Search results for "string"
showing 10 items of 381 documents
A basic analysis toolkit for biological sequences
2007
This paper presents a software library, nicknamed BATS, for some basic sequence analysis tasks. Namely, local alignments, via approximate string matching, and global alignments, via longest common subsequence and alignments with affine and concave gap cost functions. Moreover, it also supports filtering operations to select strings from a set and establish their statistical significance, via z-score computation. None of the algorithms is new, but although they are generally regarded as fundamental for sequence analysis, they have not been implemented in a single and consistent software package, as we do here. Therefore, our main contribution is to fill this gap between algorithmic theory an…
Stressing Sequence for Hanger Replacement of Tied-Arch Bridges with Rigid Bars
2022
The construction of bridges with suspenders, such as cable-stayed or tied-arch bridges, needs deep study of the prestressing forces to be applied to stays or hangers in all stages, depending on the construction technique adopted. In these cases, the main issue is the determination of the initial forces and optimization of the prestressing system in terms of stressing values and sequence. When the bridge is already built and suspenders have to be replaced for maintenance, a different problem has to be faced by the engineer, because the sequence of replacements and the values of the axial stresses depend very much on the service conditions of the bridge and on its historical evolution from co…
New insights into the regulatory mechanisms of ppGpp and DksA on Escherichia coli RNA polymerase-promoter complex
2015
The stringent response modulators, guanosine tetraphosphate (ppGpp) and protein DksA, bind RNA polymerase (RNAP) and regulate gene expression to adapt bacteria to different environmental conditions. Here, we use Atomic Force Microscopy and in vitro transcription assays to study the effects of these modulators on the conformation and stability of the open promoter complex (RPo) formed at the rrnA P1, rrnB P1, its discriminator (dis) variant and lambda pR promoters. In the absence of modulators, RPo formed at these promoters show different extents of DNA wrapping which correlate with the position of UP elements. Addition of the modulators affects both DNA wrapping and RPo stability in a promo…
Elev- og nivåforskjellar i juniorkorps - Komponering og arrangering som differensieringsverktøy for dirigenten : EI UNDERSØKING AV KORLEIS TILPASSA R…
2018
Masteroppgave kunstfag KF500 - Universitetet i Agder 2018 I denne undersøkinga har eg undersøkt effekten ved bruk av sjølvkomponert tilpassa noterepertoar i eit av mine juniorkorps, over ein periode på omlag 3 månadar. Dette vart gjort med mål om å læra meir om kva for fordeler og ulemper slikt tilpassa repertoar kunne føra med seg inn i undervisningssituasjonen. Val av tema, blei valt grunna personlege frustrasjonar knyta til den eksisterande repertoarlitteraturen som finnast for juniorkorps, og korleis denne litteraturen gjorde juniorkorpspraksisen utfordrande å gjennomføra. Gjennom undersøkinga har eg prøvd ut ulike former for tilpassa repertoar, som ei form for aksjon i aksjonsforsking.…
Pedagogisk- psykologisk tjeneste (PPT) og barn og unges psykiske helse i grunnskolen : hvordan opplever og forholder PPT seg til barn og unges psykis…
2014
Background: This project has become as a result of my work in mental hospital for adults, where my experience is that many adults who have had traumatic experiences in early years of life have got reduced quality of life as grownups. My question has been: “who is able to identify children and young people with mental challenges in early years of life?” Objective: The aim of this study has been to get knowledge about which challenges pedagogical- psychological services (PPT) face, and how they help and which experiences the consultants have about children and young people`s mental health. This has lead to the research question: “How experience and in what way does PPT relate to children and …
Balansen mellom kontekstuelle krav og pasientenes behov : ergoterapeuters erfaringer knyttet til eldre pasienters overgangsfase fra sykehus til eget …
2014
Background and aim: Coping in daily activities when discharged from hospital to own home can be challenging for older people. Internationally, there is a number of studies on this topic, but similar studies in Norway and Nordic countries seem to be scarce. The aim of this study was to illuminate occupational therapists’ experiences of how to promote coping of daily activities in older patients who are discharged from hospital to home. Methods: A qualitative design with individual interviews was used. A purposive sample of eight occupational therapists were included, four worked in hospitals and four in community health services, respectively. Initially the interviews had an open form, but a…
Sprint Acceleration Mechanics in Fatigue Conditions: Compensatory Role of Gluteal Muscles in Horizontal Force Production and Potential Protection of …
2018
Aim: Hamstring muscle injury is the main injury related to sports requiring sprint acceleration. In addition, hamstring muscles have been reported to play a role in horizontal force production during sprint acceleration performance. The aim of the present study was to analyze (i) the determinants of horizontal force production and (ii) the role of hip extensors, and hamstring muscles in particular, for horizontal force production during repeated sprint-induced fatigue conditions. Method: In this experimental laboratory setting study including 14 sprint-trained male athletes, we analyzed (i) the changes in sprint mechanics, peak torque of the knee and hip extensors and flexors, muscle activi…
Lightweight LCP construction for next-generation sequencing datasets
2012
The advent of "next-generation" DNA sequencing (NGS) technologies has meant that collections of hundreds of millions of DNA sequences are now commonplace in bioinformatics. Knowing the longest common prefix array (LCP) of such a collection would facilitate the rapid computation of maximal exact matches, shortest unique substrings and shortest absent words. CPU-efficient algorithms for computing the LCP of a string have been described in the literature, but require the presence in RAM of large data structures. This prevents such methods from being feasible for NGS datasets. In this paper we propose the first lightweight method that simultaneously computes, via sequential scans, the LCP and B…
Contribution of the Temporal Dominance of Sensations (TDS) method to the sensory description of subtle differences in partially dealcoholized red win…
2009
Abstract In this study, effect of partial alcohol reduction on the sensory modification of red wines was investigated. A Merlot and a Syrah wine were partially dealcoholized using reverse osmosis technique to span a range of three different alcohol contents (14–10%) by grape variety. Preliminary triangle tests indicated the existence of very slight differences between the dealcoholized wines of the study. Therefore, adapted descriptive methodologies had to be used. In a first step, wines were described with a comparative sensory profile by 16 trained panellists on 15 sensory attributes. Then, the same panellists profiled the wines with the TDS technique, which consists in identifying and ra…
Analytic evaluation of Raman intensities in coupled-cluster theory
2007
We present the first implementation for the analytic calculation of polarizability derivatives using coupled-cluster theory. These derivatives are related to the intensity of bands seen in Raman spectroscopy, and are therefore important quantities that can also be measured experimentally. The required theory of analytic third derivatives is discussed and also connected to response theory to allow the calculation of frequency-dependent quantities. This work includes the use of a string-based general coupled-cluster/configuration-interaction program which makes the calculation of Raman intensities for arbitrary coupled-cluster or configuration-interaction methods up to the full configuration-…