Crowd Sourced Semantic Enrichment (CroSSE) for knowledge driven querying of digital resources

Today, most information sources provide factual, objective knowledge, but they fail to capture personalized contextual knowledge which could be used to enrich the available factual data and contribute to their interpretation, in the context of the knowledge of the user who queries the system. This would require a knowledge framework which can accommodate both objective data and seman- tic enrichments that capture user provided knowledge associated to the factual data in the database. Unfortunately, most conventional DBMSs lack the flexibilities necessary (a) to prevent the data and metadata, evolve quickly with changing application requirements and (b) to capture user-provided and/or crowdsourced data and knowledge for more effective decision support. In this paper, we present CrowdSourced Semantic Enrichment (CroSSE) knowledge framework which al- lows traditional databases and semantic enrichment modules to coexist. CroSSE provides a novel Semantically Enriched SQL (SESQL) language to enrich SQL queries with information from a knowledge base containing semantic annotations. We describe CroSSE and SESQL with examples taken from our SmartGround EU project

ASPM and CITK regulate spindle orientation by affecting the dynamics of astral microtubules.

Correct orientation of cell division is considered an important factor for the achievement of normal brain size, as mutations in genes that affect this process are among the leading causes of microcephaly. Abnormal spindle orientation is associated with reduction of the neuronal progenitor symmetric divisions, premature cell cycle exit, and reduced neurogenesis. This mechanism has been involved in microcephaly resulting from mutation of ASPM, the most frequently affected gene in autosomal recessive human primary microcephaly (MCPH), but it is presently unknown how ASPM regulates spindle orientation. In this report, we show that ASPM may control spindle positioning by interacting with citron kinase (CITK), a protein whose loss is also responsible for severe microcephaly in mammals. We show that the absence of CITK leads to abnormal spindle orientation in mammals and insects. In mouse cortical development, this phenotype correlates with increased production of basal progenitors. ASPM is required to recruit CITK at the spindle, and CITK overexpression rescues ASPM phenotype. ASPM and CITK affect the organization of astral microtubules (MT), and low doses of MT-stabilizing drug revert the spindle orientation phenotype produced by their knockdown. Finally, CITK regulates both astral-MT nucleation and stability. Our results provide a functional link between two established microcephaly proteins

Smart ground project: a new approach to data accessibility and collection for raw materials and secondary raw materials in Europe

Steady Raw Materials (RM) supply is essential for the EU economy and increasingly under pressure to sustain the businesses and industries demand. The supply of RM is not only a matter of availability of primary but also of secondary raw materials (SRM). In fact a great amount of waste can be regained as practical and valuable SRM by enhancing the recovery processes from industrial, mining and municipal landfill sites, especially if we consider that Europe is highly dependent on the imports of several RM. Nevertheless, there is to date no inventory of SRM at EU level. Smart Ground project aims to facilitate the availability and accessibility of data and information on SRM in the EU, as well as creating synergy and collaboration between the different stakeholders involved in the SRM value chain. In order to do so, the Smart Ground consortium is carrying out a set of activities to integrate in a single EU database all the data from existing sources and new information retrieving pilot landfills as progress is made. Such database will enable the exchange of contacts and information among the relevant stakeholders, interested in providing or obtaining SRM. Finally, Smart Ground project will also spin out the SRM economy and employment thanks to targeted training activities, organized during congresses and dedicated meeting with stakeholders and end users interested in calculating the potentiality for SRM recovery from selected landfills, contemporary constituting a dedicated network of stakeholders committed to cost-effective research, technology transfer and training

Pitfalls in assessing stromal tumor infiltrating lymphocytes (sTILs) in breast cancer

Abstract: Stromal tumor-infiltrating lymphocytes (sTILs) are important prognostic and predictive biomarkers in triple-negative (TNBC) and HER2-positive breast cancer. Incorporating sTILs into clinical practice necessitates reproducible assessment. Previously developed standardized scoring guidelines have been widely embraced by the clinical and research communities. We evaluated sources of variability in sTIL assessment by pathologists in three previous sTIL ring studies. We identify common challenges and evaluate impact of discrepancies on outcome estimates in early TNBC using a newly-developed prognostic tool. Discordant sTIL assessment is driven by heterogeneity in lymphocyte distribution. Additional factors include: technical slide-related issues; scoring outside the tumor boundary; tumors with minimal assessable stroma; including lymphocytes associated with other structures; and including other inflammatory cells. Small variations in sTIL assessment modestly alter risk estimation in early TNBC but have the potential to affect treatment selection if cutpoints are employed. Scoring and averaging multiple areas, as well as use of reference images, improve consistency of sTIL evaluation. Moreover, to assist in avoiding the pitfalls identified in this analysis, we developed an educational resource available at www.tilsinbreastcancer.org/pitfalls