a possible solution to procrastination among college students, the authors used an online experiment that involved the random assignment of study partners that they shared their study time goal with. These partners were classified by status and group membership. The authors found that status and group membership did not significantly affect the likelihood of college students achieving their committed goals, and also suggest the potential of soft commitment devices that take advantage of social relationships to reduce procrastination.

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