Whole Genome Expression Array Profiling Highlights Differences in Mucosal Defense Genes in Barrett's Esophagus and Esophageal Adenocarcinoma

Esophageal adenocarcinoma (EAC) has become a major concern in Western countries due to rapid rises in incidence coupled with very poor survival rates. One of the key risk factors for the development of this cancer is the presence of Barrett's esophagus (BE), which is believed to form in response to repeated gastro-esophageal reflux. In this study we performed comparative, genome-wide expression profiling (using Illumina whole-genome Beadarrays) on total RNA extracted from esophageal biopsy tissues from individuals with EAC, BE (in the absence of EAC) and those with normal squamous epithelium. We combined these data with publically accessible raw data from three similar studies to investigate key gene and ontology differences between these three tissue states. The results support the deduction that BE is a tissue with enhanced glycoprotein synthesis machinery (DPP4, ATP2A3, AGR2) designed to provide strong mucosal defenses aimed at resisting gastro-esophageal reflux. EAC exhibits the enhanced extracellular matrix remodeling (collagens, IGFBP7, PLAU) effects expected in an aggressive form of cancer, as well as evidence of reduced expression of genes associated with mucosal (MUC6, CA2, TFF1) and xenobiotic (AKR1C2, AKR1B10) defenses. When our results are compared to previous whole-genome expression profiling studies keratin, mucin, annexin and trefoil factor gene groups are the most frequently represented differentially expressed gene families. Eleven genes identified here are also represented in at least 3 other profiling studies. We used these genes to discriminate between squamous epithelium, BE and EAC within the two largest cohorts using a support vector machine leave one out cross validation (LOOCV) analysis. While this method was satisfactory for discriminating squamous epithelium and BE, it demonstrates the need for more detailed investigations into profiling changes between BE and EAC

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Effects of Varying Audio Frequencies on Reaction Time and Muscular Activity

An article that appeared in JASS, issue 2014Audio perception is a key component in every individual’s ability to react to alarms in the case of an emergency. There have been few studies done which utilize human perception and physiological responses aimed to optimize alarms. Our study aimed to determine the audio frequency which would illicit the fastest and most volatile response, observing both reaction time and electromyographic activity. We predicted that higher frequencies would lead to faster reaction times and more muscular activity. However, we found that there was no significant difference between the reaction times or the electromyographic activity between the varying auditory frequencies. Although there was no significant difference between these reaction times, we found that 37.9% of participants reacted fastest to 880 Hz. Future studies should focus on extending the range of frequencies in order to incorporate a larger portion of participants’ audio range, sampling a larger variety of the population other than college students, and incorporating a more mobile version of the electrodes with the electromyography to more accurately measure the true reaction time of the subject

A Sketch Recognition System for Recognizing Free-Hand Course of Action Diagrams

Military course-of-action (COA) diagrams are used to depict battle scenarios and include thousands of unique symbols, complete with additional textual and designator modifiers. We have created a real-time sketch recognition interface that recognizes 485 freely-drawn military course-of-action sym- bols. When the variations (not allowable by other systems) are factored in, our system is several orders of magnitude larger than the next biggest system. On 5,900 hand-drawn symbols, the system achieves an accuracy of 90% when con- sidering the top 3 interpretations and requiring every aspect of the shape (variations, text, symbol, location, orientation) to be correct

Treating Chronic Nonmalignant Pain: Evidence and Faith-Based Approaches

A significant portion of the world\u27s population is impacted by chronic pain; in the United States, chronic pain costs billions annually in treatment and lost productivity. A needs assessment was conducted to evaluate the prevalence of chronic nonmalignant pain (CNMP) at a university occupational therapy clinic over a 3-month period; recommendations were made to improve pain management at the clinic and referring hospital system. Graded Chronic Pain Scale 2.0 results indicated the prevalence of CNMP was a significant problem. Three evidence-based interventions based on the biblically based CREATION Health Model were developed