Miracle-dz/UniFAR-FTUs huggingface dataset:
Identification of S-phase DNA damage-response targets in fission yeast reveals conservation of damage-response networks

Significance The cellular response to DNA damage during DNA replication promotes survival and genome maintenance. It involves a network of kinases that phosphorylate a variety of target proteins. Although the protein kinases involved have been studied extensively in fission yeast, only a handful of their targets have been identified. We used an unbiased approach to profile protein phosphorylation in response to DNA damage during DNA replication. We found target proteins involved in gene expression, stress response, regulation of mitosis and cytokinesis, and DNA replication and repair, many of which are required for resistance to DNA damage. These protein targets are conserved in budding yeast and human cells, demonstrating the deep conservation of the response. The cellular response to DNA damage during S-phase regulates a complicated network of processes, including cell-cycle progression, gene expression, DNA replication kinetics, and DNA repair. In fission yeast, this S-phase DNA damage response (DDR) is coordinated by two protein kinases: Rad3, the ortholog of mammalian ATR, and Cds1, the ortholog of mammalian Chk2. Although several critical downstream targets of Rad3 and Cds1 have been identified, most of their presumed targets are unknown, including the targets responsible for regulating replication kinetics and coordinating replication and repair. To characterize targets of the S-phase DDR, we identified proteins phosphorylated in response to methyl methanesulfonate (MMS)-induced S-phase DNA damage in wild-type, rad3∆, and cds1∆ cells by proteome-wide mass spectrometry. We found a broad range of S-phase–specific DDR targets involved in gene expression, stress response, regulation of mitosis and cytokinesis, and DNA replication and repair. These targets are highly enriched for proteins required for viability in response to MMS, indicating their biological significance. Furthermore, the regulation of these proteins is similar in fission and budding yeast, across 300 My of evolution, demonstrating a deep conservation of S-phase DDR targets and suggesting that these targets may be critical for maintaining genome stability in response to S-phase DNA damage across eukaryotes.
Challenges related to working conditions experienced by social workers practising in rural areas

Subsequent to the research conducted by Schenck (2003, 2004) describing problems that rural social workers experience and to contemporary reports in the printed media echoing similar sentiments, the researchers decided to embark on a research project aimed at revisiting and exploring the challenges related to working conditions experienced by social workers practising in rural areas. Thirty-two rural areas were engaged in this study. The findings indicated that the status quo on the subject of the working condition-related challenges and the problems experienced by social workers practising in rural areas remains and that the mentioned challenges seem to be specifically related to context, service organisation and clients.
HDAC 4 mediates development of hypertension via vascular inflammation in spontaneous hypertensive rats

Usui T, Okada M, Mizuno W, Oda M, Ide N, Morita T, Hara Y, Yamawaki H. HDAC4 mediates development of hypertension via vascular inflammation in spontaneous hypertensive rats. Am J Physiol Heart Circ Physiol 302: H1894 –H1904, 2012. First published March 2, 2012; doi:10.1152/ajpheart.01039. 2011. —Histone deacetylases (HDACs) are transcriptional corepressors. Our recent study demonstrated that HDAC4 protein specifically increases in mesenteric artery from spontaneous hypertensive rats (SHR) compared with Wistar Kyoto rats (WKY). Vascular inflammation is important for pathogenesis of hypertension. We examined whether HDAC4 affects vascular inflammatory responses and promotes hypertension. In vivo, blood pressure, reactive oxygen species (ROS) production, and VCAM-1 expression in isolated mesenteric artery were elevated in young SHR (7 wk old) compared with age-matched WKY, which were prevented by long-term treatment of SHR with an HDACs inhibitor, trichostatin A (TSA; 500 g·kg ·day 1 for 3 wk). In isolated mesenteric artery, the increased angiotensin II-induced contraction in SHR was reversed by TSA. The endothelium-dependent relaxation induced by ACh in SHR was augmented by TSA. In cultured rat mesenteric arterial smooth muscle cells (SMCs), expression of HDAC4 mRNA and protein was increased by TNF(10 ng/ml). TSA (10 M, pretreatment for 30 min) inhibited VCAM-1 expression and NFB phosphorylation induced by TNF (10 ng/ml, 24 h or 20 min) in SMCs. HDAC4 small interfering RNA inhibited TNF-induced monocyte adhesion, VCAM-1 expression, transcriptional activity of NFB, and ROS production in SMCs. The present results demonstrated that proinflammatory effects of HDACs may mediate the further development of hypertension in SHR. It is also suggested in cultured vascular SMCs that TNF-induced HDAC4 mediates vascular inflammation likely via VCAM-1 induction through ROS-dependent NFB activation.
Merlin: An Open Source Neural Network Speech Synthesis System

