2,333 research outputs found
Transferrin gene ChIP-seq data
No full text<p>ChIP-seq Peak-calling data to support the supplementary information to:</p>
<p><strong>In severe alcoholic hepatitis, serum transferrin constitutes an independent mortality predictor indicating an impaired HNF4</strong><strong>αsignaling. </strong>Stephen R. Atkinson, MD<sup>*</sup>; Karim Hamesch, MD<sup>*</sup>; Igor Spivak, MD; Nurdan Guldiken, PhD; Joaquín Cabezas, PhD<sup>3</sup>; Josepmaria Argemi, PhD; Igor Theurl, MD, Heinz Zoller, MD; Sheng Cao, MD; Philippe Mathurin, MD; Vijay H. Shah, MD; Christian Trautwein, MD; Ramon Bataller, MD; Mark R. Thursz, MD<sup>+</sup>; Pavel Strnad, MD<sup>+</sup></p>These datasets include 2 ChIP-seq peak-calling result files: one in .csv format, which variables are described in TF_PeakCalling_results_metadata.txt file and the other one in .bed format to be used for peak range visualization in its genomic context. Methods are included in TF_PeakCalling_results_metadata.txt file.
Peak calling data are limited to Transferrin (TF) genomic region.
Raw data of ChIP-seq are available upon request to Dr. Vijay Shah (Mayo Clinic, Rochester, MN, USA, [email protected])
Fundamental uncertainties in projects and the scope of project management
No full textThis paper builds on discussions that took place over a series of meetings in the UK of the Rethinking Project Management Network. The management of uncertainty is seen as a necessary condition for effective project management. Sources of uncertainty are wide ranging and have a fundamental effect on projects and project management. These sources are not confined to potential events, and include lack of information, ambiguity, characteristics of project parties, tradeoffs between trust and control mechanisms, and varying agendas in different stages of the project life cycle. Common project management practice does not address many fundamental sources of uncertainty, particularly in ‘soft’ projects where flexibility and tolerance of vagueness are necessary. More sophisticated efforts to recognise and manage important sources of uncertainty are needed. Such efforts need to encompass organisational capabilities, including some aspects of organisation culture and learning
Transferrin gene ChIP-seq data
No full textChIP-seq Peak-calling data to support the supplementary information to:
In severe alcoholic hepatitis, serum transferrin constitutes an independent mortality predictor indicating an impaired HNF4αsignaling. Stephen R. Atkinson, MD*; Karim Hamesch, MD*; Igor Spivak, MD; Nurdan Guldiken, PhD; Joaquín Cabezas, PhD3; Josepmaria Argemi, PhD; Igor Theurl, MD, Heinz Zoller, MD; Sheng Cao, MD; Philippe Mathurin, MD; Vijay H. Shah, MD; Christian Trautwein, MD; Ramon Bataller, MD; Mark R. Thursz, MD+; Pavel Strnad, MD
When are Discussions of Thought Experiments Poor Ones? A Comment on Peijnenburg and Atkinson
No full textIn their recent paper, "When are thought experiments poor ones?" (Peijnenburg/Atkinson 2003), Jeanne Peijnenburg and David Atkinson present an argument to the conclusion that most, if not all, philosophical thought experiments are "poor" ones with "disastrous consequences" and that they share this property with some (but not all) scientific thought experiments. The moral they draw is that the use of thought experiments in science is generally more successful than in philosophy (of mind). In this comment I shall briefly try to show that Peijnenburg's and Atkinson's view on thought experiments as it is presented in Peijnenburg/Atkinson 2003, but also in Atkinson/Peijnenburg [forthcoming], and Atkinson 2003, is based on an misleading characterization of both, the dialectical situation in philosophy as well as the history of physics. By giving an adequate account of what the discussion in contemporary philosophy is about, we will arrive at a quite different evaluation of philosophical thought experiments
Postbellum Protection and Commissioner Wells's Conversion to Free Trade
No full textA moment of consequence to the postbellum U.S. tariff debate was the 'conversion' of David Ames Wells, Commissioner of the Revenue from 1865- 1870, to free trade. When he began his work Wells was a disciple of the eminent American protectionist Henry C. Carey. By the age of forty, however, he had become America's answer to Britain's Sir Robert Peel: a public figure of tremendous influence, who, having changed his mind on the issue, became the standard-bearer for free trade in both the intellectual and political arenas. Half a century and more in the past, when Wells's name was better remembered in American economic and political history, several stories were told of the causes of his conversion: some attributed it ultimately to the force of ideas, some to interests. My purpose is to demonstrate that the unacknowledged but most important cause was Wells's relationship with Edward Atkinson, and Wells and Atkinson's mutual wish to grant effective protection, or net protection, to cotton manufacturers. The story of Wells's conversion that unfolds in the demonstration is not one that disentangles and assigns weights to the contributions of theory and interests. It shows instead how each determined the other.Wells, David Ames; Atkinson, Edward; free trade; revenue commission; effective protection; net protection
Application of prognostic scores in the STOPAH trial: discriminant function is no longer the optimal scoring system in alcoholic hepatitis
