Multiplex blood PCR in combination with blood cultures for improvement of microbiological documentation of infection in febrile neutropenia.

The frequent lack of microbiological documentation of infection by blood cultures (BC) has a major impact on clinical management of febrile neutropenic patients, especially in cases of unexplained persistent fever. We assessed the diagnostic utility of the LightCycler SeptiFast test (SF), a multiplex blood PCR, in febrile neutropenia. Blood for BC and SF was drawn at the onset of fever and every 3 days of persistent fever. SF results were compared with those of BC, clinical documentation of infection, and standard clinical, radiological, and microbiological criteria for invasive fungal infections (IFI). A total of 141 febrile neutropenic episodes in 86 hematological patients were studied: 44 (31%) microbiologically and 49 (35%) clinically documented infections and 48 (34%) unexplained fevers. At the onset of fever, BC detected 44 microorganisms in 35/141 (25%) episodes. Together, BC and SF identified 78 microorganisms in 61/141 (43%) episodes (P = 0.002 versus BC or SF alone): 12 were detected by BC and SF, 32 by BC only, and 34 by SF only. In 19/52 (37%) episodes of persistent fever, SF detected 28 new microorganisms (7 Gram-positive bacterial species, 15 Gram-negative bacterial species, and 6 fungal species [89% with a clinically documented site of infection]) whereas BC detected only 4 pathogens (8%) (P = 0.001). While BC did not detect fungi, SF identified 5 Candida spp. and 1 Aspergillus sp. in 5/7 probable or possible cases of IFI. Using SeptiFast PCR combined with blood cultures improves microbiological documentation in febrile neutropenia, especially when fever persists and invasive fungal infection is suspected. Technical adjustments may enhance the efficiency of this new molecular tool in this specific setting.

Measurement of Ice Scraping Forces on Snow-Plow Underbody Blades, HR-372, 1997

In this study, several new cutting edges for removal of ice from the roadway were tested in a series of closed road tests. These new cutting edges consisted of a variety of serrated shapes. The study also included measurement of ice scraping forces by in-service trucks. These trucks were instrumented in a similar manner as the truck used in the closed-road tests. Results from the closed-road and in-service tests were analyzed by two parameters. The first parameter is the scraping effectiveness, which is defined as the average horizontal force experienced by a cutting edge. The amount of ice scraped from the roadway is directly proportional to the magnitude of the scraping effectiveness. Thus an increase in scraping effectiveness indicates an increase in the amount of ice being scraped from the roadway. The second parameter is force angle, which is defined as tan to the -1 power [vertical force/horizontal force]. A combination of a minimal force angle and a maximized scraping effectiveness represents a case in which the maximal amount of ice is being removed from the pavement without an exceptionally large vertical force. Results indicate that each cutting edge produced a maximal scraping effectiveness with a testing configuration of a 15 deg blade angle and a 23,000 lb. download force. Results also indicate that each cutting edge produced a minimal force angle with a testing configuration of a 15 deg blade angle and a 10,000 lb. download force. Results from the in-service trucks produced similar data and also similar trends within the data when compared to the results of the closed-road tests. This result is most important, as it suggests that the closed-road tests do provide an accurate measure of ice scraping forces for a given blade and configuration of that blade. Thus if the closed-road tests indicate that certain blades perform well, there is now excellent reason to conduct full scale tests of such blades.

BadiRate: Estimating Family Turnover Rates by Likelihood-Based Methods

Motivation: The comparative analysis of gene gain and loss rates is critical for understanding the role of natural selection and adaptation in shaping gene family sizes. Studying complete genome data from closely related species allows accurate estimation of gene family turnover rates. Current methods and software tools, however, are not well designed for dealing with certain kinds of functional elements, such as microRNAs or transcription factor binding sites. Results: Here, we describe BadiRate, a new software tool to estimate family turnover rates, as well as the number of elements in internal phylogenetic nodes, by likelihood-based methods and parsimony. It implements two stochastic population models, which provide the appropriate statistical framework for testing hypothesis, such as lineage-specific gene family expansions or contractions. We have assessed the accuracy of BadiRate by computer simulations, and have also illustrated its functionality by analyzing a representative empirical dataset.