We introduce the Merlin speech synthesis toolkit for neural network-based speech synthesis. The system takes linguistic features as input, and employs neural networks to predict acoustic features, which are then passed to a vocoder to produce the speech waveform. Various neural network architectures are implemented, including a standard feedforward neural network, mixture density neural network, recurrent neural network (RNN), long short-term memory (LSTM) recurrent neural network, amongst others. The toolkit is Open Source, written in Python, and is extensible. This paper brieﬂy describes the system, and provides some benchmarking results on a freely-available corpus.
An inquiry of teachers' perception on the relationship between higher-order thinking nurturing and Liberal Studies public assessment in Hong Kong

a questionnaire survey of 41 Liberal Studies (LS) teachers from 40 secondary schools and interviews with 12 of them, the researcher compared the teaching processes and strategies for nurturing students' higher-order thinking (HOT). The study seeks to find out whether the LS implementation process is aligning with the aims of the curriculum. Result show that teachers have a strong tendency towards examination-oriented learning while acknowledging the focus on knowledge-based learning as the main difference of LS and its public assessment component from those of the traditional disciplines, the emphasis of the subject on the mastery of basic concepts and thinking skills and the need for the nurturing of HOT. There was widespread agreement with the operation of the public assessment design in the subject. The more experienced ones further agree that examination-oriented strategies are compatible with the development of HOT.
‘it tickles in my tummy!’ understanding children’s risk-taking in play through reversal theory

‘It tickles in my tummy’ is one of the most frequent answers when children are asked to describe what they experience when engaging in risky play. Why do children take risks in spite of the fact that this can be a harmful and even fatal activity? This article aims to explore this issue. Semi-structured interviews of 23 pre-school children aged four and five years were analyzed on the basis of the concepts of paratelic and telic states in Reversal Theory, the paratelic state being an excitement-seeking mode, and the telic state being an anxiety-avoiding mode. The phenomenological structure of children’s risky play was found to be characterized by children expressing the ambiguous nature of quick reversals between the paratelic and telic states, producing both pleasant and unpleasant emotions. This ‘walk on the dangerous edge’ seemed to be one of the primary goals of engaging in risky play. As long as the paratelic state dominated the situation, children embraced the potential fear by arousal-increasing strategies and maintained play. If the telic state dominated the situation, children described arousal-avoidance strategies and ultimately withdrew from play.
Stages in the Analysis of Persuasive Messages: The Role of Causal Attributions and Message Comprehension.

An attribution analysis viewed opinion change as the outcome of a series of stages in message recipients' information processing. This processing was initiated by information about the communicator's background that led recipients to form an expectancy concerning what position the communicator would take in the message. The degree to which this premessage expectancy was confirmed or disconfirmed by the position the communicator took in the message then affected the outcome at each step of recipients' postmessage processing. In the first postmessage step, disconfirmation of the expectancy led recipients to attribute the message primarily to the factual evidence associated with the issue, and confirmation led them to attribute it primarily to the communicator's background. Then, to the extent that recipients attributed the message to the factual evidence rather than to the communicator's background, they perceived the communicator as unbiased, a response, which, in turn, increased opinion change toward the message. In addition, perception of the communicator as unbiased led to poorer comprehension of message content when the communicator's position had disconfirmed recipients' expectancies. In general, poor comprehension of message content lessened opinion change toward the message. A measure of subjects' expectancies demonstrated the premessage formation of expectancies about the communicator's position, and a structural analysis documented the postmessage stages.
Can Sociological Paradigms Still Inform Organizational Analysis? A Paradigm Model for Post-Paradigm Times

