SSTRED: A data-processing and metadata-generating pipeline for CHROMIS and CRISP

We present a data pipeline for the newly installed SST/CHROMIS imaging spectrometer, as well as for the older SST/CRISP spectropolarimeter. The aim is to provide observers with a user-friendly data pipeline, that delivers science-ready data with the metadata needed for archival. We generalized the CRISPRED data pipeline for multiple instruments and added metadata according to recommendations worked out as part of the SOLARNET project. We made improvements to several steps in the pipeline, including the MOMFBD image restoration. A part of that is a new fork of the MOMFBD program called REDUX, with several new features that are needed in the new pipeline. The CRISPEX data viewer has been updated to accommodate data cubes stored in this format. The pipeline code, as well as REDUX and CRISPEX are all freely available through git repositories or web download. We derive expressions for combining statistics of individual frames into statistics for a set of frames. We define a new extension to the World Coordinate System, that allow us to specify cavity errors as distortions to the spectral coordinate.Comment: Draf

Cyber physical systems implementation for asset management improvement: A framework for the transition

Libro en Open AccessThe transformation of the industry due to recent technologies introduction is an evolving process whose engines are competitiveness and sustainability, understood in its broadest sense (environmental, economic and social). This process is facing, due to the current state of scientific and technological development, a new challenge yet even more important: the transition from discrete technological solutions that respond to isolated problems, to a global conception where the assets, plant, processes and engineering systems are conceived, designed and operated as an integrated complex unit. This vision is evolving besides a set of concepts that are, in some way, to guide this development: Smart Factories, Cyber-Physical Systems, Factory of the Future or Industry 4.0, are examples. The full integration of the operation and maintenance (O&M) processes in the production systems is a key topic within this new paradigm. Not only that, this evolution necessarily results in the emergence of new processes and needs of O&M, i.e. also, the O&M will undergo a profound transformation. The transition from actual isolated production assets to such Industry 4.0 with CPS is far from easy. This document presents a proposal to develop such transition adapting one iteration of the Model of Maintenance Management (MMM) integrated into ISO 55000 to the complexity of incorporating “System of Systems” CPSs maintenance. It involves several stages: identification, prioritization, risk management, planning, scheduling, execution, control, and improvement supported by system engineering techniques and agile/concurrent project managemen

Regional perturbation of gene transcription is associated with intrachromosomal rearrangements and gene fusion transcripts in high grade ovarian cancer.

Genomic rearrangements are a hallmark of cancer biology and progression, allowing cells to rapidly transform through alterations in regulatory structures, changes in expression patterns, reprogramming of signaling pathways, and creation of novel transcripts via gene fusion events. Though functional gene fusions encoding oncogenic proteins are the most dramatic outcomes of genomic rearrangements, we investigated the relationship between rearrangements evidenced by fusion transcripts and local expression changes in cancer using transcriptome data alone. 9,953 gene fusion predictions from 418 primary serious ovarian cancer tumors were analyzed, identifying depletions of gene fusion breakpoints within coding regions of fused genes as well as an N-terminal enrichment of breakpoints within fused genes. We identified 48 genes with significant fusion-associated upregulation and furthermore demonstrate that significant regional overexpression of intact genes in patient transcriptomes occurs within 1 megabase of 78 novel gene fusions that function as central markers of these regions. We reveal that cancer transcriptomes select for gene fusions that preserve protein and protein domain coding potential. The association of gene fusion transcripts with neighboring gene overexpression supports rearrangements as mechanism through which cancer cells remodel their transcriptomes and identifies a new way to utilize gene fusions as indicators of regional expression changes in diseased cells with only transcriptomic data

Transcriptomic signatures of neuronal differentiation and their association with risk genes for autism spectrum and related neuropsychiatric disorders.

Genes for autism spectrum disorders (ASDs) are also implicated in fragile X syndrome (FXS), intellectual disabilities (ID) or schizophrenia (SCZ), and converge on neuronal function and differentiation. The SH-SY5Y neuroblastoma cell line, the most widely used system to study neurodevelopment, is currently discussed for its applicability to model cortical development. We implemented an optimal neuronal differentiation protocol of this system and evaluated neurodevelopment at the transcriptomic level using the CoNTeXT framework, a machine-learning algorithm based on human post-mortem brain data estimating developmental stage and regional identity of transcriptomic signatures. Our improved model in contrast to currently used SH-SY5Y models does capture early neurodevelopmental processes with high fidelity. We applied regression modelling, dynamic time warping analysis, parallel independent component analysis and weighted gene co-expression network analysis to identify activated gene sets and networks. Finally, we tested and compared these sets for enrichment of risk genes for neuropsychiatric disorders. We confirm a significant overlap of genes implicated in ASD with FXS, ID and SCZ. However, counterintuitive to this observation, we report that risk genes affect pathways specific for each disorder during early neurodevelopment. Genes implicated in ASD, ID, FXS and SCZ were enriched among the positive regulators, but only ID-implicated genes were also negative regulators of neuronal differentiation. ASD and ID genes were involved in dendritic branching modules, but only ASD risk genes were implicated in histone modification or axonal guidance. Only ID genes were over-represented among cell cycle modules. We conclude that the underlying signatures are disorder-specific and that the shared genetic architecture results in overlaps across disorders such as ID in ASD. Thus, adding developmental network context to genetic analyses will aid differentiating the pathophysiology of neuropsychiatric disorders

