A Digital Library Framework for Biodiversity Information Systems

Biodiversity information systems (BISs) involve all kinds of heterogeneous data, which include ecological and geographical features. However, available information systems offer very limited support for managing such data in an integrated fashion. Furthermore, such systems do not fully support image content management (e.g., photos of landscapes or living organisms), a requirement of many BIS end-users. In order to meet their needs, these users - e.g., biologists, environmental experts - often have to alternate between distinct biodiversity and image information systems to combine information extracted from them. This cumbersome operational procedure is forced on users by lack of interoperability among these systems. This hampers the addition of new data sources, as well as cooperation among scientists. The approach provided in this paper to meet these issues is based on taking advantage of advances in Digital Library (DL) innovations to integrate networked collections of heterogeneous data. It focuses on creating the basis for a biodiversity information system under the digital library perspective, combining new techniques of content-based image retrieval and database query processing mechanisms. This approach solves the problem of system switching, and provides users with a flexible architecture from which to tailor a BIS to their needs. To illustrate the use of this architecture, it has been instantiated to support the creation of a BIS for fish species in a real application. The goal is to help researchers on ichthyology to identify fish specimen by using search retrieval techniques. Experimental results suggest that this new approach improves the effectiveness of the fish identification process, if compared to the tradition key-based method

An OAI-based Digital Library Framework for Biodiversity Information Systems

Biodiversity information systems (BISs) involve all kinds of heterogeneous data, which include ecological and geographical features. However, available information systems offer very limited support for managing such data in an integrated fashion, and integration is often based on geographic coordinates alone. Furthermore, such systems do not fully support image content management (e.g., photos of landscapes or living organisms), a requirement of many BIS end-users. In order to meet their needs, these users - e.g., biologists, environmental experts - often have to alternate between distinct biodiversity and image information systems to combine information extracted from them. This cumbersome operational procedure is forced on users by lack of interoperability among these systems. This hampers the addition of new data sources, as well as cooperation among scientists. The approach provided in this paper to meet these issues is based on taking advantage of advances in Digital Library (DL) innovations to integrate networked collections of heterogeneous data. It focuses on creating the basis for a biodiversity information system under the digital library perspective, combining new techniques of content-based image retrieval and database query processing mechanisms. This approach solves the problem of system switching, and provides users with a flexible platform from which to tailor a BIS to their needs

Enhancement of radiosensitivity by the novel anticancer quinolone derivative vosaroxin in preclinical glioblastoma models

Purpose: Glioblastoma multiforme (GBM) is the most aggressive brain tumor. The activity of vosaroxin, a first-in-class anticancer quinolone derivative that intercalates DNA and inhibits topoisomerase II, was investigated in GBM preclinical models as a single agent and combined with radiotherapy (RT). Results: Vosaroxin showed antitumor activity in clonogenic survival assays, with IC50 of 10-100 nM, and demonstrated radiosensitization. Combined treatments exhibited significantly higher γH2Ax levels compared with controls. In xenograft models, vosaroxin reduced tumor growth and showed enhanced activity with RT; vosaroxin/RT combined was more effective than temozolomide/RT. Vosaroxin/ RT triggered rapid and massive cell death with characteristics of necrosis. A minor proportion of treated cells underwent caspase-dependent apoptosis, in agreement with in vitro results. Vosaroxin/RT inhibited RT-induced autophagy, increasing necrosis. This was associated with increased recruitment of granulocytes, monocytes, and undifferentiated bone marrow-derived lymphoid cells. Pharmacokinetic analyses revealed adequate blood-brain penetration of vosaroxin. Vosaroxin/RT increased disease-free survival (DFS) and overall survival (OS) significantly compared with RT, vosaroxin alone, temozolomide, and temozolomide/RT in the U251-luciferase orthotopic model. Materials and Methods: Cellular, molecular, and antiproliferative effects of vosaroxin alone or combined with RT were evaluated in 13 GBM cell lines. Tumor growth delay was determined in U87MG, U251, and T98G xenograft mouse models. (DFS) and (OS) were assessed in orthotopic intrabrain models using luciferasetransfected U251 cells by bioluminescence and magnetic resonance imaging. Conclusions: Vosaroxin demonstrated significant activity in vitro and in vivo in GBM models, and showed additive/synergistic activity when combined with RT in O6- methylguanine methyltransferase-negative and -positive cell lines