The Burrell and Morgan model for classifying organization theory is revisited through meta-theoretical analysis of the major intellectual movement to emerge in recent decades, post-structuralism and more broadly postmodernism. Proposing a retrospective paradigm for this movement, we suggest that its research can be characterized as ontologically relativist, epistemologically relationist and methodologically reflexive; this also represents research that can be termed deconstructionist in its view of human nature. When this paradigm is explored further, in terms of Burrell and Morgan’s assumptions for the ‘nature of society’, two analytical domains emerge – normative post-structural and critical post-structural. Assessing the types of research developed within them, and focusing on actor-network theory in particular, we describe how post-structural and postmodern thinking can be classified within, rather than outside, or after, the Burrell and Morgan model. Consequently we demonstrate not only that organizational knowledge stands on meta-theoretical grounds, but also how recent intellectual developments rest on a qualitatively different set of meta-theoretical assumptions than established traditions of agency and structure.
Recovery, Ambitions, and Aspirations: An Exploratory Project to Build a Recovery Community by Generating a Skilled Recovery Workforce

ABSTRACT A fundamental barrier to recovery is “negative recovery capital” in the form of barriers to access to housing and paid employment. Stable recovery rests not only on overcoming acute dependence, but also subsequently on developing supportive social networks, a safe place to live, meaningful activities, and a sense of purpose and hope. In the United Kingdom, the recovery movement has faced a huge challenge in translating early recovery into stable recovery because of limited access to housing and employment, and because of stigmatization of those in recovery. This article reviews a social enterprise model for engaging recovering people with an addiction in a building program linked to recovery housing, which also provides employment. The article is based on observations, in-depth qualitative interviews, and focus groups with participants in the program, and describes the social contagion of hope and the elevated aspirations associated with working and generating recovery housing. This model offers inspiration about personal transformation and aspiration that also contributes to the development of a therapeutic landscape of recovery.
A Fuzzy Multiple Objective Decision Making Model for Solving a Multi-Depot Distribution Problem

model is firstly chosen to solve this kind of problem in the assignment step. After that the Vehicle Routing Problem (VRP) model is used to compute the delivery cost in the routing step. However, in the basic transportation model, only depot to customer relationship is concerned. In addition, the consideration of customer to customer relationship should also be considered since this relationship exists in the routing step. Both considerations of relationships are solved using Preemptive Fuzzy Goal Programming (P-FGP). The first fuzzy goal is set by a total transportation cost and the second fuzzy goal is set by a satisfactory level of the overall independence value. A case study is shown for describing the effectiveness of the proposed model. Results from the proposed model are compared with the basic transportation model that has previously been used in this company. The proposed model can reduce the delivery cost in the routing step owing to the better result in the assignment step. Moreover, defining fuzzy goals by membership functions are more realistic than crisps. Furthermore, flexibility to adjust goals for decision maker can also be increased.
Visual Perception And Its Effect On Reaction Time And Time-Movement Anticipation In Elite Female Basketball Players

