Disentangled Representation Learning for Astronomical Chemical Tagging

Modern astronomical surveys are observing spectral data for millions of stars. These spectra contain chemical information that can be used to trace the Galaxy's formation and chemical enrichment history. However, extracting the information from spectra and making precise and accurate chemical abundance measurements is challenging. Here we present a data-driven method for isolating the chemical factors of variation in stellar spectra from those of other parameters (i.e., Teff, log g, [Fe/H]). This enables us to build a spectral projection for each star with these parameters removed. We do this with no ab initio knowledge of elemental abundances themselves and hence bypass the uncertainties and systematics associated with modeling that rely on synthetic stellar spectra. To remove known nonchemical factors of variation, we develop and implement a neural network architecture that learns a disentangled spectral representation. We simulate our recovery of chemically identical stars using the disentangled spectra in a synthetic APOGEE-like data set. We show that this recovery declines as a function of the signal-to-noise ratio but that our neural network architecture outperforms simpler modeling choices. Our work demonstrates the feasibility of data-driven abundance-free chemical tagging

Neutron-capture elements record the ordered chemical evolution of the disc over time

An ensemble of chemical abundances probing different nucleosynthetic channels can be leveraged to build a comprehensive understanding of the chemical and structural evolution of the Galaxy. Using GALAH DR3 data, we seek to trace the enrichment by the supernovae Ia, supernovae II, asymptotic giant branch stars, and neutron-star mergers and/or collapsars nucleosynthetic sources by studying the [Fe/H], [α/Fe], [Ba/Fe], and [Eu/Fe] chemical compositions of ∼50 000 red giant stars, respectively. Employing small [Fe/H]–[α/Fe] cells, which serve as an effective reference-frame of supernovae contributions, we characterize the abundance-age profiles for [Ba/Fe] and [Eu/Fe]. Our results disclose that these age–abundance relations vary across the [Fe/H]–[α/Fe] plane. Within cells, we find negative age–[Ba/Fe] relations and flat age–[Eu/Fe] relations. Across cells, we see the slope of the age–[Ba/Fe] relations evolve smoothly and the [Eu/Fe] relations vary in amplitude. We subsequently model our empirical findings in a theoretical setting using the flexible Chempy Galactic chemical evolution (GCE) code, using the mean [Fe/H], [Mg/Fe], [Ba/Fe], and age values for stellar populations binned in [Fe/H], [Mg/Fe], and age space. We find that within a one-zone framework, an ensemble of GCE model parameters vary to explain the data. Using present day orbits from Gaia EDR3 measurements we infer that the GCE model parameters, which set the observed chemical abundance distributions, vary systematically across mean orbital radii. Under our modelling assumptions, the observed chemical abundances are consistent with a small gradient in the high-mass end of the initial mass function (IMF) across the disc, where the IMF is more top heavy towards the inner disc and more bottom heavy in the outer disc

Chemodynamics of barred galaxies in cosmological simulations: On the Milky Way’s quiescent merger history and in-situ bulge

We explore the chemodynamical properties of a sample of barred galaxies in the Auriga magnetohydrodynamical cosmological zoom-in simulations, which form boxy/peanut (b/p) bulges, and compare these to the Milky Way (MW). We show that the Auriga galaxies which best reproduce the chemodynamical properties of stellar populations in the MW bulge have quiescent merger histories since redshift z ∼ 3.5: their last major merger occurs at tlookback > 12 Gyr, while subsequent mergers have a stellar mass ratio of ≤1:20, suggesting an upper limit of a few per cent for the mass ratio of the recently proposed Gaia Sausage/Enceladus merger. These Auriga MW-analogues have a negligible fraction of ex-situ stars in the b/p region (30 per cent) and exhibit X-shaped age and abundance distributions. Examining the discs in our sample, we find that in some cases a star-forming ring forms around the bar, which alters the metallicity of the inner regions of the galaxy. Further out in the disc, bar-induced resonances lead to metal-rich ridges in the Vφ − r plane – the longest of which is due to the Outer Lindblad Resonance. Our results suggest the Milky Way has an uncommonly quiet merger history, which leads to an essentially in-situ bulge, and highlight the significant effects the bar can have on the surrounding disc

Antidepressants during and after Menopausal Transition: A Systematic Review and Meta-Analysis