No full textBACKGROUND & AIMS: 'Static' prognostic models in alcoholic hepatitis, using data from a single time point, include the discriminant function (DF), Glasgow alcoholic hepatitis score (GAHS), the age, serum bilirubin, international normalized ratio and serum creatinine (ABIC) score and the model of end-stage liver disease (MELD). 'Dynamic' scores, incorporating evolution of bilirubin at seven days, include the Lille score. The aim of this study was to assess these scores' performance in patients from the STOPAH trial.METHODS: Predictive performance of scores was assessed by area under the receiver operating curve (AUC). The effect of different therapeutic strategies upon survival was assessed by Kaplan-Meier analysis and tested using the log-rank test.RESULTS: A total of 1,068 patients were studied. The AUCs for the DF were significantly lower than for MELD, ABIC and GAHS for both 28- and 90-day outcomes: 90-day values were 0.670, 0.704, 0.726 and 0.713, respectively. 'Dynamic' scores and change in 'static' scores by Day 7 had similar AUCs. Patients with consistently low 'static' scores had low 28-day mortalities that were not improved with prednisolone (MELD <25: 8.6%; ABIC <6.71: 6.6%; GAHS <9: 5.9%). In patients with high 'static' scores without gastrointestinal bleeding or sepsis, prednisolone reduced 28-day mortality (MELD: 22.2% vs. 28.9%, p = 0.13; ABIC 14.6% vs. 21%, p = 0.02; GAHS 21% vs. 29.3%, p = 0.04). Overall mortality from treating all patients with a DF ≥32 and Lille assessment (90-day mortality 26.8%) was greater than combining newer 'static' and 'dynamic' scores (90-day mortality: MELD/Lille 21.8%; ABIC/Lille 23.7%; GAHS/Lille 20.6%).CONCLUSION: MELD, ABIC and GAHS are superior to the DF in alcoholic hepatitis. Consistently low scores have a favourable outcome not improved with prednisolone. Combined baseline 'static' and Day 7 scores reduce the number of patients exposed to corticosteroids and improve 90-day outcome.LAY SUMMARY: Alcoholic hepatitis is a life-threatening condition. Several scores exist to determine the outcome of these patients as well as to identify those who may benefit from treatment. This study looked at the performance of existing scores in patients who had been recruited to the largest alcoholic hepatitis clinical trial: STOPAH. 'Static' scores are calculable at the start of assessment. The three newer static scores (ABIC, GAHS and MELD) were shown to be superior to the oldest score (DF). ABIC and GAHS could also identify patients who had a survival benefit 28 days after starting prednisolone treatment. 'Dynamic' scores relate to the change in disease over the first week of treatment. Combination of the 'static' scores 'with the 'dynamic' scores or change in 'static' scores allowed identification of patients who could benefit from prednisolone up to 90 days.</p
Reconciliation as a resource for critical pedagogy
No full textReconciliation is one of the most significant contemporary challenges in the world today. In this innovative new volume, educational academics and practitioners across a range of cultural and political contexts examine the links between reconciliation and critical pedagogy, putting forward the notion that reconciliation projects should be regarded as public pedagogical interventions, with much to offer to wider theories of learning.Robert Hattam and Julie Matthew
Robust Multidimensional Poverty Comparisons
No full textWe investigate how to make poverty comparisons using multidimensional indicators of well-being, showing in particular how to check whether the comparisons are robust to the choice of poverty indices and poverty lines. Our methodology applies equally well to either of what can be defined as "union" and "intersection" approaches to dealing with multidimensional indicators of well-being. When one of two variables is discrete, our methods specialize to those that Atkinson (1991), Jenkins and Lambert (1993) and others have developed to deal with household composition heterogeneity. The results also extend the statistical results recently derived in Davidson and Duclos (2000) to cases where well-being is measured in two or more dimensions. We thus derive the sampling distribution of various multidimensional poverty estimators, including estimators of the "critical" frontiers of poverty lines above which multidimensional poverty comparisons are no longer ethically robust.Multidimensional Poverty, Stochastic Dominance
New media pathways: navigating the links between home, school and the workplace
No full textThis chapter uses the case of students enrolled in the Multimedia Pathway offered by Harbourside High School to discuss the tensions and contradictions inherent in the views that: (a) school curriculum and pedagogy have much to learn from young people's informal and leisure-based learning; and (b) school-based courses in new media are important because they increase student retention and the chance of success in post-school employment. We draw on literature about the "new work order" (Gee, Hull, & Lankshear, 1996) to explore the nature of these students' learning about and with ICTs and show that the students' knowledge exists "in a network of relationships" (Gee, 2000) that bridge the formal and informal learning divide. Finally, we discuss the parts played by their in- and out-of-school engagements with ICT in their becoming the kinds of portfolio people supposedly required by the new capitalism.No Full Tex
Chaetophloeus woodi Burgos and Atkinson 2022, sp. nov.