Abstract Introduction. The efficient collection and analysis of information from both the central and the peripheral field of vision may affect human coordination motor abilities. An analysis of the literature on the subject suggests that coordination motor abilities interact with one another, and it is only their combined effect that allows athletes to achieve technical mastery. The main aim of the study was to assess specific coordination motor abilities and to determine how visual perception and reaction time correlate with time-movement anticipation in elite female basketball players. Material and methods. The study participants comprised 17 female basketball players from the Polish National Team aged 18.1 ± 0.8 years. The study involved three ability tests from the Vienna Test System: the Reaction Test (RT, S1), the Peripheral Perception test (PP), and the Time/Movement Anticipation test (ZBA, S2). Results. The analysis of the results obtained proves that the best-developed ability in participants is reaction time, while the other abilities show average development. Study participants were able to develop their response abilities to such high levels by means of practice. A correlation coefficient was found between motor time and tracking deviation (r=0.56), and between time anticipation and the number of correct responses to stimuli appearing in the left (r=0.92) and right (r=0.88) field of vision. Athletes who achieved better results in time anticipation omitted fewer visual stimuli (r=0.7) in the peripheral field of vision. Statistically significant correlations were observed between movement anticipation and reaction time to stimuli in the central field of vision (r=0.58). Conclusions. Perception abilities have a significant effect on time anticipation. The range of one's field of vision does not determine the reaction time to a visual stimulus. Perception efficiency and divided attention, in conjunction with time and movement anticipation, create a complex of specific psychomotor abilities that is indispensable for achieving success in team sports.
IS discipline in the IT services land : an exploratory study of IS in India

Information Systems (IS) research is characterized by plurality of methodologies, perspectives and contexts giving rise to various communities within the discipline. Studies of IS communities in North America, Europe and Asia-Pacific highlight the cognitive diversity, institutional distribution and research themes based on geography. While regional variations have been acknowledged, the debate on the identity and status of IS is on-going. In this paper we conduct an exploratory study of the IS research paradigm in India and contribute to IS discipline studies by bringing in the India perspective. We analyse the ‘cognitive’ and ‘behavioural’ legitimacy of IS discipline in India based on interviews conducted with Indian business school professors from IS and non-IS disciplines. The focus of the study is to understand the current state of IS research community in India. We find a need to establish a ‘collective identity’ of IS research in India, which will benefit both the Indian and larger IS community to work on unique research possibilities presented by the socioeconomic context of India.
Co₂-assisted gravity drainage EOR: numerical simulation and scaling models study.

Prashant Jadhawar iii Australian School of Petroleum PhD Thesis University of Adelaide the top-down CO2-assisted gravity drainage EOR process, (iii) Development of a general process selection map for the preliminary choice between the immiscible and miscible process, (iv) Grid size effect studies: Changes in both the x and y grid-dimensions has no impact on the CO2-assisted gravity drainage oil recovery, (v) Grid thickness effect studies: Thin layers, even in the upper layers, facilitates the optimum CO2-assisted gravity drainage oil recovery (vi) Heterogeneity in permeability effect: Presence of heterogeneity in permeability (kv / kv = 0.001) improves the CO2-assisted gravity drainage oil recovery performance (95.5% incremental oil recovery) thereby reducing the number of pore volumes and the operational time. It has been found that recovery further improves when the molecular diffusion effects are taken into account, (vii) Heterogeneity in porosity: Porosity values increasing downwards, such as in the overturned faults, promotes the CO2assisted gravity drainage mechanism to yield better oil recovery performance, (viii) Clear identification of the overall mechanisms and the supporting micro-mechanisms through the parametric analysis of the reservoir simulation results, (ix) Development of a new correlation (combination number, NJadhawar and Sarma) that encompasses the traditional process affecting multiphase operational parameters in the form of the dimensionless groups. It is further validated using the field projects including the data from the Oseberg field, Norway. Excellent logarithmic correlation match is obtained between the new combination number, NJadhawar and Sarma, and the oil recoveries from both the immiscible and miscible reservoir simulations as well as the field projects. New combination number, NJadhawar and Sarma, is a useful tool to predict CO2-assisted gravity drainage oil recoveries, and (x) Development of a set of the additional scaled models sufficient to completely scale the CO2-assisted gravity drainage EOR process are proposed and validated.
Promotion of bone formation by naringin in a titanium particle‐induced diabetic murine calvarial osteolysis model