To assess the therapeutic benefits of antidepressants in depressive women during and after menopausal transition, PubMed, Cochrane Library, EMBASE and Science Direct were systematically searched from inception to February 1, 2020 for randomized controlled trials examining antidepressants compared to placebo. Primary outcome was change in depressive symptom severity, while secondary outcomes were rates of response/remission rates and dropout/discontinuation due to adverse events. Seven trials involving 1,676 participants (mean age = 52.6 years) showed significant improvement in depressive symptoms (k = 7, Hedges’ g = 0.44, 95% confidence interval (CI) = 0.32 to 0.57, p < 0.001) relative to that in controls. Furthermore, response (k = 3, odds ratio (OR) = 2.53, 95% CI = 1.24 to 5.15, p = 0.01) and remission (k = 3, OR = 1.84, 95% CI = 1.32 to 2.57, p < 0.001) rates were significantly higher in antidepressant-treated groups compared to those with controls. Although dropout rates did not differ between antidepressant and control groups (k = 6, OR = 0.93, 95% CI = 0.70 to 1.26, p = 0.68), the rate of discontinuation due to adverse events was significantly higher in antidepressant-treated groups (k = 6, OR = 0.55, 95% CI = 0.35 to 0.86, p = 0.01). Subgroup analysis indicated that antidepressants were also efficacious for depressive symptoms in those without diagnosis of MDD. The results demonstrated that antidepressants were efficacious for women with depressive syndromes during and after menopausal transition but associated with a higher risk of discontinuation due to adverse events

Ethical implications of the use of whole genome methods in medical research

The use of genome-wide association studies (GWAS) in medical research and the increased ability to share data give a new twist to some of the perennial ethical issues associated with genomic research. GWAS create particular challenges because they produce fine, detailed, genotype information at high resolution, and the results of more focused studies can potentially be used to determine genetic variation for a wide range of conditions and traits. The information from a GWA scan is derived from DNA that is a powerful personal identifier, and can provide information not just on the individual, but also on the individual's relatives, related groups, and populations. Furthermore, it creates large amounts of individual-specific digital information that is easy to share across international borders. This paper provides an overview of some of the key ethical issues around GWAS: consent, feedback of results, privacy, and the governance of research. Many of the questions that lie ahead of us in terms of the next generation sequencing methods will have been foreshadowed by GWAS and the debates around ethical and policy issues that these have created

Utilizing international networks for accelerating research and learning in transformational sustainability science

A promising approach for addressing sustainability problems is to recognize the unique conditions of a particular place, such as problem features and solution capabilities, and adopt and adapt solutions developed at other places around the world. Therefore, research and teaching in international networks becomes critical, as it allows for accelerating learning by sharing problem understandings, successful solutions, and important contextual considerations. This article identifies eight distinct types of research and teaching collaborations in international networks that can support such accelerated learning. The four research types are, with increasing intensity of collaboration: (1) solution adoption; (2) solution consultation; (3) joint research on different problems; and (4) joint research on similar problems. The four teaching types are, with increasing intensity of collaboration: (1) adopted course; (2) course with visiting faculty; (3) joint course with traveling faculty; and (4) joint course with traveling students. The typology is illustrated by extending existing research and teaching projects on urban sustainability in the International Network of Programs in Sustainability, with partner universities from Europe, North America, Asia, and Africa. The article concludes with challenges and strategies for extending individual projects into collaborations in international networks.Postprint (author's final draft

Metabolic control and bone health in adolescents with type 1 diabetes

<p>Abstract</p> <p>Background</p> <p>Adults with type 1 diabetes (T1D) have decreased bone mineral density (BMD) and increased fracture risk, yet the etiologies remain elusive. Early detection of derangements in bone biomarkers during adolescence could lead to timely recognition. In adolescents with T1D, we evaluated the relationships between metabolic control, BMD, and bone anabolic and turnover markers.</p> <p>Methods</p> <p>Cross-sectional study of 57 adolescent subjects with T1D who had HbA1c consistently ≥ 9% (Poor Control, PC n = 27) or < 9% (Favorable Control, FC n = 30) for two years prior to enrollment. Subjects had T1DM for at least three years and were without diabetes complications, known celiac disease, or other chronic diseases.</p> <p>Results</p> <p>There were no differences between HbA1c groups in BMD, components of the IGF system, or 25-hydroxyvitamin D status. The prevalence of 25-hydroxyvitamin D abnormalities was similar to that seen in the general adolescent population. Few patients met the recommended dietary allowance (RDA) for vitamin D or calcium.</p> <p>Conclusions</p> <p>These data provide no evidence of association between degree of metabolic control and BMD in adolescents with T1D. Adolescents with T1D have a high prevalence of serum 25-hydroxyvitamin D abnormalities. Longitudinal studies are needed to evaluate the predictive value of vitamin D abnormalities on fracture risk.</p

