PAYING PARTICIPANTS:THE IMPACT OF COMPENSATION ON DATA QUALITY

Poor-quality data has the potential to increase error variance, reduce statistical power and effect sizes, and produce Type I or Type II errors. Paying participants is one technique researchers may use in an attempt to obtain high-quality data. Accordingly, two secondary datasets were used to examine the relationship between participant payment and data quality. The first dataset revealed that data quality did not differ between paid and unpaid undergraduates. Similarly, the second dataset showed that data quality did not differ between unpaid community participants and MTurkers. A comparison across studies showed that undergraduate students engaged in lower levels of careless responding than the community samples but the unpaid community sample outperformed the MTurk sample and both undergraduate samples. Taken together, the current findings suggest that offering financial incentives to undergraduate or community samples does not improve data quality but may improve data collection rates and increase the diversity of participants.</p

Communication Between Health Care Providers and At-Risk Mothers: Perceptions and Practices

Background This study examined knowledge, attitudes and opinions regarding alcohol, tobacco, and other drug (ATOD) use during pregnancy among women enrolled in drug treatment centers. It also assessed the educational and screening practices of health care professionals who care for women of child-bearing age in Utah. Methods The assessment of ATOD use was based on a convenience sample of women who were enrolled in drug treatment centers in Utah. The sample (n = 60) was surveyed by trained research team members. The assessment of screening practices of physicians and other medical professionals (n = 350) who deal with women’s obstetric and gynecological conditions was conducted via an online survey. An in-depth interview with seven of the professionals was also conducted. Results Most women surveyed (72%) reported that they would follow the advice of their health care provider regarding the use of alcohol, tobacco and other drugs (ATOD). Other sources of information (e.g. TV, Internet and radio) were less trusted. The women also indicated that a major barrier to disclosing an ATOD use was fear of negative consequences, both legal and social. Analysis of data from the professionals surveyed indicated that while most do some screening, there is a significant difference in ATOD screening practices for pregnant women and for women who are of childbearing age but not pregnant. Further, while nearly all professionals reported educating women who came to their clinic, fewer than 35% indicated using written educational materials. Lack of time was indicated as the primary barrier to proper screening and education of women in health care clinics. Conclusion Women who have been enrolled in treatment centers for ATOD addictions are fearful of the negative legal and social repercussions as a result of their ATOD use and hence do not consistently seek prenatal care. However, when information is given, most women are willing to comply with the recommendations of their health care providers. Providers are also very interested in quality patient care, but indicate that lack of time does not allow adequate one-on-one time with each patient. Screening and educational practices are performed in most offices, but both the timing of the screening and approach to patient education may not be sufficient to ensure optimal outcomes

Partitioning of sediment on the shelf offshore of the Columbia River littoral cell

This paper is not subject to U.S. copyright. The definitive version was published in Marine Geology 273 (2010): 11-31, doi:10.1016/j.margeo.2010.02.001.Sediment derived from the Columbia River has been deposited on the continental shelf, along the barriers and beaches, and in the bays of the Oregon and Washington coast during the Holocene. The barrier and beach deposits of this 150-km section of coast comprise approximately 6 km3 of these Holocene sediments (Peterson et al., 2010-this issue) while the fluvial and bay deposits comprise about 104 km3 (Baker et al., 2010-this issue), and the shelf deposit is approximately 79 km3. Seismic-reflection, sidescan sonar, and surface sediment data show that the shelf deposit is not uniform in distribution or composition. The shelf deposit is 15–50 m thick off the beaches of the southern part of the study area but is less than 3 m thick, and, in places, absent from the inner shelf in the northern third of the study area. Surface sediment texture of the shelf deposit varies as well. Pleistocene-age gravel covers parts of the inner shelf in the northern third of the area. To the south, the surface of the Holocene shelf deposit is composed of fine sand near shore that grades offshore to dominantly very fine sand in 25–30 m water depth and muddy sand on the middle and outer shelf (> 50 m depth). Although a huge volume of sediment covers the shelf, its uneven distribution indicates that in places only small amounts are available as a potential offshore source to the adjacent beaches, and in other places the finer-grained nature of the shelf deposit indicates that significant winnowing of fine sediment would be necessary to make it compositionally equivalent to sediment on adjacent beaches

Delayed pain decrease following M1 tDCS in spinal cord injury: A randomized controlled clinical trial

Despite some encouraging findings for the treatment of neuropathic pain in patients with spinal cord injury (SCI), transcranial direct current stimulation (tDCS) directed to the primary motor cortex (M1) has faced some mixed results. Prior to translating this technology to clinical care, consistent results and durable effects need to be found. We, therefore, aimed to assess the direct and long-term effects of tDCS on pain following SCI.We performed a two-phase randomized sham-controlled clinical trial where patients received 5 days of tDCS followed by a 3-month follow-up period (Phase I); then, Phase II consisted of 10 days of tDCS with an 8-week follow-up period. We assessed the level of pain with the Visual Analogue Scale (VAS). Patients' quality of life and life satisfaction were also evaluated.33 patients were enrolled in Phase I and 9 in Phase II. We observed a treatment effect at 1-week follow-up for Phase I and at 4-week follow-up for Phase II. The overall level of pain was significantly lower for the active group, as compared to sham, in Phase II.Our exploratory study shows that tDCS does seem to be a promising tool to manage pain in patients with SCI and repeated stimulation sessions are needed to induce long-lasting effects. Based on our protocol, it appears that adding a second treatment period could induce long-lasting effects.This project was supported by the National Institute on Disability, Independent Living, and Rehabilitation Research (NIDILRR grant numbers 90DP0035 and H133N110010)

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment

Formulation of a Medical Food Cocktail for Alzheimer's Disease: Beneficial Effects on Cognition and Neuropathology in a Mouse Model of the Disease

Dietary supplements have been extensively studied for their beneficial effects on cognition and AD neuropathology. The current study examines the effect of a medical food cocktail consisting of the dietary supplements curcumin, piperine, epigallocatechin gallate, α-lipoic acid, N-acetylcysteine, B vitamins, vitamin C, and folate on cognitive functioning and the AD hallmark features and amyloid-beta (Aβ) in the Tg2576 mouse model of the disease.The study found that administering the medical food cocktail for 6 months improved cortical- and hippocampal- dependent learning in the transgenic mice, rendering their performance indistinguishable from non-transgenic controls. Coinciding with this improvement in learning and memory, we found that treatment resulted in decreased soluble Aβ, including Aβ oligomers, previously found to be linked to cognitive functioning.In conclusion, the current study demonstrates that combination diet consisting of natural dietary supplements improves cognitive functioning while decreasing AD neuropathology and may thus represent a safe, natural treatment for AD