Exploring the Influence of Trauma-Informed Care on Pelvic Examinations for Women

Trauma-informed care (TIC) has become increasingly common in discussions regarding women’s health. TIC refers to a clinical approach that implements compassion, respect, and acknowledges the impact of trauma on patients. In the United States, pelvic exams are routinely performed on women over 21 for gynecological abnormalities. Many of these women present with histories of post-traumatic stress disorder, sexual violence, intimate partner violence, and other psychological comorbidities. These histories greatly influence women’s behaviors, including their likelihood to seek gynecological care in fear of being retraumatized. A literature search was conducted to determine the impact of TIC on the rates of women with histories of trauma who are receiving pelvic examinations. The literature search occurred on CINAHL, PubMed, and Nursing Reference Center databases using the following search terms: trauma-informed care, women’s health, and pelvic exams. A total of 11 articles met the inclusion criteria. While the results regarding rates of pelvic exams were inconclusive, TIC leads to better long-term health outcomes and may lead to an increased sense of control for patients. The literature indicates a common theme of clinicians feeling there is a lack of training or information regarding TIC. Additional recommendations include further research on interventions that should be implemented, such as explanation of exams; allowing patients to be involved in their care, and collecting pertinent trauma history on patients. Trauma can have a major impact on all aspects of women’s health and further studies are needed to determine best approaches to implementation

Upregulation of cathepsin D in the caudate nucleus of primates with experimental parkinsonism

<p>Abstract</p> <p>Background</p> <p>In Parkinson's disease there is progressive loss of dopamine containing neurons in the substantia nigra pars compacta. The neuronal damage is not limited to the substantia nigra but progresses to other regions of brain, leading to loss of motor control as well as cognitive abnormalities. The purpose of this study was to examine causes of progressive damage in the caudate nucleus, which plays a major role in motor coordination and cognition, in experimental Parkinson's disease.</p> <p>Results</p> <p>Using chronic 1-methyl-4phenyl-1,2,3,6-tetrahydropyridine treatment of rhesus monkeys to model Parkinson's disease, we found a upregulation of Cathepsin D, a lysosomal aspartic protease, in the caudate nucleus of treated monkeys. Immunofluorescence analysis of caudate nucleus brain tissue showed that the number of lysosomes increased concurrently with the increase in Cathepsin D in neurons. <it>In vitro </it>overexpression of Cathepsin D in a human neuroblastoma cell line led to a significant increase in the number of the lysosomes. Such expression also resulted in extralysosomal Cathepsin D and was accompanied by significant neuronal death associated with caspase activation. We examined apoptotic markers and found a strong correlation of Cathepsin D overexpression to apoptosis.</p> <p>Conclusions</p> <p>Following damage to the substantia nigra resulting in experimental Parkinson's disease, we have identified pathological changes in the caudate nucleus, a likely site of changes leading to the progression of disease. Cathepsin D, implicated in pathogenic mechanisms in other disorders, was increased, and our <it>in vitro </it>studies revealed its overexpression leads to cellular damage and death. This work provides important clues to the progression of Parkinson's, and provides a new target for strategies to ameliorate the progression of this disease.</p

The morphing of decay powered to interaction powered Type II supernova ejecta at nebular times