A Randomized Community-based Intervention Trial Comparing Faith Community Nurse Referrals to Telephone-Assisted Physician Appointments for Health Fair Participants with Elevated Blood Pressure

To measure the effect of faith community nurse referrals versus telephone-assisted physician appointments on blood pressure control among persons with elevated blood pressure at health fairs. Randomized community-based intervention trial conducted from October 2006 to October 2007 of 100 adults who had an average blood pressure reading equal to or above a systolic of 140 mm Hg or a diastolic of 90 mm Hg obtained at a faith community nurse-led church health event. Participants were randomized to either referral to a faith community nurse or to a telephone-assisted physician appointment. The average enrollment systolic blood pressure (SBP) was 149 ± 14 mm Hg, diastolic blood pressure (DBP) was 87 ± 11 mm Hg, 57% were uninsured and 25% were undiagnosed at the time of enrollment. The follow-up rate was 85% at 4 months. Patients in the faith community nurse referral arm had a 7 ± 15 mm Hg drop in SBP versus a 14 ± 15 mm Hg drop in the telephone-assisted physician appointment arm (p = 0.04). Twenty-seven percent of the patients in the faith community nurse referral arm had medication intensification compared to 32% in the telephone-assisted physician appointment arm (p = 0.98). Church health fairs conducted in low-income, multiethnic communities can identify many people with elevated blood pressure. Facilitating physician appointments for people with elevated blood pressure identified at health fairs confers a greater decrease in SBP than referral to a faith community nurse at four months

A Machine Learning Approach for Identifying Novel Cell Type–Specific Transcriptional Regulators of Myogenesis

Transcriptional enhancers integrate the contributions of multiple classes of transcription factors (TFs) to orchestrate the myriad spatio-temporal gene expression programs that occur during development. A molecular understanding of enhancers with similar activities requires the identification of both their unique and their shared sequence features. To address this problem, we combined phylogenetic profiling with a DNA–based enhancer sequence classifier that analyzes the TF binding sites (TFBSs) governing the transcription of a co-expressed gene set. We first assembled a small number of enhancers that are active in Drosophila melanogaster muscle founder cells (FCs) and other mesodermal cell types. Using phylogenetic profiling, we increased the number of enhancers by incorporating orthologous but divergent sequences from other Drosophila species. Functional assays revealed that the diverged enhancer orthologs were active in largely similar patterns as their D. melanogaster counterparts, although there was extensive evolutionary shuffling of known TFBSs. We then built and trained a classifier using this enhancer set and identified additional related enhancers based on the presence or absence of known and putative TFBSs. Predicted FC enhancers were over-represented in proximity to known FC genes; and many of the TFBSs learned by the classifier were found to be critical for enhancer activity, including POU homeodomain, Myb, Ets, Forkhead, and T-box motifs. Empirical testing also revealed that the T-box TF encoded by org-1 is a previously uncharacterized regulator of muscle cell identity. Finally, we found extensive diversity in the composition of TFBSs within known FC enhancers, suggesting that motif combinatorics plays an essential role in the cellular specificity exhibited by such enhancers. In summary, machine learning combined with evolutionary sequence analysis is useful for recognizing novel TFBSs and for facilitating the identification of cognate TFs that coordinate cell type–specific developmental gene expression patterns

Building an immune-mediated coagulopathy consensus: early recognition and evaluation to enhance post-surgical patient safety

Topical hemostats, fibrin sealants, and surgical adhesives are regularly used in a variety of surgical procedures involving multiple disciplines. Generally, these adjuncts to surgical hemostasis are valuable means for improving wound visualization, reducing blood loss or adding tissue adherence; however, some of these agents are responsible for under-recognized adverse reactions and outcomes. Bovine thrombin, for example, is a topical hemostat with a long history of clinical application that is widely used alone or in combination with other hemostatic agents. Hematologists and coagulation experts are aware that these agents can lead to development of an immune-mediated coagulopathy (IMC). A paucity of data on the incidence of IMC contributes to under-recognition and leaves many surgeons unaware that this clinical entity, originating from normal immune responses to foreign antigen exposure, requires enhanced post-operative vigilance and judicious clinical judgment to achieve best outcomes