Diabetic patients have an increased risk of prosthesis failure requiring revision surgery. Furthermore, skeletal defects are observed in conjunction with type 1 diabetes. Using a titanium particle‐induced calvarial osteolysis model in diabetic mice, we investigated the effect of diabetes on the osteolytic process and the role of naringin in its prevention. Three groups each of nondiabetic or diabetic mice were treated with vehicle only, with particles only, or with particles then naringin for 10 days. Alteration of bone indices near the midline suture were then analyzed by microcomputed tomography scanning and histology. Serum levels of osteocalcin (OCN) and cross‐linked N‐telopeptide of type I collagen (NTx) were measured by enzyme‐linked immunosorbent assay. The decreases in new bone formation (p < 0.05), calvaria thickness (p < 0.05), bone volume (p < 0.05), midline suture area (p < 0.05), and OCN concentration (p < 0.05) found in diabetic mice were normalized with naringin treatment. Diabetic state promoted particle‐induced osteolysis. Naringin, an osteoanabolic agent, improved bone indices apparently by stimulating bone formation. Therefore, naringin may be beneficial in preventing and treating debris‐mediated periprosthetic osteolysis after total joint replacement, especially in diabetics. © 2009 Orthopaedic Research Society. Published by Wiley Periodicals, Inc. J Orthop Res 28:451–456, 2010
Etanercept Treatment in Children With New-Onset Type 1 Diabetes

OBJECTIVE To gather preliminary data on the feasibility and efficacy of etanercept therapy to prolong endogenous insulin production in pediatric patients with newly diagnosed type 1 diabetes. RESEARCH DESIGN AND METHODS This was a 24-week double-blind, randomized, placebo-controlled study conducted at the Diabetes Center, Women and Children's Hospital of Buffalo. Eighteen subjects (11 male and 7 female, aged 7.8–18.2 years) were randomly assigned to receive either placebo or etanercept. Inclusion criteria included age 3–18 years, GAD-65 and/or islet cell antibody positivity, A1C >6%, three insulin injections per day, white blood cell count 3,000–10,000, platelets >100,000, and normal liver and renal function. Intention-to-treat analysis was used. RESULTS A1C at week 24 was lower in the etanercept group (5.91 ± 0.5%) compared with that in the placebo group (6.98 ± 1.2%; P < 0.05) with a higher percent decrease from baseline than in the placebo group (etanercept 0.41 ± 0.1 vs. placebo 0.18 ± 0.21; P < 0.01). The percent change in C-peptide area under the curve from baseline to week 24 showed a 39% increase in the etanercept group and a 20% decrease in the placebo group (P < 0.05). From baseline to week 24 insulin dose decreased 18% in the etanercept group compared with a 23% increase in the placebo group (P < 0.05). Seventeen patients completed the study, and none withdrew because of adverse events. CONCLUSIONS In this small pilot study, treatment of pediatric patients newly diagnosed with type 1 diabetes with etanercept resulted in lower A1C and increased endogenous insulin production, suggesting preservation of β-cell function. A larger study is needed to further explore safety and efficacy.
Check-In Frequency with Friends on Location-Based Social Networks: A Look at Homophily and Relational Closeness

This Thesis is brought to you for free and open access. It has been accepted for inclusion in Dissertations and Theses by an authorized administrator of PDXScholar. For more information, please contact pdxscholar@pdx.edu. Recommended Citation Vo, Jacqueline H. , "Check-In Frequency with Friends on Location-Based Social Networks: A Look at Homophily and Relational Closeness" (2015). Dissertations and Theses. Paper 2630.
A Moist Linear Baroclinic Model: Coupled Dynamical–Convective Response to El Niño

A newly developed, linear baroclinic model (LBM) and its application to the tropical ENSO teleconnection is described. The model, based on primitive equations linearized about the observed, zonally varying basic state in northern winter, involves linear schemes for the cumulus convection, and surface sensible and latent heat fluxes, referred to as the moist LBM. This enables us to solve a steady-state response of the coupled dynamical‐ convective system to a given SST anomaly, which is fairly different from the conventional dry LBM. Linear representation of the convection is acceptable for a realistic range of SST anomalies, reproducing well the Rossby wave train computed in the conventional LBM forced by a tropical heating. The moist LBM is used to examine the formation mechanisms of an anomalous low-level anticyclone near