Search

Background: Increasing diversity has become a priority for all fields working with human subjects due to historic exclusions and misrepresentations of participants with minoritized identities. To create a more representative and generalizable science of alcohol use, the Research Society on Alcohol (RSA) and its official journal, Alcohol: Clinical and Experimental Research (ACER), have increasingly incorporated diversity and inclusion into their posted values and programming. Methods: We analyzed the content of articles published in ACER from 2010 through 2022 (6 years before and after the formation of RSA's Diversity Committee) to assess the reporting of participants' demographic information and whether there has been increased inclusion of diverse samples in alcohol research over time. Our team screened 3292 abstracts for data extraction; studies were included if they were primary analyses of data collected from human subjects (n = 1043). Results: Reporting of all demographic variables increased over time, with significant increases in reporting for race/ethnicity, sexual orientation, gender identity, socioeconomic status (SES), income, and educational attainment. Demographic variables were also increasingly used in analyses. However, representation of research outside the United States diminished significantly over time. Conclusions: We provide recommended journal article reporting standards for ACER to continue the positive progress in reporting demographics in alcohol research and facilitate meta‐analyses examining demographic modulation and the impact of social determinants of health. [ABSTRACT FROM AUTHOR]

The Society for Psychophysiological Research and accompanying journal, Psychophysiology, have increasingly incorporated diversity and inclusion into their posted values, conference programming, and science. Much of this focus on equity, diversity, and inclusion work has occurred since 2010. The current review content analyzed the articles published in Psychophysiology from 2010 through 2020 to determine if SPR and Psychophysiology's commitment to diversity and inclusion has resulted in changes to reporting and analysis of participant demographics. Demographic reporting practices were compared to APA reporting standards and the use of demographic variables assessed according to the guidance proffered in the introduction to Psychophysiology's 2016 Special Issue on Diversity and Representation. Results of the content analysis indicated near perfect reporting of biological sex and frequent reporting of average age. Age range and educational attainment were reported in over half of studies, while race or ethnicity were reported in only 17%. Socioeconomic status, income, gender identity, and sexual orientation were almost never reported. In over 60% of studies at least one major demographic variable was reported, but was not used in preliminary, main, or supplementary analyses as a covariate, moderator, or otherwise. SPR and Psychophysiology should continue advocating for increased reporting of major demographic variables and ethical analysis of demographic modulation of various psychophysiological mechanisms. We provide a preliminary template of reporting standards and call for the inclusion of more open science practices by psychophysiologists. Content analyses can help a field understand the impact of its policies or stated values. This paper outlines the reporting and use of demographic variables in articles published in Psychophysiology to trace the impact of SPR's commitment to DEI. Results indicate continued efforts are needed to diversify samples. [ABSTRACT FROM AUTHOR]

Identifying molecular markers of endometrial hyperplasia (neoplasia) progression is critical to cancer prevention. To assess RNA and DNA quantity and quality from routinely collected endometrial samples and evaluate the performance of RNA- and DNA-based arrays across endometrial tissue types, we collected fresh frozen (FF) Pipelle, FF curettage, and formalin-fixed paraffin-embedded (FFPE) hysterectomy specimens (benign indications) from eight women. Additionally, neoplastic and uninvolved tissues from 24 FFPE archival hysterectomy specimens with endometrial hyperplasias and carcinomas were assessed. RNA was extracted from 15 of 16 FF and 51 of 51 FFPE samples, with yields >Μ1.2 for 13/15 (87%) FF and 50/51 (98%) FFPE samples. Extracted RNA was of high quality; all samples performed successfully on the Illumina whole-genome cDNA-mediated annealing, selection, extension, and ligation (WG-DASL) array and performance did not vary by tissue type. While DNA quantity from FFPE samples was excellent, quality was not sufficient for successful performance on the Affymetrix SNP Array 6.0. In conclusion, FF Pipelle samples, which are minimally invasive, yielded excellent quantity and quality of RNA for gene expression arrays (similar to FF curettage) and should be considered for use in genomic studies. FFPE-derived DNA should be evaluated on new rapidly evolving sequencing platforms. [ABSTRACT FROM AUTHOR]

Loss of heterozygosity (LOH) has been shown to be a promising biomarker of cancer risk in patients with premalignant conditions. In this study we describe analytical validation in clinical biopsy samples of a SNP-based pyrosequencing panel targeting regions of LOH on chromosomes 17p and 9p including TP53 and CDKN2A tumor suppressor genes. Assays were tested for analytic specificity, sensitivity, efficiency, and reproducibility. Accuracy was evaluated by comparing SNP-based LOH results to those obtained by previously well-studied short tandem repeat polymorphisms (STRs) in DNA derived from different tissue sources including fresh-frozen endoscopic biopsies, samples from surgical resections, and formalin-fixed paraffin-embedded sections. A 17p/9p LOH panel comprised of 43 SNPs was designed to amplify with universal assay conditions in a two-step PCR and sequence-by-synthesis reaction that can be completed in two hours and 10 minutes. The methods presented can be a model for developing a SNP-based LOH approach targeted to any chromosomal region of interest for other premalignant conditions and this panel could be incorporated as part of a biomarker for cancer risk prediction, early detection, or as entry criteria for randomized trials. [ABSTRACT FROM AUTHOR]

Background: Mutation, promoter hypermethylation and loss of heterozygosity involving the tumor suppressor gene p16 (CDKN2a/INK4a) have been detected in a wide variety of human cancers, but much less is known concerning the frequency and spectrum of p16 mutations in premalignant conditions. Methods and Findings: We have determined the p16 mutation spectrum for a cohort of 304 patients with Barrett's esophagus, a premalignant condition that predisposes to the development of esophageal adenocarcinoma. Forty seven mutations were detected by sequencing of p16 exon 2 in 44 BE patients (14.5%) with a mutation spectrum consistent with that caused by oxidative damage and chronic inflammation. The percentage of patients with p16 mutations increased with increasing histologic grade. In addition, samples from 3 out of 19 patients (15.8%) who underwent esophagectomy were found to have mutations. Conclusions: The results of this study suggest the environment of the esophagus in BE patients can both generate and select for clones with p16 mutations. [ABSTRACT FROM AUTHOR]