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Search Results: 1 - 10 of 10816 matches for " Matthew Lord "
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Can Inferred Provenance and Its Visualisation Be Used to Detect Erroneous Annotation? A Case Study Using UniProtKB
Michael J. Bell, Matthew Collison, Phillip Lord
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0075541
Abstract: A constant influx of new data poses a challenge in keeping the annotation in biological databases current. Most biological databases contain significant quantities of textual annotation, which often contains the richest source of knowledge. Many databases reuse existing knowledge; during the curation process annotations are often propagated between entries. However, this is often not made explicit. Therefore, it can be hard, potentially impossible, for a reader to identify where an annotation originated from. Within this work we attempt to identify annotation provenance and track its subsequent propagation. Specifically, we exploit annotation reuse within the UniProt Knowledgebase (UniProtKB), at the level of individual sentences. We describe a visualisation approach for the provenance and propagation of sentences in UniProtKB which enables a large-scale statistical analysis. Initially levels of sentence reuse within UniProtKB were analysed, showing that reuse is heavily prevalent, which enables the tracking of provenance and propagation. By analysing sentences throughout UniProtKB, a number of interesting propagation patterns were identified, covering over sentences. Over sentences remain in the database after they have been removed from the entries where they originally occurred. Analysing a subset of these sentences suggest that approximately are erroneous, whilst appear to be inconsistent. These results suggest that being able to visualise sentence propagation and provenance can aid in the determination of the accuracy and quality of textual annotation. Source code and supplementary data are available from the authors website at http://homepages.cs.ncl.ac.uk/m.j.bell1/?sentence_analysis/.
UCS Protein Rng3p Is Essential for Myosin-II Motor Activity during Cytokinesis in Fission Yeast
Benjamin C. Stark, Michael L. James, Luther W. Pollard, Vladimir Sirotkin, Matthew Lord
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0079593
Abstract: UCS proteins have been proposed to operate as co-chaperones that work with Hsp90 in the de novo folding of myosin motors. The fission yeast UCS protein Rng3p is essential for actomyosin ring assembly and cytokinesis. Here we investigated the role of Rng3p in fission yeast myosin-II (Myo2p) motor activity. Myo2p isolated from an arrested rng3-65 mutant was capable of binding actin, yet lacked stability and activity based on its expression levels and inactivity in ATPase and actin filament gliding assays. Myo2p isolated from a myo2-E1 mutant (a mutant hyper-sensitive to perturbation of Rng3p function) showed similar behavior in the same assays and exhibited an altered motor conformation based on limited proteolysis experiments. We propose that Rng3p is not required for the folding of motors per se, but instead works to ensure the activity of intrinsically unstable myosin-II motors. Rng3p is specific to conventional myosin-II and the actomyosin ring, and is not required for unconventional myosin motor function at other actin structures. However, artificial destabilization of myosin-I motors at endocytic actin patches (using a myo1-E1 mutant) led to recruitment of Rng3p to patches. Thus, while Rng3p is specific to myosin-II, UCS proteins are adaptable and can respond to changes in the stability of other myosin motors.
Factors Affecting the Ability of the Stroke Survivor to Drive Their Own Recovery outside of Therapy during Inpatient Stroke Rehabilitation
Xue Wen Eng,Sandra G. Brauer,Suzanne S. Kuys,Matthew Lord,Kathryn S. Hayward
Stroke Research and Treatment , 2014, DOI: 10.1155/2014/626538
Abstract: Aim. To explore factors affecting the ability of the stroke survivor to drive their own recovery outside of therapy during inpatient rehabilitation. Method. One-on-one, in-depth interviews with stroke survivors ( ) and their main carer ( ), along with two focus groups with clinical staff ( ). Data was thematically analysed according to group. Results. Stroke survivors perceived “dealing with loss,” whilst concurrently “building motivation and hope” for recovery affected their ability to drive their own recovery outside of therapy. In addition, they reported a “lack of opportunities” outside of therapy, with subsequent time described as “dead and wasted.” Main carers perceived stroke survivors felt “out of control … at everyone’s mercy” and lacked knowledge of “what to do and why” outside of therapy. Clinical staff perceived the stroke survivor’s ability to drive their own recovery was limited by the lack of “another place to go” and the “passive rehab culture and environment.” Discussion. To enable the stroke survivor to drive their own recovery outside of therapy, there is a need to increase opportunities for practice and promote active engagement. Suggested strategies include building the stroke survivor’s motivation and knowledge, creating an enriched environment, and developing daily routines to provide structure outside of therapy time. 1. Introduction Stroke is the world’s third most common cause of long-lasting disability [1]. Accordingly, the need for effective