Lead Optimization of HMBA to Develop Potent HEXIM1 Inducers

The potency of a series of Hexamethylene bis-acetamide (HMBA) derivatives inducing Hexamethylene bis-acetamide inducible protein 1 (HEXIM1) was determined in LNCaP prostate cancer cells. Several compounds with unsymmetrical structures showed significantly improved activity. Distinct from HMBA, these analogs have increased hydrophobicity and can improve the short half-life of HMBA, which is one of the factors that have limited the application of HMBA in clinics. The unsymmetrical scaffolds of the new analogs provide the basis for further lead optimization of the compounds using combinatorial chemistry strategy

Development and validation of a pragmatic natural language processing approach to identifying falls in older adults in the emergency department

BACKGROUND: Falls among older adults are both a common reason for presentation to the emergency department, and a major source of morbidity and mortality. It is critical to identify fall patients quickly and reliably during, and immediately after, emergency department encounters in order to deliver appropriate care and referrals. Unfortunately, falls are difficult to identify without manual chart review, a time intensive process infeasible for many applications including surveillance and quality reporting. Here we describe a pragmatic NLP approach to automating fall identification. METHODS: In this single center retrospective review, 500 emergency department provider notes from older adult patients (age 65 and older) were randomly selected for analysis. A simple, rules-based NLP algorithm for fall identification was developed and evaluated on a development set of 1084 notes, then compared with identification by consensus of trained abstractors blinded to NLP results. RESULTS: The NLP pipeline demonstrated a recall (sensitivity) of 95.8%, specificity of 97.4%, precision of 92.0%, and F1 score of 0.939 for identifying fall events within emergency physician visit notes, as compared to gold standard manual abstraction by human coders. CONCLUSIONS: Our pragmatic NLP algorithm was able to identify falls in ED notes with excellent precision and recall, comparable to that of more labor-intensive manual abstraction. This finding offers promise not just for improving research methods, but as a potential for identifying patients for targeted interventions, quality measure development and epidemiologic surveillance

A strategy to tailor the mechanical and degradation properties of PCL-PEG-PCL based copolymers for biomedical application

Biodegradable and biocompatible 3D printable biomaterials with tunable mechanical properties and degradation rate adapted to target tissues were urgently required to manufacture scaffolds for tissue regeneration. Herein, a strategy based on a series of copolymers are proposed where the mechanical and degradation properties can be optimized regarding the specific biological application. With this purpose, poly($\epsilon$-caprolactone)-poly(ethylene glycol)-poly($\epsilon$-caprolactone) (PCL-PEG-PCL, PCEC) triblock co-polymers with high molecular weight were synthesized by using PEG with a wide range of molecular weight (from 0.6 kg/mol to 35 kg/mol) as macroinitiators. PCEC copolymers exhibited tunable mechanical properties with an elastic modulus in the range 338-705 MPa and a degradation rate from 60% mass loss after 8 h to 70% mass loss after 23 days in accelerated tests, as well as excellent cytocompatibility and cell attachment after culture with mouse fibroblast L929 cells. The mechanisms responsible for these properties were ascertained by means of different techniques to ascertain the structure-property relationship in PCEC copolymers. Furthermore, it was shown that it is possible to manufacture PCEC scaffolds by 3D printing with excellent dimensional accuracy and controlled microporosity. This study provides a promising strategy to design, select, and fabricate copolymers with tunable mechanical properties and degradation rate for tissue engineering applications

Cellular Expression of Smarca4 (Brg1)-regulated Genes in Zebrafish Retinas

<p>Abstract</p> <p>Background</p> <p>In a recent genomic study, Leung et al. used a factorial microarray analysis to identify Smarca4 (Brg1)-regulated genes in micro-dissected zebrafish retinas. Two hundred and fifty nine genes were grouped in three-way ANOVA models which carried the most specific retinal change. To validate the microarray results and to elucidate cellular expression patterns of the significant genes for further characterization, 32 known genes were randomly selected from this group. <it>In situ </it>hybridization of these genes was performed on the same types of samples (wild-type (WT) and <it>smarca4^a50/a50</it>(<it>yng</it>) mutant) at the same stages (36 and 52 hours post-fertilization (hpf)) as in the microarray study.</p> <p>Results</p> <p>Thirty out of 32 riboprobes showed a positive <it>in situ </it>staining signal. Twenty seven out of these 30 genes were originally further classified as Smarca4-regulated retinal genes, while the remaining three as retinal-specific expression independent of Smarca4 regulation. It was found that 90.32% of the significant microarray comparisons that were used to identify Smarca4-regulated retinal genes had a corresponding qualitative expression change in the <it>in situ </it>hybridization comparisons. This is highly concordant with the theoretical true discovery rate of 95%. Hierarchical clustering was used to investigate the similarity of the cellular expression patterns of 25 out of the 27 Smarca4-regulated retinal genes that had a sufficiently high expression signal for an unambiguous identification of retinal expression domains. Three broad groups of expression pattern were identified; including 1) photoreceptor layer/outer nuclear layer specific expression at 52 hpf, 2) ganglion cell layer (GCL) and/or inner nuclear layer (INL) specific expression at both 36 & 52 hpf, and 3) GCL and/or INL specific expression at 52 hpf only. Some of these genes have recently been demonstrated to play key roles in retinal cell-type specification, differentiation and lamination. For the remaining three retinal-specific genes that are independent of Smarca4 regulation, they all had a subtle expression difference between WT and <it>smarca4^a50/a50</it>retinas as detected by <it>in situ </it>hybridization. This subtle expression difference was also detected by the original microarray analysis. However, the difference was lower than the fold change cut-off used in that study and hence these genes were not inferred as Smarca4-regulated retinal genes.</p> <p>Conclusions</p> <p>This study has successfully investigated the expression pattern of 32 genes identified from the original factorial microarray analysis. The results have demonstrated that the true discovery rate for identifying Smarca4-regulated retinal genes is 90.3%. Hence, the significant genes from the microarray study are good candidates for cell-type specific markers and will aid further investigation of retinal differentiation.</p

