Fossil slabs attached to unsubducted fragments of the Farallon plate

As the Pacific–Farallon spreading center approached North America, the Farallon plate fragmented into a number of small plates. Some of the microplate fragments ceased subducting before the spreading center reached the trench. Most tectonic models have assumed that the subducting oceanic slab detached from these microplates close to the trench, but recent seismic tomography studies have revealed a high-velocity anomaly beneath Baja California that appears to be a fossil slab still attached to the Guadalupe and Magdalena microplates. Here, using surface wave tomography, we establish the lateral extent of this fossil slab and show that it is correlated with the distribution of high-Mg andesites thought to derive from partial melting of the subducted oceanic crust. We also reinterpret the high seismic velocity anomaly beneath the southern central valley of California as another fossil slab extending to a depth of 200 km or more that is attached to the former Monterey microplate. The existence of these fossil slabs may force a reexamination of models of the tectonic evolution of western North America over the last 30 My

National Mesothelioma Virtual Bank: A standard based biospecimen and clinical data resource to enhance translational research

Background: Advances in translational research have led to the need for well characterized biospecimens for research. The National Mesothelioma Virtual Bank is an initiative which collects annotated datasets relevant to human mesothelioma to develop an enterprising biospecimen resource to fulfill researchers' need. Methods: The National Mesothelioma Virtual Bank architecture is based on three major components: (a) common data elements (based on College of American Pathologists protocol and National North American Association of Central Cancer Registries standards), (b) clinical and epidemiologic data annotation, and (c) data query tools. These tools work interoperably to standardize the entire process of annotation. The National Mesothelioma Virtual Bank tool is based upon the caTISSUE Clinical Annotation Engine, developed by the University of Pittsburgh in cooperation with the Cancer Biomedical Informatics Grid™ (caBIG™, see http://cabig.nci.nih.gov). This application provides a web-based system for annotating, importing and searching mesothelioma cases. The underlying information model is constructed utilizing Unified Modeling Language class diagrams, hierarchical relationships and Enterprise Architect software. Result: The database provides researchers real-time access to richly annotated specimens and integral information related to mesothelioma. The data disclosed is tightly regulated depending upon users' authorization and depending on the participating institute that is amenable to the local Institutional Review Board and regulation committee reviews. Conclusion: The National Mesothelioma Virtual Bank currently has over 600 annotated cases available for researchers that include paraffin embedded tissues, tissue microarrays, serum and genomic DNA. The National Mesothelioma Virtual Bank is a virtual biospecimen registry with robust translational biomedical informatics support to facilitate basic science, clinical, and translational research. Furthermore, it protects patient privacy by disclosing only de-identified datasets to assure that biospecimens can be made accessible to researchers. © 2008 Amin et al; licensee BioMed Central Ltd

Rare earth element fluorocarbonate minerals from the olympic dam Cu-U-Au-Ag deposit, South Australia

Olympic Dam is a world-class breccia-hosted iron-oxide copper-gold-uranium ore deposit located in the Gawler Craton, South Australia. It contains elevated concentrations of rare earth elements (REE) which occur as the REE minerals bastnäsite, synchysite, florencite, monazite, and xenotime. This is the first study to focus on the mineralogy and composition of the most abundant REE mineral at Olympic Dam, bastnäsite, and subordinate synchysite. The sample suite extends across the deposit and represents different sulfide mineralization styles (chalcopyrite-bornite and bornite-chalcocite) and breccias of various types, ranging from those dominated by clasts of granite, dykes, and hematite. The REE-fluorocarbonates (bastnäsite and synchysite) typically occur as fine-grained (<50 m) disseminations in Cu-Fe-sulfides and gangue minerals, and also within breccia matrix. They are also locally concentrated within macroscopic REE-mineral-rich pockets at various locations across the deposit. Such coarse-grained samples formed the primary target of this study. Three general textural groups of bastnäsite are recognized: matrix (further divided into disseminated, fine-grained, and stubby types), irregular (sulfide-associated), and clast replacement. Textures are largely driven by the specific location and prevailing mineral assemblage, with morphology and grain size often controlled by the associated minerals (hematite, sulfides). Major element concentration data reveal limited compositional variation among the REE-fluorocarbonates; all are Ce-dominant. Subtle compositional differences among REE-fluorocarbonates define a spectrum from relatively La-enriched to (Ce + Nd)-enriched phases. Granite-derived hydrothermal fluids were the likely source of F in the REE-fluorocarbonates, as well as some of the CO₂, which may also have been contributed by associated mafic-ultramafic magmatism. However, transport of REE by Cl-ligands is the most likely scenario. Stubby bastnäsite and synchysite may have formed earlier, coincident with hydrothermal alteration of granite releasing Ca from feldspars. Other categories of bastnäsite, notably those co-existing with sulfides, and reaching the top of the IOCG mineralization at Olympic Dam (chalcocite + bornite zone) are relatively younger. Such an interpretation is concordant with subtle changes in the REE patterns for the different categories. The common association of bastnäsite and fluorite throughout the deposit is typical of the hematite breccias and can be deposited from neutral, slightly acidic fluids (sericite stability) at T ≈ 300 °C.Danielle S. Schmandt, Nigel J. Cook, Cristiana L. Ciobanu, Kathy Ehrig, Benjamin P. Wade, Sarah Gilbert and Vadim S. Kamenetsk

The development and deployment of Common Data Elements for tissue banks for translational research in cancer – An emerging standard based approach for the Mesothelioma Virtual Tissue Bank