BadiRate: estimating family turnover rates by likelihood-based methods

Motivation: The comparative analysis of gene gain and loss rates is critical for understanding the role of natural selection and adaptation in shaping gene family sizes. Studying complete genome data from closely related species allows accurate estimation of gene family turnover rates. Current methods and software tools, however, are not well designed for dealing with certain kinds of functional elements, such as microRNAs or transcription factor binding sites. Results: Here, we describe BadiRate, a new software tool to estimate family turnover rates, as well as the number of elements in internal phylogenetic nodes, by likelihood-based methods and parsimony. It implements two stochastic population models, which provide the appropriate statistical framework for testing hypothesis, such as lineage-specific gene family expansions or contractions. We have assessed the accuracy of BadiRate by computer simulations, and have also illustrated its functionality by analyzing a representative empirical dataset.

Mobile Protocol Stack Simulator

Nykypäivän maailma tukeutuu verkkoihin. Tietokoneverkot ja langattomat puhelimet ovat jo varsin tavallisia suurelle joukolle ihmisiä. Uusi verkkotyyppi on ilmestynyt edelleen helpottamaan ihmisten verkottunutta elämää. Ad hoc –verkot mahdollistavat joustavan verkonmuodostuksen langattomien päätelaitteiden välille ilman olemassa olevaa infrastruktuuria. Diplomityö esittelee uuden simulaatiotyökalun langattomien ad hoc –verkkojen simulointiin protokollatasolla. Se esittelee myös kyseisten verkkojen taustalla olevat periaatteet ja teoriat. Lähemmin tutkitaan OSI-mallin linkkikerroksen kaistanjakoprotokollia ad hoc –verkoissa sekä vastaavan toteutusta simulaattorissa. Lisäksi esitellään joukko simulaatioajoja esimerkiksi simulaattorin toiminnasta ja mahdollisista käyttökohteista.

Multifactor Performance Study on Complex Systems for the Benefit of Management

The primary objective is to identify the critical factors that have a natural impact on the performance measurement system. It is important to make correct decisions related to measurement systems, which are based on the complex business environment. The performance measurement system is combined with a very complex non-linear factor. The Six Sigma methodology is seen as one potential approach at every organisational level. It will be linked to the performance and financial measurement as well as to the analytical thinking on which the viewpoint of management depends. The complex systems are connected to the customer relationship study. As the primary throughput can be seen in a new well-defined performance measurement structure that will also be facilitated as will an analytical multifactor system. These critical factors should also be seen as a business innovation opportunity at the same time. This master's thesis has been divided into two different theoretical parts. The empirical part consists of both action-oriented and constructive research approaches with an empirical case study. The secondary objective is to seek a competitive advantage factor with a new analytical tool and the Six Sigma thinking. Process and product capabilities will be linked to the contribution of complex system. These critical barriers will be identified by the performance measuring system. The secondary throughput can be recognised as the product and the process cost efficiencies which throughputs are achieved with an advantage of management. The performance measurement potential is related to the different productivity analysis. Productivity can be seen as one essential part of the competitive advantage factor.

Tavoitteena strateginen kumppanuus. Case: Työkalun kehittäminen hankintatoimen johtamisen arvioimiseen

Diplomityön aiheena ovat hankintatoimen strateginen johtaminen ja toimittajasuhteiden hallinta pk-yrityksen näkökulmasta. Tutkimuksessa selvitettiin hankintatoimen merkitystä yrityksen strategisena kilpailutekijänä. Tutkimus määrittelee toimittajien yhteistyön periaatteet ja strategisen kumppanuuden lähtökohdat. Työn teoriaosuudessa selvitetään perusteet hankintastrategian määrittämiseksi. Hankintojen luokittelun perusteella tehtävät toimittajastrategiat ovat lähtökohtina toimittajasuhteiden kehittämiselle ja kumppanuudelle. Arviointimenetelmistä työssä esitellään EFQM-malli, erityisesti hankintatoimen näkökulmasta katsottuna. Tutkimuksen empiirisessä osuudessa kehitetään uusi arviointimenetelmä hankintatoimen johtamisen kartoittamiseen. Itsearvioinnin perusteella yritys saa kokonaiskuvan strategisen hankintatoimensa nykytilasta ja tärkeimmistä kehityskohteista.