Eosinophil as a cellular target of the ocular anti-allergic action of mapracorat, a novel selective glucocorticoid receptor agonist

Abstract: Purpose: Glucocorticoids can either suppress gene transcription (transrepression) or activate it (transactivation). This latter process may contribute to certain side effects caused by these agents. Mapracorat (also known as BOL-303242-X or ZK 245186) is a novel selective glucocorticoid receptor agonist that maintains a beneficial anti-inflammatory activity but seems to be less effective in transactivation, resulting in a lower potential for side effects; it has been proposed for the topical treatment of inflammatory skin disorders. This study assessed the anti-allergic activity of mapracorat at the ocular level and whether eosinophils and mast cells are targets of its action

Evaluation of the 50% infectious dose of human norovirus cin-2 in gnotobiotic pigs: a comparison of classical and contemporary methods for endpoint estimation

Human noroviruses (HuNoVs) are the leading causative agents of epidemic and sporadic acute gastroenteritis that affect people of all ages worldwide. However, very few dose?response studies have been carried out to determine the median infectious dose of HuNoVs. In this study, we evaluated the median infectious dose (ID50) and diarrhea dose (DD50) of the GII.4/2003 variant of HuNoV (Cin-2) in the gnotobiotic pig model of HuNoV infection and disease. Using various mathematical approaches (Reed?Muench, Dragstedt?Behrens, Spearman?Karber, exponential, approximate beta-Poisson dose?response models, and area under the curve methods), we estimated the ID50 and DD50 to be between 2400?3400 RNA copies, and 21,000?38,000 RNA copies, respectively. Contemporary dose?response models offer greater flexibility and accuracy in estimating ID50. In contrast to classical methods of endpoint estimation, dose?response modelling allows seamless analyses of data that may include inconsistent dilution factors between doses or numbers of subjects per dose group, or small numbers of subjects. Although this investigation is consistent with state-of-the-art ID50 determinations and offers an advancement in clinical data analysis, it is important to underscore that such analyses remain confounded by pathogen aggregation. Regardless, challenging virus strain ID50 determination is crucial for identifying the true infectiousness of HuNoVs and for the accurate evaluation of protective efficacies in pre-clinical studies of therapeutics, vaccines and other prophylactics using this reliable animal model.Fil: Ramesh, Ashwin K.. Virginia-Maryland College of Veterinary Medicine; Estados UnidosFil: Parreño, Gladys Viviana. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación En Ciencias Veterinarias y Agronómicas. Instituto de Virología E Innovaciones Tecnológicas. - Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Pque. Centenario. Instituto de Virología E Innovaciones Tecnológicas; ArgentinaFil: Schmidt, Philip J.. University of Waterloo; CanadáFil: Lei, Shaohua. Virginia-Maryland College of Veterinary Medicine; Estados UnidosFil: Zhong, Weiming. Cincinnati Children’s Hospital Medical Center; Estados UnidosFil: Jiang, Xi. Cincinnati Children’s Hospital Medical Center; Estados UnidosFil: Emelko, Monica B.. University of Waterloo; CanadáFil: Yuan, Lijuan. Virginia-Maryland College of Veterinary Medicine; Estados Unido

Post-extinction brachiopod faunas from the late Permian Wuchiapingian coal series of South China

This paper describes fourteen brachiopod species in eleven genera from the Late Permian Wuchiapingian Coal Series (Lungtan Formation) of South China. Of these, the shell bed fauna from the basal Lungtan Formation is interpreted to represent the onset of the recovery of shelly faunas in the aftermath of the Guadalupian/Lopingian (G/L) mass extinction in South China. The post-extinction brachiopod faunas in the Wuchiapingian are characterized by the presence of numerous Lazarus taxa, survivors, and newly originating taxa. These elements capable of adapting their life habits were relatively more resistant to the G/L crisis. The post-extinction faunas, including survivors and the elements originating in the recovery period, have no life habit preference, but they were all adapted to a variety of newly vacated niches in the Late Permian oceans. Two new species, Meekella beipeiensis and Niutoushania chongqingensis, are described, and two Chinese genera, Niutoushania and Chengxianoproductus, are emended based on re-examination of the type specimens and new topotype materials from the Lungtan Formation.<br /

