Ett foretag med ett flertal leverantorer maste pa sikt valja ut vilka leverantorer man onskar arbeta aktivt/passivt med. For att kunna gora detta kravs att man tar fram konkurrenskraftiga leverantorsstrategier som bygger pa valgenomtankta beslut. Dessa beslut maste ta hansyn till inkopets totala risk for leverantor och komponent. Den totala risken ar oftast valdigt specifik for varje foretag och bygger pa ett flertal olika parametrar. Forfattarna ger i denna uppsats forslag pa tre parametrar som kan hjalpa foretag att ta fram effektiva leverantorsstrategier. Pa lang sikt kan foljande system leda till konkurrensfordelar.
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The porcine enteric virome comprises a wide range of eukaryotic and prokaryotic viruses in healthy and diarrheic pigs. As RNA viruses are considered to be important agents responsible for diarrhoea in pigs, this work was focused on the RNA virome. To identify viruses, a next generation sequencing technique and bioinformatics analysis was employed. A wide spectrum of viral genera with RNA genomes, such as Kobuvirus, Picobirnavirus, Teschovirus, Posavirus, Mamastovirus, Enterovirus and Rotavirus were identified in both diarrheic and healthy pigs. No clear differences in the virome composition were found between healthy and diarrheic pigs. The data visualisation using Non-Metric Multidimensional Scaling as well as by the Analysis of Similarities test suggested that the virome depended on the age of animals and differed in piglets when compared to weaned and fattening pigs.
Background: With the rapid growth of massively parallel sequencing technologies, still more laboratories are utilizing sequenced DNA fragments for genomic analyses. Interpretation of sequencing data is, however, strongly dependent on bioinformatics processing, which is often too demanding for clinicians and researchers without a computational background. Another problem represents the reproducibility of computational analyses across separated computational centers with inconsistent versions of installed libraries and bioinformatics tools. Results: We propose an easily extensible set of computational pipelines, called SnakeLines, for processing sequencing reads; including mapping, assembly, variant calling, viral identification, transcriptomics, metagenomics, and methylation analysis. Individual steps of an analysis, along with methods and their parameters can be readily modified in a single configuration file. Provided pipelines are embedded in virtual environments that ensure isolation of required resources from the host operating system, rapid deployment, and reproducibility of analysis across different Unix-based platforms. Conclusion: SnakeLines is a powerful framework for the automation of bioinformatics analyses, with emphasis on a simple set-up, modifications, extensibility, and reproducibility. Keywords: Computational pipeline, framework, massively parallel sequencing, reproducibility, virtual environment
Syftet med uppsatsen ar att studera hur ett innovationsdrivet
foretag hanterar en forandring som dess bransch genomgar
och framforallt vilka foljder detta far. Vart valda fallforetag ar Autoliv, ett foretag inom
bilsakerhetsbranschen. Denna uppsats studerar Autoliv
Research och dess kontaktytor mot ovriga organisationen och
dess omvarld. Representanter for dess olika produkter och
utvecklingsavdelningarna har intervjuats, men aven tidigare
anstallda, for att fa en battre uppfattning om hur olika
fenomen vuxit fram. Foretag som valjer att gora en relaterad diversifiering som
respons pa en forandring pa marknaden kan under vissa
omstandigheter hamna i en identitetskris. Da diversifieringen
frambringar parallella innovationsspar maste man isolera de
enheter som har mer innovationsinriktad verksamhet, vilka da
kraver en annan struktur. De enheter som fore
diversifieringen var forsknings- och innovationsinriktade
tenderar da att bli mer utvecklingsinriktad. Detta kan leda till
identitetskris i den enhet som tidigare var innovationsinriktad.
Depuis les dernières années, on observe une désertion progressive du réseau public québécois de la santé de la part des psychologues, causant une perte d'accessibilité à leurs services. Parallèlement, l'idée d'une soi-disant fonction symbolisante ou subjectivante de l'Institution est mise de l'avant dans le contexte du travail en clinique externe de psychiatrie auprès de patient·e·s en situation de précarité psychique. Cependant, cette fonction semble parfois attaquée par des logiques managériales, que nous décrirons comme perverses et narcissiques, qui mettent à mal l'espace de pensée et de créativité des clinicien·ne·s. Porté·e·s par ces idées, et en résonance avec les préoccupations actuelles quant à l'accessibilité aux services psychologiques, nous proposons une réflexion sur les enjeux de la pratique de la psychothérapie d'orientation psychanalytique au sein d'une institution québécoise de soins de santé. Nous puisons dans notre propre expérience de jeunes psychologues ayant récemment quitté ce réseau pour réaliser une réflexion de fond sur celui-ci et tenter d'offrir de nouvelles pistes pour comprendre l'exode. Notre visée est aussi de s'écarter des arguments financiers pour s'attarder aux différentes façons par lesquelles l'Institution ne répond plus à ses fonctions et cultive plusieurs formes de destructivité.