Meesauunin kannatuksien suunnittelutyökalun kehitys

Meesauunia käytetään sellun tuotantoprosessissa kemiallisessa reaktiossa, jossa kalsiumkarbonaatti muutetaan kalsiumoksidiksi. Reaktio on osa sellutehtaan kemikaalikiertoa, missä sellun valmistamisessa käytettävät kemikaalit kierrätetään uusiokäyttöön. Tässä diplomityössä on kehitetty meesauunin kannatusten automatisoitu suunnittelutyökalu vanhan AutoLispillä kehitetyn ohjelman perusteella. Kehitetyn suunnittelutyökalun tärkeimmät osat ovat Excelissä tehdyt kuormituslaskenta ja mitoituslaskenta. Näillä ohjataan Autodeskin Inventoriin kehitettyä cad-mallia ja valmistuspiirustusta. Laskentaohjelmat ja cad-malli on kehitetty mahdollistamaan uusien uunikokojen helpon lisäämisen ohjelmaan. Diplomityössä on perehdytty kuormituslaskentaan standardien mukaisesti. Käytettyjä standardeja ovat esimerkiksi Eurokoodi ja Uniform Building Code. Epätavallisten tilanteiden kuormituslaskennassa käytettiin apuna FE-analyysilla kehitettyjä laskentamalleja. Näitä käytettiin uunin taipumisesta aiheutuvien voimien laskennassa ja lovetun kannatinpyörän aiheuttamien impulssivoimien suuruuden määrittämisessä. Lisäksi diplomityössä perehdyttiin suunnitteluautomaatin kehittämiseen Exceliä apuna käyttäen. Suunnittelutyökalun toimivuutta on verifioitu suunnittelemalla kehitetyllä suunnittelutyökalulla standardiuuneja ja verrattu tuloksia ja valmistuspiirustuksia vanhalla ohjelmalla tulostettuihin tuloksiin. Tulosten perusteella uutta suunnittelutyökalua voidaan käyttää meesauunin kannatuksien suunnitteluun.

Julkisen organisaation johdon raportoinnin kehittäminen CASE: Puolustusvoimien johtamisjärjestelmäkeskus

Tämän tutkielman tavoitteena on tutkia julkisen organisaation sisäistä taloudellista raportointia eli johdon raportointia case -organisaation avulla. Tavoitteena on kehittää ja uudistaa organisaation johdolle tuotettavaa kustannusseurantaan liittyvää raportointityökalua. Teoreettista viitekehystä luodaan pääasiassa New Public Management (NPM) -ajattelua tutkimalla. Teoriaosuudessa pohditaan myös muita julkisen organisaation johtamiseen ja raportointiin liittyviä asioita: tulosjohtamista ja suorituskyvyn mittaamista. Empiria osuudessa kehitetään tutkitun teorian, organisaation sisällä kahdessa eri vaiheessa tehtyjen haastattelujen ja jatkuvan havainnoinnin avulla uusi raportointityökalu johdolle. Tämän kehitystyön tuloksena case -organisaatiossa otettiin vuoden 2015 alussa käyttöön uudistettu johdon raportti resurssien käytöstä. Raportti sai paljon positiivista palautetta sen käyttäjiltä ja sen todettiin helpottavan kustannusseurantaa. Seurannan toteutus ja sen taustojen ymmärtäminen vaatii kuitenkin vielä paljon opettelua organisaatiossa.

Press forming of paperboard – advancement of converting tools and process control

Press forming is nowadays one of the most common industrial methods in use for producing deeper trays from paperboard. Demands for material properties like recyclability and sustainability have increased also in the packaging industry, but there are still limitations related to the formability of paperboard. A majority of recent studies have focused on material development, but the potential of the package manufacturing process can also be improved by the development of tooling and process control. In this study, advanced converting tools (die cutting tools and the press forming mould) are created for production scale paperboard tray manufacturing. Also monitoring methods that enable the production of paperboard trays with enhanced quality, and can be utilized in process control are developed. The principles for tray blank preparation, including creasing pattern and die cutting tool design are introduced. The mould heating arrangement and determination of mould clearance are investigated to improve the quality of the press formed trays. The effect of the spring back of the tray walls on the tray dimensions can be managed by adjusting the heat-related process parameters and estimating it at the mould design stage. This enables production speed optimization as the process parameters can be adjusted more freely. Real-time monitoring of pressing force by using multiple force sensors embedded in the mould structure can be utilized in the evaluation of material characteristics on a modified production machinery. Comprehensive process control can be achieved with a combination of measurement of the outer dimensions of the trays and pressing force monitoring. The control method enables detection of defects and tracking changes in the material properties. The optimized converting tools provide a basis for effective operation of the control system.

Research in the clinical setting : a qualitative study of the value of play research in the continuing education of occupational therapists.