Much excitement surrounds the intense mass loss that seems to take place in some massive stars immediately before core collapse. However, occurring too late, it has a negligible impact on the star's evolution or the final yields, which are influenced instead by the longer-term, quasi-steady mass loss taking place during H and He burning. Late-time observations of core-collapse supernovae interacting with the progenitor wind are one means to constrain this secular mass loss. Here, we present radiative transfer calculations for a Type II SN with and without this interaction power, focusing on the phase between 350 and 1000d after explosion. Without interaction power, the ejecta are powered through radioactive decay whose exponential decline produces an ever-fading SN. Instead, with a constant interaction power of $10^{40}$ erg s$^{-1}$ (representative of an SN II ramming into a steady-state $10^{-6} M_\odot$ yr$^{-1}$ wind), the spectrum morphs from decay powered at 350d, with narrow lines forming in the inner metal-rich ejecta, to interaction powered at 1000d, with broad boxy lines forming in the outer H-rich ejecta. Intermediate times are characterized by a hybrid and complex spectrum made of overlapping narrow and broad lines. While interaction boosts primarily the flux in the ultraviolet, which remains largely unobserved today, a knee in the $R$-band light curve or a $U$-band boost are clear signatures of interaction at late times. The model predictions compare favorably with a number of Type II supernovae including SN 2004et or SN 2017eaw at 500-1000d after explosion.Comment: submitted to A&

Blobs in Wolf-Rayet Winds: Random Photometric and Polarimetric Variability

Some isolated Wolf-Rayet stars present random variability in their optical flux and polarization. We make the assumption that such variability is caused by the presence of regions of enhanced density, i.e. blobs, in their envelopes. In order to find the physical characteristics of such regions we have modeled the stellar emission using a Monte Carlo code to treat the radiative transfer in an inhomogeneous electron scattering envelope. We are able to treat multiple scattering in the regions of enhanced density as well as in the envelope itself. The finite sizes of the source and structures in the wind are also taken into account. Most of the results presented here are based on a parameter study of models with a single blob. The effects due to multiple blobs in the envelope are considered to a more limited extent. Our simulations indicate that the density enhancements must have a large geometric cross section in order to produce the observed photopolarimetric variability. The sizes must be of the order of one stellar radius and the blobs must be located near the base of the envelope. These sizes are the same inferred from the widths of the sub-peaks in optical emission lines of Wolf-Rayet stars. Other early-type stars show random polarimetric fluctuations with characteristics similar to those observed in Wolf-Rayet stars, which may also be interpreted in terms of a clumpy wind. Although the origin of such structures is still unclear, the same mechanism may be working in different types of hot stars envelopes to produce such inhomogeneities.Comment: Accepted to ApJ. 17 pages + 6 figure

Behavior, sensitivity, and power of activation likelihood estimation characterized by massive empirical simulation

Given the increasing number of neuroimaging publications, the automated knowledge extraction on brain-behavior associations by quantitative meta-analyses has become a highly important and rapidly growing field of research. Among several methods to perform coordinate-based neuroimaging meta-analyses, Activation Likelihood Estimation (ALE) has been widely adopted. In this paper, we addressed two pressing questions related to ALE meta-analysis: i) Which thresholding method is most appropriate to perform statistical inference? ii) Which sample size, i.e., number of experiments, is needed to perform robust meta-analyses? We provided quantitative answers to these questions by simulating more than 120,000 meta-analysis datasets using empirical parameters (i.e., number of subjects, number of reported foci, distribution of activation foci) derived from the BrainMap database. This allowed to characterize the behavior of ALE analyses, to derive first power estimates for neuroimaging meta-analyses, and to thus formulate recommendations for future ALE studies. We could show as a first consequence that cluster-level family-wise error (FWE) correction represents the most appropriate method for statistical inference, while voxel-level FWE correction is valid but more conservative. In contrast, uncorrected inference and false-discovery rate correction should be avoided. As a second consequence, researchers should aim to include at least 20 experiments into an ALE meta-analysis to achieve sufficient power for moderate effects. We would like to note, though, that these calculations and recommendations are specific to ALE and may not be extrapolated to other approaches for (neuroimaging) meta-analysis