Abstract Rationale: Periventricular nodular heterotopia-7 (PVNH7) is a neurodevelopmental disorder associated with improper neuronal migration during neurogenesis in cortex development caused by pathogenic variants in the NEDD4L gene. Patient concerns: We report the case of a polystigmatized 2-year-old boy having significant symptomatologic overlap with PVNH7, such as delayed psychomotor and mental development, seizures and infantile spasms, periventricular nodular heterotopia, polymicrogyria, cleft palate, 2 to 3 toe syndactyly, hypotonia, microretrognathia, strabismus, and absent speech and walking. The patient showed also distinct symptoms falling outside PVNH7 symptomatology, also present in the proband's older brother, such as blue sclerae, hydronephrosis, transversal palmar crease (found also in their father), and bilateral talipes equinovarus . In addition, the patient suffered from many other symptoms. Diagnoses: The boy, his brother and their parents were subjected to whole-exome sequencing. Because of uncertainties in symptomatology and inheritance pattern, the top-down approach was hard to apply. Using the bottom-up approach, we identified a known pathogenic variant, NM_001144967.2(NEDD4L):c.2677G>A:p.Glu893Lys, in the proband's genome that absented in any other analyzed family member, suggesting its de novo origin. Interventions and outcomes: The patient was treated with Convulex 300 mg/mL for the successful seizure control and Euthyrox 25mg for the treatment of thyroid malfunction. He also took various supplements for the metabolism support and digestion regulation. Moreover, the patient underwent the corrective surgeries of cleft palate and talipes equinovarus . Lessons: We successfully identified the causative mutation NM_001144967.2(NEDD4L):c.2677G>A:p.Glu893Lys explaining symptoms overlapping those reported for PVNH7. Symptoms shared with the brother were not explained by this variant, since he was not a carrier of the pathogenic NEDD4L variant. These are most likely not extended phenotypes of PVNH7, rather an independent clinical entity caused by a yet unidentified genetic factor in the family, highlighting thus the importance of thorough evaluation of symptomatology and genomic findings in affected and unaffected family members, when such data are available.
Abstract With the rapid growth of massively parallel sequencing technologies, still more laboratories are utilising sequenced DNA fragments for genomic analyses. Interpretation of sequencing data is, however, strongly dependent on bioinformatics processing, which is often too demanding for clinicians and researchers without a computational background. Another problem represents the reproducibility of computational analyses across separated computational centres with inconsistent versions of installed libraries and bioinformatics tools. We propose an easily extensible set of computational pipelines, called SnakeLines, for processing sequencing reads; including mapping, assembly, variant calling, viral identification, transcriptomics, and metagenomics analysis. Individual steps of an analysis, along with methods and their parameters can be readily modified in a single configuration file. Provided pipelines are embedded in virtual environments that ensure isolation of required resources from the host operating system, rapid deployment, and reproducibility of analysis across different Unix-based platforms. SnakeLines is a powerful framework for the automation of bioinformatics analyses, with emphasis on a simple set-up, modifications, extensibility, and reproducibility. The framework is already routinely used in various research projects and their applications, especially in the Slovak national surveillance of SARS-CoV-2.
ABSTRACT Wine production is a complex procedure in which an important role is played by many microorganisms, particularly yeasts and bacteria. In modern wineries, alcoholic fermentation is usually carried out by adding microbial starter cultures of Saccharomyces cerevisiae strains for precisely controlled production. Nowadays, in the Slovak Republic, autochthonous vinification is getting more popular. The present article deals with the comparison of two vinification approaches, namely spontaneous fermentation and fermentation controlled by a standard commercial S. cerevisiae starter, from the point of view of microbiota dynamics and the chemical characteristics of the wines produced. The dynamics of microbial populations were determined during the fermentation process by a 16S and 28S rRNA next-generation sequencing approach. A profile of the volatile compounds during these fermentation processes was identified by solid-phase microextraction (SPME) coupled to gas chromatography-mass spectrometry (GC-MS). In summary, the microbial diversity in the m1 phase (initial must) was higher, despite the presence of the starter culture. In the m3 phase (young wine), the microbiome profiles of both batches were very similar. It seems that the crucial phase in order to study the relationship of the microbiome and the resulting product should be based on the m2 phase (fermented must), where the differences between the autochthonous and inoculated batches were more evident.
Circulating extracellular DNA (ecDNA) is known to worsen the outcome of many diseases. ecDNA released from neutrophils during infection or inflammation is present in the form of neutrophil extracellular traps (NETs). It has been shown that higher ecDNA concentration occurs in a number of inflammatory diseases including inflammatory bowel disease (IBD). Enzymes such as peptidyl arginine deiminases (PADs) are crucial for NET formation. We sought to describe the dynamics of ecDNA concentrations and fragmentation, along with NETosis during a mouse model of chemically induced colitis. Plasma ecDNA concentration was highest on day seven of dextran sulfate sodium (DSS) intake and the increase was time-dependent. This increase correlated with the percentage of cells undergoing NETosis and other markers of disease activity. Relative proportion of nuclear ecDNA increased towards more severe colitis; however, absolute amount decreased. In colon explant medium, the highest concentration of ecDNA was on day three of DSS consumption. Early administration of PAD4 inhibitors did not alleviate disease activity, but lowered the ecDNA concentration. These results uncover the biological characteristics of ecDNA in IBD and support the role of ecDNA in intestinal inflammation. The therapeutic intervention aimed at NETs and/or nuclear ecDNA has yet to be fully investigated.
