Sentiment Analysis of Conservation Studies Captures Successes of Species Reintroductions

Learning from the rapidly growing body of scientific articles is constrained by human bandwidth. Existing methods in machine learning have been developed to extract knowledge from human language and may automate this process. Here, we apply sentiment analysis, a type of natural language processing, to facilitate a literature review in reintroduction biology. We analyzed 1,030,558 words from 4,313 scientific abstracts published over four decades using four previously trained lexicon-based models and one recursive neural tensor network model. We find frequently used terms share both a general and a domain-specific value, with either positive (success, protect, growth) or negative (threaten, loss, risk) sentiment. Sentiment trends suggest that reintroduction studies have become less variable and increasingly successful over time and seem to capture known successes and challenges for conservation biology. This approach offers promise for rapidly extracting explicit and latent information from a large corpus of scientific texts

Interactions between apolipoprotein E, sex, and amyloid-beta on cerebrospinal fluid p-tau levels in the European prevention of Alzheimer's dementia longitudinal cohort study (EPAD LCS)

BACKGROUND: Alzheimer's Disease, the leading cause of dementia, is over-represented in females. The apolipoprotein E (APOE)ε4 allele is the strongest genetic risk factor for late-onset AD and is associated with aberrant cerebrospinal fluid levels (CSF) of total tau (t-tau), phosphorylated tau (p-tau), and amyloid-β (Aβ). There is some evidence that sex may mediate the relationship between APOE status and CSF tau, however, evidence is mixed. METHODS: We aimed to examine the interaction between sex, APOE ε4 status, CSF Aβ on t-tau and p-tau in 1599 mid-to-late life individuals without a diagnosis of dementia in the European Prevention of Alzheimer's Dementia (EPAD) longitudinal cohort study. FINDINGS: We found a significant interaction between APOE status, sex, and CSF Aβ on CSF p-tau levels (β = 0·18, p = 0·04). Specifically, there was a stronger association between APOE status and CSF Aβ(42) on CSF p-tau in males compared to females. Further, in females with high Aβ levels (reflecting less cortical deposition), ε4 carriers had significantly elevated p-tau levels relative to non-carriers (W = 39663, p = 0·01). However, there were no significant differences in p-tau between male ε4 carriers and non-carriers with high Aβ (W = 23523, p = 0·64). INTERPRETATION: An interaction between sex and cerebrospinal fluid Aβ may mediate the relationship between APOE status and CSF p-tau. These data suggest tau accumulation may be independent of Aβ in females, but not males. FUNDING: Innovative Medicines Initiative, Swedish Research Council, Alzheimer Drug Discovery Foundation, Swedish Alzheimer Foundation, the Swedish state under the agreement between the Swedish government and the County Councils: the ALF-agreement, and the Alzheimer's Association 2021 Zenith Award

Functional outcomes of patients undergoing anterolateral versus anteromedial approaches of the ankle for pilon fractures

Pilon fractures of the distal tibia remain a treatment challenge to orthopedists. Careful preoperative planning is crucial to achieving desirable clinical outcomes, but currently the literature does not reach a consensus on which surgical approach is optimal. This study examines functional outcomes of two of the most common surgical approaches for pilon fractures, the traditional anteromedial approach and the more recently described anterolateral approach. The anterolateral approach is thought to produce better outcomes because of the greater amount of visualization into the articular surface and greater soft tissue coverage for the implant

Overutilization of magnetic resonance imaging in the diagnosis and treatment of moderate to severe osteoarthritis

Advanced imaging is a major driver of health care expenditures. Magnetic resonance imaging provides advantages over radiography because of its ability to visualize soft tissues within the knee joint. The clinical relevance of these findings in osteoarthritis, however, is not well understood. For example, MRI can detect meniscal tears, but these are frequent findings in patients with osteoarthritis, with no difference in prevalence among those with and without symptoms. In addition to concerns about excessive cost, it is possible that patients may undergo unnecessary procedures due to MRI findings. A randomized placebo-controlled trial showed no benefit of arthroscopy for osteoarthritis. Our goal was to examine how prevalent this practice is at this institution, and to examine the characteristics of physicians who ordered these MRIs. Our hypothesis is that many providers order MRI for evaluation of osteoarthritis before referring to an orthopedic surgeon, and that providers with higher levels of training are less likely to order these unnecessary MRIs

Quantitative Research Methods for Political Science, Public Policy and Public Administration for Undergraduates: 1st Edition With Applications in R