A truthful online mechanism for resource allocation in fog computing

Fog computing is a promising Internet of Things (IoT) paradigm in which data is processed near its source. Here, efficient resource allocation mechanisms are needed to assign limited fog resources to competing IoT tasks. To this end, we consider two challenges: (1) near-optimal resource allocation in a fog computing system; (2) incentivising self-interested fog users to report their tasks truthfully. To address these challenges, we develop a truthful online resource allocation mechanism called flexible online greedy. The key idea is that the mechanism only commits a certain amount of computational resources to a task when it arrives. However, when and where to allocate resources stays flexible until the completion of the task. We compare our mechanism to four benchmarks and show that it outperforms all of them in terms of social welfare by up to 10% and achieves a social welfare of about 90% of the offline optimal upper bound

Strategic view of an assets health index for making long-term decisions in different industries

Libro en Open AccessAn Asset Health Index (AHI) is a tool that processes data about asset’s condition. That index is intended to explore if alterations can be generated in the health of the asset along its life cycle. These data can be obtained during the asset’s operation, but they can also come from other information sources such as geographical information systems, supplier’s reliability records, relevant external agent’s records, etc. The tool (AHI) provides an objective point of view in order to justify, for instance, the extension of an asset useful life, or in order to identify which assets from a fleet are candidates for an early replacement as a consequence of a premature aging. This paper develops a model applicable to different classes of equipment and industrial sectors. A review of the main cases where the asset health index has been applied is included. Likewise, advantages and disadvantages in the application of this kind of tools are revealed, providing a guide for a research line related to the general application of this tool

Vortices in simulations of solar surface convection

We report on the occurrence of small-scale vortices in simulations of the convective solar surface. Using an eigenanalysis of the velocity gradient tensor, we find the subset of high vorticity regions in which the plasma is swirling. The swirling regions form an unsteady, tangled network of filaments in the turbulent downflow lanes. Near-surface vertical vortices are underdense and cause a local depression of the optical surface. They are potentially observable as bright points in the dark intergranular lanes. Vortex features typically exist for a few minutes, during which they are moved and twisted by the motion of the ambient plasma. The bigger vortices found in the simulations are possibly, but not necessarily, related to observations of granular-scale spiraling pathlines in "cork animations" or feature tracking.Comment: 11 pages, 13 figures, accepted for publication in A&A, complementary movies at http://www.mps.mpg.de/homes/moll/strudel/papermovies

A pilot Internet "Value of Health" Panel: recruitment, participation and compliance

Objectives To pilot using a panel of members of the public to provide preference data via the Internet Methods A stratified random sample of members of the general public was recruited and familiarised with the standard gamble procedure using an Internet based tool. Health states were perdiodically presented in "sets" corresponding to different conditions, during the study. The following were described: Recruitment (proportion of people approached who were trained); Participation (a) the proportion of people trained who provided any preferences and (b) the proportion of panel members who contributed to each "set" of values; and Compliance (the proportion, per participant, of preference tasks which were completed). The influence of covariates on these outcomes was investigated using univariate and multivariate analyses. Results A panel of 112 people was recruited. 23% of those approached (n = 5,320) responded to the invitation, and 24% of respondents (n = 1,215) were willing to participate (net = 5.5%). However, eventual recruitment rates, following training, were low (2.1% of those approached). Recruitment from areas of high socioeconomic deprivation and among ethnic minority communities was low. Eighteen sets of health state descriptions were considered over 14 months. 74% of panel members carried out at least one valuation task. People from areas of higher socioeconomic deprivation and unmarried people were less likely to participate. An average of 41% of panel members expressed preferences on each set of descriptions. Compliance ranged from 3% to 100%. Conclusion It is feasible to establish a panel of members of the general public to express preferences on a wide range of health state descriptions using the Internet, although differential recruitment and attrition are important challenges. Particular attention to recruitment and retention in areas of high socioeconomic deprivation and among ethnic minority communities is necessary. Nevertheless, the panel approach to preference measurement using the Internet offers the potential to provide specific utility data in a responsive manner for use in economic evaluations and to address some of the outstanding methodological uncertainties in this field