Occupational therapists have always recognized playas an important part of a child's life. However, until recently play has been viewed as a medium for reaching treatment goals, rather than as an activity that is valuable in and of itself. If occupational therapists think of playas the primary activity or occupation of childhood, then play should be a very important area of focus for paediatric clinicians. In order to assist children to become as independent as possible with play and to have fulfilling play experiences the occupational therapist needs to have a clear understanding of how to assess, set goals which lead towards competence in play, and promote play. Recent play literature has placed importance on play behaviours and looking at the relationship between the child and both the human and nonhuman environment. Believing that play and playfulness can and should be promoted, for children with physical disabilities, requires that therapists learn new assessment and intervention strategies. A new assessment tool, The Test of Playfulness, was developed by Bundy in 1994. It addressed play behaviours and environmental influences. The author, a co-investigator and eight occupational therapists were involved in a playfulness study using this test to compare the playfulness of children with physical disabilities with their able-bodied peers. After the study was completed the author questioned whether or not involvement in the playfulness study was enough of a change agent to bring about transformative learning in order to further the eight occupational therapists' education about play.This study investigated changes in either the therapists' thinking about play or their behaviour in their clinical practice. The study also examined the participants' retention of knowledge about the Test of Playfulness. The eight therapists who had been involved in the playfulness study (participants) were matched with eight therapists who had not been involved (nonparticipants). The therapists were interviewed 9 to 12 months after completion of the playfulness study. They were asked to describe various scenarios of play and open ended prompts were used to elicit the therapists' perceptions of play, good play, the role or value of play, environmental and gender influences on play, play assessment and intervention, and play research, for children with and without disabilities. The participants were also prompted to discuss their experience with the playfulness study. A self-report questionnaire was also completed at the end of the interview. The results of the study demonstrated that: (a) the play research project was a good format for continuing the participants' education about play; (b) their thinking had changed about play; (c) according to self report, they had used this new knowledge in their clinical practice; and (d) the participants remembered the items on the Test of Playfulness and could use them in describing various aspects of play. This study found that participating in a play research project had been an effective method of professional development. It also highlighted the need for increased awareness of the recent literature on play and the developing role of the occupational therapist in the assessment and intervention of play.

Research in the clinical setting : a qualitative study of the value of play research in the continuing education of occupational therapists.

Occupational therapists have always recognized playas an important part of a child's life. However, until recently play has been viewed as a medium for reaching treatment goals, rather than as an activity that is valuable in and of itself. If occupational therapists think of playas the primary activity or occupation of childhood, then play should be a very important area of focus for paediatric clinicians. In order to assist children to become as independent as possible with play and to have fulfilling play experiences the occupational therapist needs to have a clear understanding of how to assess, set goals which lead towards competence in play, and promote play. Recent play literature has placed importance on play behaviours and looking at the relationship between the child and both the human and nonhuman environment. Believing that play and playfulness can and should be promoted, for children with physical disabilities, requires that therapists learn new assessment and intervention strategies. A new assessment tool, The Test of Playfulness, was developed by Bundy in 1994. It addressed play behaviours and environmental influences. The author, a co-investigator and eight occupational therapists were involved in a playfulness study using this test to compare the playfulness of children with physical disabilities with their able-bodied peers. After the study was completed the author questioned whether or not involvement in the playfulness study was enough of a change agent to bring about transformative learning in order to further the eight occupational therapists' education about play.

Genetics and Life Insurance: A Comparative Analysis

The debate surrounding the role of life insurance, the necessity of risk rating, and the notion of “acceptable discrimination” has raised questions about the larger social role of insurance. Recent developments in the field of genetics, allowing insurers to make use of genetic testing technology as a new underwriting tool, have reinvigorated this debate. This article presents a comparative study of positions taken in countries on issues in genetics and life insurance. We will analyze the 43 selected countries and comment on their potential for ensuring a more equitable access for life insurance applicants.

