bluuebunny/crossref_metadata_2025_split huggingface dataset:
Biological pathway selection through Bayesian integrative modeling
Authors: Zheng Lingling , Yan Xiao , Suchindran Sunil , Dressman Holly , Chute John P. , Lucas Joseph 
Published: June 2014

AbstractPathway analysis has become a central approach to understanding the underlying biology of differentially expressed genes. As large amounts of microarray data have been accumulated in public repositories, flexible methodologies are needed to extend the analysis of simple case-control studies in order to place them in context with the vast quantities of available and highly heterogeneous data sets. To address this challenge, we have developed a two-level model, consisting of 1) a joint Bayesian factor model that integrates multiple microarray experiments and ties each factor to a predefined pathway and 2) a point mass mixture distribution that infers which factors are relevant/irrelevant to each dataset. Our method can identify pathways specific to a particular experimental trait which are concurrently induced/repressed under a variety of interventions. In this paper, we describe the model in depth and provide examples of its utility in simulations as well as real data from a study of radiation exposure. Our analysis of the radiation study leads to novel insights into the molecular basis of time- and dose- dependent response to ionizing radiation in mice peripheral blood. This broadly applicable model provides a starting point for generating specific and testable hypotheses in a pathway-centric manner.
Eine ramessidische Sonnenuhr im Tal der Könige
Authors: Bickel Susanne , Gautschy Rita 
Published: June 2014

Summary
A vertical sundial, painted on a limestone ostracon, was found in an area of Ramesside workmen’s huts during investigations undertaken by the University of Basel Kings’ Valley Project between tombs KV 29 and KV 61. It turns out to be one of the oldest devices of this kind and one of only a few with a secure provenance. As with all devices of time measuring of this type, the accuracy is relative and depends on the period of the year. The precision of the sundial was, however, perfectly suit­ed to regulate the shifts of the workmen and their re­creation breaks.
Sinuhes Flucht
Authors: Bommas Martin 
Published: June 2014

Summary
By using a new methodological approach which aims at identifying mythic and ritual structures in ancient Egyptian literary texts, this article aims at disclosing the cultural strategies applied in the relations between man and the sacred. In the story of Sinuhe, the sacred – generally marked by untouchability and unspeakabilty – is met with a spontaneous reaction leading to the precipitant flight of the protagonist. Different from previous scholarly research, this article does not propose a single reason for Sinuhe’s reaction but argues for a cultural pattern of behaviour instead.
Hieratische Gefäßaufschriften aus dem späten Alten Reich
Authors: Seyfried Karl-Joachim 
Published: June 2014

Summary
A reviewed and enlarged compilation of Old Kingdom hieratic inscriptions written on offering (funerary) vessels – except the well known corpus of the Qubbet el-Hawa samples (approximately 2000 objects) – increases the number of this kind of inscriptions outside the Aswan region up to 95 objects: (a) Tell Edfu: 41; (b) Gebelen: 11; (c) Siut: 3; (d) Meir: 4; (e) Saqqara: 3; (f) Abusir: 1; (g) Giza: 1 and (h) Provenance unknown: 6. To these 70 items collected so far one may add now the 25 items believed to originate from the area of (i) Naqada/Qus in the 5th Upper Egyptian nome. The publication of these objects forms the core of the contribution. They are housed in the Ägyptisches Museum Berlin and had been bought by Ludwig Borchardt at the end of the 19th century in Luxor. Some of the inscriptions make use of a formula and expressions not to be faced with commonly. Several individuals mentioned in the “Berlin offering texts” can be identified to some certainty with family members quoted in H. G. Fischers “Inscriptions of the Coptite Nome”.
“Universal Mixing” and Interpenetrating Standing
Authors: Hustis Harriet 
Published: June 2014

Harriet Hustis, “‘Universal Mixing’ and Interpenetrating Standing: Disability and Community in Melville’s Moby-Dick” (pp. 26-55)
This essay examines whether the representation of disability and community in Herman Melville’s Moby-Dick (1851) is limited to the narcissistic determinism of Ahab. It argues that although Ahab perceives his disability as unusual, when set against the backdrop of the novel and the realities of the whaling profession in the nineteenth century, it is not. The essay claims that Ishmael’s status as “Isolatoe” is redefined through his act of narrative remembrance and his function as storyteller. Ultimately, the essay concludes that Ishmael’s retrospective offers a unique gloss on the interruptive nature of disability and its moral and narrative implications.
“The Valley of the Shadow of Books”
Authors: Knox Marisa Palacios 
Published: June 2014