Quantitative Research Methods for Political Science, Public Policy and Public Administration for Undergraduates: 1st Edition With Applications in R is an adaption of Quantitative Research Methods for Political Science, Public Policy and Public Administration (With Applications in R). The focus of this book is on using quantitative research methods to test hypotheses and build theory in political science, public policy and public administration. This new version of the text omits large portions of the original text that focused on calculus and linear algebra, expands and reorganizes the content on the software system R and includes guided study questions at the end of each chapter.https://dc.etsu.edu/etsu-oer/1004/thumbnail.jp

Quantitative Research Methods for Political Science, Public Policy and Public Administration for Undergraduates: 1st Edition With Applications in Excel

Quantitative Research Methods for Political Science, Public Policy and Public Administration for Undergraduates: 1st Edition With Applications in Excel is an adaption of Quantitative Research Methods for Political Science, Public Policy and Public Administration (With Applications in R). The focus of this book is on using quantitative research methods to test hypotheses and build theory in political science, public policy and public administration. This new version is designed specifically for undergraduate courses. It omits large portions of the original text that focused on calculus and linear algebra, expands and reorganizes the content on the software system by shifting to Excel and includes guided study questions at the end of each chapter.https://dc.etsu.edu/etsu-oer/1003/thumbnail.jp

Interactive single cell RNA-Seq analysis with Single Cell Toolkit (SCTK)

I will present the Single Cell Toolkit (SCTK), an R package and interactive single cell RNA-sequencing (scRNA-Seq) analysis package that provides the first complete workflow for scRNA-Seq data analysis and visualization using a set of R functions and an interactive web interface. Users can perform analysis with modules for filtering raw results, clustering, batch correction, differential expression, pathway enrichment, and scRNA-Seq study design. The toolkit supports command line or pipeline data processing, and results can be loaded into the GUI for additional exploration and downstream analysis. We demonstrate the effectiveness of the SCTK on multiple scRNA-seq examples, including data from mucosal-associated invariant T cells, induced pluripotent stem cells, and breast cancer tumor cells. While other scRNA-Seq analysis tools exist, the SCTK is the first fully interactive analysis toolkit for scRNA-Seq data available within the R language.NIH U01CA22041

Towards a global understanding of the drivers of marine and terrestrial biodiversity

Understanding the distribution of life’s variety has driven naturalists and scientists for centuries, yet this has been constrained both by the available data and the models needed for their analysis. Here we compiled data for over 67,000 marine and terrestrial species and used artificial neural networks to model species richness with the state and variability of climate, productivity, and multiple other environmental variables. We find terrestrial diversity is better predicted by the available environmental drivers than is marine diversity, and that marine diversity can be predicted with a smaller set of variables. Ecological mechanisms such as geographic isolation and structural complexity appear to explain model residuals and also identify regions and processes that deserve further attention at the global scale. Improving estimates of the relationships between the patterns of global biodiversity, and the environmental mechanisms that support them, should help in efforts to mitigate the impacts of climate change and provide guidance for adapting to life in the Anthropocene

Activity of immunoproteasome inhibitor ONX-0914 in acute lymphoblastic leukemia expressing MLL–AF4 fusion protein

Proteasome inhibitors bortezomib and carfilzomib are approved for the treatment of multiple myeloma and mantle cell lymphoma and have demonstrated clinical efficacy for the treatment of acute lymphoblastic leukemia (ALL). The t(4;11)(q21;q23) chromosomal translocation that leads to the expression of MLL–AF4 fusion protein and confers a poor prognosis, is the major cause of infant ALL. This translocation sensitizes tumor cells to proteasome inhibitors, but toxicities of bortezomib and carfilzomib may limit their use in pediatric patients. Many of these toxicities are caused by on-target inhibition of proteasomes in non-lymphoid tissues (e.g., heart muscle, gut, testicles). We found that MLL–AF4 cells express high levels of lymphoid tissue-specific immunoproteasomes and are sensitive to pharmacologically relevant concentrations of specific immunoproteasome inhibitor ONX-0914, even in the presence of stromal cells. Inhibition of multiple active sites of the immunoproteasomes was required to achieve cytotoxicity against ALL. ONX-0914, an inhibitor of LMP7 (ß5i) and LMP2 (ß1i) sites of the immunoproteasome, and LU-102, inhibitor of proteasome ß2 sites, exhibited synergistic cytotoxicity. Treatment with ONX-0914 significantly delayed the growth of orthotopic ALL xenograft tumors in mice. T-cell ALL lines were also sensitive to pharmacologically relevant concentrations of ONX-0914. This study provides a strong rationale for testing clinical stage immunoproteasome inhibitors KZ-616 and M3258 in ALL