No full textChaetophloeus woodi Burgos and Atkinson, sp. nov. (Figs, 4 A–E, 5 A–D, 6 A–E, 8C) Diagnosis. This species would come out to couplet 11 in Wood’s (1982) key to North and Central American Chaetophloeus, but would go no further. There is a superficial similarity with C. mexicanus in that both have mottled setal patterns, but the two species are easily distinguishable. In C. mexicanus the vestiture on the pronotum and elytra is denser and clearly forms irregular shapes of light and dark scales. In C. woodi darker scales predominate. The erect, long interstrial scales on the declivity are not found in C. mexicanus. These erect, long interstrial setae are longer and almost acuminate in some specimens (Fig. 5). Male. Color dark-brown, total length 1.86 mm (1.45–1.86), width 0.98 mm (0.83–1.02), length/width = 0.53 mm (0.51–0.57) (n= 10). Head. Frons deeply, transversely impressed above epistoma, less strongly concave to vertex. Epistomal margin weakly, evenly procurved, and distinctly elevated, with small anterior projection in center. Center of concavity punctured with erect, pointed setae; these much denser and longer along lateral margins; setae on lateral periphery mostly yellow, mostly brown in center Antennal. club elongate, with three segments; sutures poorly marked, indicated by yellow setae on sides of the club. Pronotum. Wider than long, sides tapering gradually towards anterior margin without obvious constriction. Posterior margin nearly straight, only slightly sinuate. Plueral areas with white, recumbent, bifid setae. Dorsal surface with dense, deep punctures, almost contiguous. Vestiture of mixed brownish, elongate, recumbent setae and much paler, erect, rounded scales; erect setae on anterior margin longer. Elytra. Anterior margins of elytra slightly procurved, with erect crenulations on margin, with submarginal crenulations on interstriae 1 and 2, pale, with bifid setae on anterior margin of crenulations, a single broad scale on the posterior of each. Striae marked with large, closely spaced punctures, not impressed, with brown, recumbent narrow setae. Interstriae about 2x the width of striae, vestiture of erect, scale-like setae in the middle, with slightly confused, narrow recumbent setae on either side. Erect interstrial scales spaced by several times their length on the disc, becoming more closely spaced and longer towards the declivity (3x–4x width of interstriae). Declivity concave, with interstriae 1 slightly deeper than others, interstriae 2 not impressed. Vestiture similar to that on pronotum except for longer, interstrial setae. Sternum. All ventrites are covered with elongate, bifid setae, becoming shorter and darker posteriorly. Ventrites 5 with a slight concavity in the center. Female. Length 1.79 mm (1.45–1.89), width 0.96 mm (0.82–0.98), length/width 0.54 mm (0.49–0.55) (n=10). Similar to the male with the following differences. Head. Frons flattened between eyes, densely punctured with blunt, flattened setae, similar in size over the entire area. Epistomal margin not elevated, but with blunt anterior projection. Pronotum. Anterolateral area with several oblique rows of erect, chisel-like teeth, these barely longer than the vestiture. Sternum. Ventrite 5 with distinct tuft of setae. Type Material. Holotype male (CNIN), Mexico, Puebla: San Lucas Teteletitlán, Atexcal, 18.3648 N, 97.6267 W, 23-VII-2014, 2120 m, Eysenhardtia sp., A. Burgos AB-2100. Allotype female (CNIN), same data. Paratypes: same data (CEUM, 20); San Isidro Atexcoco, 18.2064 N, 97.5563 W, 2120 m, 30-XII-2015, Eysenhardtia sp., A. Burgos, E. Burgos & R. Tapia, AB-2504, (CEUM, 8); Hidalgo: Pachuca, 21-V-1982, 2400, Eysenhardtia sp., A. Equihua M (TAMU, 15, (CEAM, 3); Oaxaca, Monte Albán, 19-X-1987, in legume branches, A. Burgos (TAMU, 6); Textlihuaca, 6 km NW, Carr. 135; 1906 m, 17.33194 N, - 96.9363 W, 22-X-2011, Eysenhardtia polystachya, T.H. Atkinson, T. H., (UTIC, 4; TAMU; 4; CEAM, 10; USNM, 4). Etymology. This species is named in honor of Stephen L. Wood, for his important contribution to the knowledge of the Scolytinae of Mexico and the world. Biology and distribution. This species has been found in the states of Hidalgo, Puebla, and Oaxaca in arid and semi-arid woodlands. It has been collected from Eysenhardtia polystachya (Ortega) Sarg. in branches ranging from 1–3 cm in diameter. The main parental gallery is roughly oval, with 2–4 short ovipositional galleries oriented in different directions. In some cases, it was collected from the same branches as C. mexicanus. On close examination the two species are easily distinguishable, though both have mottled setal patterns, and the presence of C. woodi was overlooked in older collections (Fig. 5).Published as part of Burgos-Solorio, Armando & Atkinson, Thomas H., 2022, New species and new records of Chaetophloeus LeConte (Coleoptera: Curculionidae: Scolytinae) from Mexico, pp. 73-84 in Zootaxa 5174 (1) on pages 77-79, DOI: 10.11646/zootaxa.5174.1.5, http://zenodo.org/record/697309
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