Evaluating EDGARv4.tox2 speciated mercury emissions ex-post scenarios and their impacts on modelled global and regional wet deposition patterns

Speciated mercury gridded emissions inventories together with chemical transport models and concentration measurements are essential when investigating both the effectiveness of mitigation measures and the mercury cycle in the environment. Since different mercury species have contrasting behaviour in the atmosphere, their proportion in anthropogenic emissions could determine the spatial impacts. In this study, the time series from 1970 to 2012 of the EDGARv4.tox2 global mercury emissions inventory are described; the total global mercury emission in 2010 is 1772 tonnes. Global grid-maps with geospatial distribution of mercury emissions at a 0.1° × 0.1° resolution are provided for each year. Compared to the previous tox1 version, tox2 provides updates for more recent years and improved emissions in particular for agricultural waste burning, power generation and artisanal and small-scale gold mining (ASGM) sectors. We have also developed three retrospective emissions scenarios based on different hypotheses related to the proportion of mercury species in the total mercury emissions for each activity sector; improvements in emissions speciation are seen when using information primarily from field measurements. We evaluated them using the GEOS-Chem 3-D mercury model in order to explore the influence of speciation shifts, to reactive mercury forms in particular, on regional wet deposition patterns. The reference scenario S1 (EDGARv4.tox2_S1) uses speciation factors from the Arctic Monitoring and Assessment Programme (AMAP); scenario S2 (“EPA_power”) uses factors from EPA's Information Collection Request (ICR); and scenario S3 (“Asia_filedM”) factors from recent scientific publications. In the reference scenario, the sum of reactive mercury emissions (Hg-P and Hg 2+ ) accounted for 25.3% of the total global emissions; the regions/countries that have shares of reactive mercury emissions higher than 6% in total global reactive mercury are China+ (30.9%), India+ (12.5%) and the United States (9.9%). In 2010, the variations of reactive mercury emissions amongst the different scenarios are in the range of −19.3 t/yr (China+) to 4.4 t/yr (OECD_Europe). However, at the sector level, the variation could be different, e.g., for the iron and steel industry in China reaches 15.4 t/yr. Model evaluation at the global level shows a variation of approximately ±10% in wet deposition for the three emissions scenarios. An evaluation of the impact of mercury speciation within nested grid sensitivity simulations is performed for the United States and modelled wet deposition fluxes are compared with measurements. These studies show that using the S2 and S3 emissions of reactive mercury, can improve wet deposition estimates near sources

Size Evolution of Ordered SiGe Islands Grown by Surface Thermal Diffusion on Pit-Patterned Si(100) Surface

The ordered growth of self-assembled SiGe islands by surface thermal diffusion in ultra high vacuum from a lithographically etched Ge stripe on pit-patterned Si(100) surface has been experimentally investigated. The total surface coverage of Ge strongly depends on the distance from the source stripe, as quantitatively verified by Scanning Auger Microscopy. The size distribution of the islands as a function of the Ge coverage has been studied by coupling atomic force microscopy scans with Auger spectro-microscopy data. Our observations are consistent with a physical scenario where island positioning is essentially driven by energetic factors, which predominate with respect to the local kinetics of diffusion, and the growth evolution mainly depends on the local density of Ge atoms

Adipose Tissue-Derived Stem Cells Retain Their Adipocyte Differentiation Potential in Three-Dimensional Hydrogels and Bioreactors

Osteoarthritis (OA) is a common joint disorder with a significant economic and healthcare impact. The knee joint is composed of cartilage and the adjoining bone, a synovial capsule, the infrapatellar fat pad (IPFP), and other connective tissues such as tendons and ligaments. Adipose tissue has recently been highlighted as a major contributor to OA through strong inflammation mediating effects. In this study, methacrylated gelatin (GelMA) constructs seeded with adipose tissue-derived mesenchymal stem cells (ASCs) and cultured in a 3D printed bioreactor were investigated for use in microphysiological systems to model adipose tissue in the knee joint. Four patient-derived ASC populations were seeded at a density of 20 million cells/mL in GelMA. Live/Dead and boron-dipyrromethene/4′,6-diamidino-2-phenylindole (BODIPY/DAPI) staining of cells within the constructs demonstrated robust cell viability after 28 days in a growth (control) medium, and robust cell viability and lipid accumulation in adipogenic differentiation medium. qPCR gene expression analysis and protein analysis demonstrated an upregulated expression of key adipogenesis-associated genes. Overall, these data indicate that ASCs retain their adipogenic potential when seeded within GelMA hydrogels and cultured within perfusion bioreactors, and thus can be used in a 3D organ-on-a-chip system to study the role of the IPFP in the pathobiology of the knee OA