Les végétaux comme éléments du paysage sonore : relations qualitatives entre conditions environnementales, morphologie et organisation dans la production d’ambiances sonores

Le paysage sonore est une forme de perception de notre environnement qui nous permet d’identifier les composantes sonores de notre quotidien. Ce projet de recherche porte sur une thématique particulière, les sons produits par les végétaux et leurs rôles dans les ambiances sonores paysagères. C’est la perspective que nous avons explorée in situ, en comparant les différentes espèces végétales; cette collection d’informations nous permet de proposer une typologie d’ambiances sonores des végétaux. Dans la première partie, des notions rattachées au « monde sonore » telles que l’objet sonore, le paysage sonore et les effets sonores justifient d’établir, dans la méthodologie, une grille d’analyse comportant différentes échelles d’écoute. Une lecture multidisciplinaire propose, d’une part, de réunir de l’information sur le son et les végétaux, la morphologie de ces derniers, l’aménagement au site, les conditions climatiques et, d’autre part, de retrouver ce qui a trait au son dans l’histoire des jardins, dont les jardins sensoriels, thérapeutiques, technologiques, et des sentiers d’interprétation sonore, sous l’angle du son comme projet. De plus, une liste de végétaux recevant les chants et cris de la faune vient introduire la notion de biodiversité sonore. Une enquête sociale de terrain, par la méthode des parcours commentés, et une enquête « experte » ont été réalisées au Jardin botanique de Montréal. Ces deux enquêtes nous ont permis de constituer une grille d’analyse croisée comprenant plusieurs échelles d’écoute : textures, actions sonores, effets sonores... De là, des générateurs d’ambiance (morphologie, organisation, climat) ont été relevés pour déterminer les aspects de récurrences et de différenciations d’un type d’ambiance sonore à l’autre. Des associations se sont formées en fonction de onze types de végétaux, chacun comprenant plusieurs sous-catégories. Celles-ci proposent des ambiances sonores spécifiques, des échelles d’écoute à considérer pour chaque type d’ambiance et l’énumération d’espèces à utiliser. Cette recherche ouvre la voie à un autre type de lecture sonore, par thématique d’ambiance (les sons du végétal dans notre cas), afin d’offrir de nouveaux outils de conception pour les professionnels, en profonde relation avec les perceptions sonores d’usagers sur le terrain et l’agencement spécifique d’un site.

In silico analysis of mitochondrial proteins

Le rôle important joué par la mitochondrie dans la cellule eucaryote est admis depuis longtemps. Cependant, la composition exacte des mitochondries, ainsi que les processus biologiques qui sy déroulent restent encore largement inconnus. Deux facteurs principaux permettent dexpliquer pourquoi létude des mitochondries progresse si lentement : le manque defficacité des méthodes didentification des protéines mitochondriales et le manque de précision dans lannotation de ces protéines. En conséquence, nous avons développé un nouvel outil informatique, YimLoc, qui permet de prédire avec succès les protéines mitochondriales à partir des séquences génomiques. Cet outil intègre plusieurs indicateurs existants, et sa performance est supérieure à celle des indicateurs considérés individuellement. Nous avons analysé environ 60 génomes fongiques avec YimLoc afin de lever la controverse concernant la localisation de la bêta-oxydation dans ces organismes. Contrairement à ce qui était généralement admis, nos résultats montrent que la plupart des groupes de Fungi possèdent une bêta-oxydation mitochondriale. Ce travail met également en évidence la diversité des processus de bêta-oxydation chez les champignons, en corrélation avec leur utilisation des acides gras comme source dénergie et de carbone. De plus, nous avons étudié le composant clef de la voie de bêta-oxydation mitochondriale, lacyl-CoA déshydrogénase (ACAD), dans 250 espèces, couvrant les 3 domaines de la vie, en combinant la prédiction de la localisation subcellulaire avec la classification en sous-familles et linférence phylogénétique. Notre étude suggère que les gènes ACAD font partie dune ancienne famille qui a adopté des stratégies évolutionnaires innovatrices afin de générer un large ensemble denzymes susceptibles dutiliser la plupart des acides gras et des acides aminés. Finalement, afin de permettre la prédiction de protéines mitochondriales à partir de données autres que les séquences génomiques, nous avons développé le logiciel TESTLoc qui utilise comme données des Expressed Sequence Tags (ESTs). La performance de TESTLoc est significativement supérieure à celle de tout autre outil de prédiction connu. En plus de fournir deux nouveaux outils de prédiction de la localisation subcellulaire utilisant différents types de données, nos travaux démontrent comment lassociation de la prédiction de la localisation subcellulaire à dautres méthodes danalyse in silico permet daméliorer la connaissance des protéines mitochondriales. De plus, ces travaux proposent des hypothèses claires et faciles à vérifier par des expériences, ce qui présente un grand potentiel pour faire progresser nos connaissances des métabolismes mitochondriaux.