and efficient inpatient rehabilitation for stroke survivors cannot be underestimated. Intensity of practice has been consistently highlighted as a critical component of therapy provided during inpatient rehabilitation [2]. A higher intensity, in terms of minutes or repetitions of practice, has been found to promote greater functional gains during inpatient rehabilitation than less intensive therapy [3–5]. This has led researchers and therapists to direct greater attention to the creation of opportunities for intensive practice to drive recovery during therapy time, such as alternate models of care for example, group circuit classes or seven-day therapy service [6], and the use of technology including virtual reality and gaming [7] and robotic therapy [8]. However, less attention has been directed to the creation of opportunities to drive recovery outside of therapy. Studies to date indicate that stroke survivors may not use time outside of therapy optimally during inpatient rehabilitation. A recent systematic review [9] of observational studies from around the world (including Europe,
Paramedic assessment of pain in the cognitively impaired adult patient
Bill Lord
BMC Emergency Medicine , 2009, DOI: 10.1186/1471-227x-9-20
Abstract: A systematic search of health databases for evidence relating to the use of pain assessment tools that have been validated for use with cognitively impaired adults was undertaken using specific search criteria. An extended search included position statements and clinical practice guidelines developed by health agencies to identify evidence-based recommendations regarding pain assessment in older adults.Two systematic reviews met study inclusion criteria. Weaknesses in tools evaluated by these studies limited their application in assessing pain in the population of interest. Only one tool was designed to assess pain in acute care settings. No tools were located that are designed for paramedic use.The reviews of pain assessment tools found that the majority were developed to assess chronic pain in aged care, hospital or hospice settings. An analysis of the characteristics of these pain assessment tools identified attributes that may limit their use in paramedic practice. One tool - the Abbey Pain Scale - may have application in paramedic assessment of pain, but clinical evaluation is required to validate this tool in the paramedic practice setting. Further research is recommended to evaluate the Abbey Pain Scale and to evaluate the effectiveness of paramedic pain management practice in older adults to ensure that the care of all patients is unaffected by age or disability.Although pain is a commonly encountered complaint in prehospital and emergency medicine settings, evidence of inadequate analgesia has been widely documented. Poor pain management practice has been described in the emergency department (ED)[1], and variations in pain management practice in this setting have been associated with ethnicity[2], gender[3], and extremes of age[4].Reasons for inadequacies in pain management practice are likely to be multifactorial. Failure to assess for the presence and severity of pain may be one factor, as efforts to make pain measurement mandatory in the ED have been sh
Fire, flood and ice: Search and rescue missions of the South African Air Force
D Lord
Scientia Militaria: South African Journal of Military Studies , 1999,
The aggregating function of political parties in EU decision-making
Christopher Lord
Living Reviews in European Governance , 2006,
Abstract: This Living Review uses concepts of aggregation to analyse what we do and do not know about the contribution of political parties to the politics and democratic performance of the European Union. It suggests that present representative structures are better at aggregating ‘choices of policies’ than ‘choices of leaders’. Much more, however, needs to be done to analyse the causal contribution of party actors to those patterns of aggregation, and to understand why European Union parties do not develop further where aggregation seems to be deficient in the EU arena.
Bridging Nature and Nurture: A Look at Epigenetic Effects of Stressful Social Environments on Childhood Development
Sarah Lord
University of Toronto Medical Journal , 2009, DOI: 10.5015/utmj.v87i1.1224
Protection by Conspicuous Colors
Lord Walsingham
Psyche , 1891, DOI: 10.1155/1891/14656
Riemannian Geometries
Steven Lord
Physics , 2000,
Abstract: This paper has been withdrawn by the author. It will be replaced, substantially modified, by sections of the author's completed PhD thesis.
The Semantic Web takes Wing: Programming Ontologies with Tawny-OWL
Phillip Lord
Computer Science , 2013,
Abstract: The Tawny-OWL library provides a fully-programmatic environment for ontology building; it enables the use of a rich set of tools for ontology development, by recasting development as a form of programming. It is built in Clojure - a modern Lisp dialect, and is backed by the OWL API. Used simply, it has a similar syntax to OWL Manchester syntax, but it provides arbitrary extensibility and abstraction. It builds on existing facilities for Clojure, which provides a rich and modern programming tool chain, for versioning, distributed development, build, testing and continuous integration. In this paper, we describe the library, this environment and the its potential implications for the ontology development process.
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