<p>Abstract</p> <p>Background</p> <p>Recent advances in genomics, proteomics, and the increasing demands for biomarker validation studies have catalyzed changes in the landscape of cancer research, fueling the development of tissue banks for translational research. A result of this transformation is the need for sufficient quantities of clinically annotated and well-characterized biospecimens to support the growing needs of the cancer research community. Clinical annotation allows samples to be better matched to the research question at hand and ensures that experimental results are better understood and can be verified. To facilitate and standardize such annotation in bio-repositories, we have combined three accepted and complementary sets of data standards: the College of American Pathologists (CAP) Cancer Checklists, the protocols recommended by the Association of Directors of Anatomic and Surgical Pathology (ADASP) for pathology data, and the North American Association of Central Cancer Registry (NAACCR) elements for epidemiology, therapy and follow-up data. Combining these approaches creates a set of International Standards Organization (ISO) – compliant Common Data Elements (CDEs) for the mesothelioma tissue banking initiative supported by the National Institute for Occupational Safety and Health (NIOSH) of the Center for Disease Control and Prevention (CDC).</p> <p>Methods</p> <p>The purpose of the project is to develop a core set of data elements for annotating mesothelioma specimens, following standards established by the CAP checklist, ADASP cancer protocols, and the NAACCR elements. We have associated these elements with modeling architecture to enhance both syntactic and semantic interoperability. The system has a Java-based multi-tiered architecture based on Unified Modeling Language (UML).</p> <p>Results</p> <p>Common Data Elements were developed using controlled vocabulary, ontology and semantic modeling methodology. The CDEs for each case are of different types: demographic, epidemiologic data, clinical history, pathology data including block level annotation, and follow-up data including treatment, recurrence and vital status. The end result of such an effort would eventually provide an increased sample set to the researchers, and makes the system interoperable between institutions.</p> <p>Conclusion</p> <p>The CAP, ADASP and the NAACCR elements represent widely established data elements that are utilized in many cancer centers. Herein, we have shown these representations can be combined and formalized to create a core set of annotations for banked mesothelioma specimens. Because these data elements are collected as part of the normal workflow of a medical center, data sets developed on the basis of these elements can be easily implemented and maintained.</p

Opportunities and challenges for data physicalization

Physical representations of data have existed for thousands of years. Yet it is now that advances in digital fabrication, actuated tangible interfaces, and shape-changing displays are spurring an emerging area of research that we call Data Physicalization. It aims to help people explore, understand, and communicate data using computer-supported physical data representations. We call these representations physicalizations, analogously to visualizations -- their purely visual counterpart. In this article, we go beyond the focused research questions addressed so far by delineating the research area, synthesizing its open challenges and laying out a research agenda

Therapeutic Targeting of ATP7B in Ovarian Carcinoma.

PURPOSE: Resistance to platinum chemotherapy remains a significant problem in ovarian carcinoma. Here, we examined the biological mechanisms and therapeutic potential of targeting a critical platinum resistance gene, ATP7B, using both in vitro and in vivo models. EXPERIMENTAL DESIGN: Expression of ATP7A and ATP7B was examined in ovarian cancer cell lines by real-time reverse transcription-PCR and Western blot analysis. ATP7A and ATP7B gene silencing was achieved with targeted small interfering RNA (siRNA) and its effects on cell viability and DNA adduct formation were examined. For in vivo therapy experiments, siRNA was incorporated into the neutral nanoliposome 1,2-dioleoyl-sn-glycero-3-phosphatidylcholine (DOPC). RESULTS: ATP7A and ATP7B genes were expressed at higher levels in platinum-resistant cells compared with sensitive cells; however, only differences in ATP7B reached statistical significance. ATP7A gene silencing had no significant effect on the sensitivity of resistant cells to cisplatin, but ATP7B silencing resulted in 2.5-fold reduction of cisplatin IC(50) levels and increased DNA adduct formation in cisplatin-resistant cells (A2780-CP20 and RMG2). Cisplatin was found to bind to the NH(2)-terminal copper-binding domain of ATP7B, which might be a contributing factor to cisplatin resistance. For in vivo therapy experiments, ATP7B siRNA was incorporated into DOPC and was highly effective in reducing tumor growth in combination with cisplatin (70-88% reduction in both models compared with controls). This reduction in tumor growth was accompanied by reduced proliferation, increased tumor cell apoptosis, and reduced angiogenesis. CONCLUSION: These data provide a new understanding of cisplatin resistance in cancer cells and may have implications for therapeutic reversal of drug resistance

Focal Adhesion Kinase Silencing Augments Docetaxel-Mediated Apoptosis in Ovarian Cancer Cells

Docetaxel causes cell death through induction of apoptosis; however, cell death characteristics for docetaxel have not yet been fully elucidated. We examined the role of focal adhesion kinase (FAK) cleavage in docetaxel-mediated apoptosis

Seismic signature of mudflow tremor resulted from Brumadinho (Brazil) tailings dam failure

Mudflow is often associated with seismic activities. The present study applied a seismic based detection of the surface waves generated by the mudflow of Brumadinho dam collapse using records of Brazilian Seismographic Network. The signal envelope and time-frequency spectrograms of the mudflow signals were used in the analysis. As a result, the mudflow signals were successfully detected from the data recorded at a nearby seismic station. The findings of this study provide a good basis for future research to develop a flood early warning system based on cost-effective, remote and contentious seismic monitoring approaches.University of São Paulo, Improvement of Higher Education Personnel - Brasil (CAPES) - Finance Code 001. National Council for Scientific and Technological Development (CNPq Grant 304721/2017-4). University of Brasília