Marisa Palacios Knox, “‘The Valley of the Shadow of Books’: George Gissing, New Women, and Morbid Literary Detachment” (pp. 92-122)
Victorian consternation about the physiological—especially reproductive—repercussions of women readers’ affective involvement with fiction is well documented. This essay contends, however, that at the fin de siècle a new cultural anxiety developed around the possibility of the woman who under-identifies, that is, refuses or is simply incapable of a stereotypically feminine standard of personal identification with literature. As the number of women entering vocational training as well as higher education increased exponentially in the late nineteenth century, the threat of women’s influx into the workplace expressed itself in a discourse of concern for the vitiation of women’s “natural” responsiveness to reading as a symptom of emotional as well as physical barrenness. George Gissing’s New Grub Street (1891) and The Odd Women (1893), in addition to the New Women novels of Charlotte Riddell and George Paston, engage with and complicate the idea of professional women’s literary detachment as a kind of morbid pathology, a trope that nevertheless continues to influence the reception of these works.
Pseudosynapsis and Decreased Stringency of Meiotic Repair Pathway Choice on the Hemizygous Sex Chromosome of Caenorhabditis elegans Males
Authors: Checchi Paula M , Lawrence Katherine S , Van Mike V , Larson Braden J , Engebrecht JoAnne 
Published: June 2014

Abstract
During meiosis, accurate chromosome segregation relies on homology to mediate chromosome pairing, synapsis, and crossover recombination. Crossovers are dependent upon formation and repair of double-strand breaks (DSBs) by homologous recombination (HR). In males of many species, sex chromosomes are largely hemizygous, yet DSBs are induced along nonhomologous regions. Here we analyzed the genetic requirements for meiotic DSB repair on the completely hemizygous X chromosome of Caenorhabditis elegans males. Our data reveal that the kinetics of DSB formation, chromosome pairing, and synapsis are tightly linked in the male germ line. Moreover, DSB induction on the X is concomitant with a brief period of pseudosynapsis that may allow X sister chromatids to masquerade as homologs. Consistent with this, neither meiotic kleisins nor the SMC-5/6 complex are essential for DSB repair on the X. Furthermore, early processing of X DSBs is dependent on the CtIP/Sae2 homolog COM-1, suggesting that as with paired chromosomes, HR is the preferred pathway. In contrast, the X chromosome is refractory to feedback mechanisms that ensure crossover formation on autosomes. Surprisingly, neither RAD-54 nor BRC-2 are essential for DSB repair on the X, suggesting that unlike autosomes, the X is competent for repair in the absence of HR. When both RAD-54 and the structure-specific nuclease XPF-1 are abrogated, X DSBs persist, suggesting that single-strand annealing is engaged in the absence of HR. Our findings indicate that alteration in sister chromatid interactions and flexibility in DSB repair pathway choice accommodate hemizygosity on sex chromosomes.
Estimating Tempo and Mode of Y Chromosome Turnover: Explaining Y Chromosome Loss With the Fragile Y Hypothesis
Authors: Blackmon Heath , Demuth Jeffery P 
Published: June 2014

Abstract
Chromosomal sex determination is phylogenetically widespread, having arisen independently in many lineages. Decades of theoretical work provide predictions about sex chromosome differentiation that are well supported by observations in both XY and ZW systems. However, the phylogenetic scope of previous work gives us a limited understanding of the pace of sex chromosome gain and loss and why Y or W chromosomes are more often lost in some lineages than others, creating XO or ZO systems. To gain phylogenetic breadth we therefore assembled a database of 4724 beetle species’ karyotypes and found substantial variation in sex chromosome systems. We used the data to estimate rates of Y chromosome gain and loss across a phylogeny of 1126 taxa estimated from seven genes. Contrary to our initial expectations, we find that highly degenerated Y chromosomes of many members of the suborder Polyphaga are rarely lost, and that cases of Y chromosome loss are strongly associated with chiasmatic segregation during male meiosis. We propose the “fragile Y” hypothesis, that recurrent selection to reduce recombination between the X and Y chromosome leads to the evolution of a small pseudoautosomal region (PAR), which, in taxa that require XY chiasmata for proper segregation during meiosis, increases the probability of aneuploid gamete production, with Y chromosome loss. This hypothesis predicts that taxa that evolve achiasmatic segregation during male meiosis will rarely lose the Y chromosome. We discuss data from mammals, which are consistent with our prediction.
Linking Patient-Centered Medical Home and Asthma Measures Reduces Hospital Readmission Rates
Authors: Bergert Lora , Patel Shilpa J. , Kimata Chieko , Zhang Guangxiang , Matthews Wallace J. 
Published: June 2014

OBJECTIVE:
We sought to achieve 100% compliance with all 3 Children’s Asthma Care (CAC; CAC-1, CAC-2, CAC-3) measures and track attendance at follow-up appointments with the patient-centered medical home. The impact of these measures on readmission and emergency department utilization rates was evaluated.

METHODS:
This quality improvement study evaluated compliance with CAC measures in pediatric patients aged 2 to 18 years old hospitalized with a primary diagnosis of asthma from January 1, 2008, through June 30, 2012. A multidisciplinary Asthma Task Force was assembled to develop interventions. Attendance at the follow-up appointment was tracked monthly from January 1, 2009. Readmission and emergency department utilization rates were compared between the preimplementation period (January 1, 2006, through December 31, 2007) and the postimplementation period (January 1, 2008, through June 30, 2012).

RESULTS:
The preimplementation period included 231 subjects and the postimplementation period included 532 subjects. Compliance with CAC-3 was 95% from October 1, 2009, through June 30, 2012. Compliance with the postdischarge follow-up appointment was 69% from January 1, 2009 through September 30, 2009, increasing significantly to 90% from October 1, 2009, through June 30, 2012 (P &lt; .001). Postimplementation readmission rates significantly decreased in the 91- to 180-day postdischarge interval (odds ratio: 0.29; 95% confidence interval: 0.11–0.78).

CONCLUSIONS:
In children hospitalized with asthma, compliance with the asthma core measures and the postdischarge follow-up appointment with the primary care provider was associated with reduced readmission rates at 91 to 180 days after discharge. We attribute our results to a comprehensive set of interventions designed by our multidisciplinary Asthma Task Force.
Recurrence Rates After Intussusception Enema Reduction: A Meta-analysis
Authors: Gray Matthew P. , Li Shun-Hwa , Hoffmann Raymond G. , Gorelick Marc H. 
Published: June 2014

BACKGROUND AND OBJECTIVE:Reported rates of recurrence after enema reduction for intussusception are variable. Concerns for recurrence influence postreduction management. The objective of this study was to conduct a systematic review and meta-analysis to estimate overall, 24-hour, and 48-hour recurrence rates after enema reduction in children.METHODS:PubMed, Cochrane Database, and OVID Medline were searched from 1946 through December 2011 using the search terms: intussusception, recurrence, and enema. Sixty-nine studies of patients age 0 to 18 years with radiographically proven intussusception reduced by enema that report the number of enema reductions and the number of recurrences were included. Extraction was done by the primary author (M.P.G.) with 10% of included studies independently audited to ensure concordance.RESULTS:Overall recurrence rates were 12.7% (95% confidence interval [CI]: 11.1%–14.4%, I2 = 28.8%) for contrast enema (CE), 7.5% (95% CI: 5.7%–9.8%, I2 = 52.4%) for ultrasound-guided noncontrast enema (UGNCE), and 8.5% (95% CI: 6.9%–10.4%, I2 = 50.1%) for fluoroscopy-guided air enema (FGAE). Recurrence rates within 24 hours were 3.9% (95% CI: 2.2%–6.7%, I2 = 47.0%) for CE, 3.9% (95% CI: 1.5%–10.1%, I2 = 0.0%) for UGNCE, and 2.2% (95% CI: 0.7%–6.5%, I2 = 59.8%) for FGAE. Recurrence rates within 48 hours were 5.4% (95% CI 3.7%–7.8%, I2 = 32.3%) for CE, 6.6% (95% CI: 4.0%–10.7%, I2 = 0.0%) for UGNCE, and 2.7% (95% CI: 1.2%–6.5%, I2 = 73.8%) for FGAE. Most included studies are retrospective and vary in quality of reporting. Few studies reported detailed patient characteristics including timing of recurrences.CONCLUSIONS:The risk of early (within 48 hours) recurrence after enema reduction is low, suggesting outpatient management of well-appearing patients should be considered.
Cardiovascular Responses to Caffeine by Gender and Pubertal Stage
Authors: Temple Jennifer L. , Ziegler Amanda M. , Graczyk Adam , Bendlin Ashley , Sion Teresa , Vattana Karina 
Published: June 2014

BACKGROUND:
Caffeine use is on the rise among children and adolescents. Previous studies from our laboratory reported gender differences in the effects of caffeine in adolescents. The purpose of this study was to test the hypotheses that gender differences in cardiovascular responses to caffeine emerge after puberty and that cardiovascular responses to caffeine differ across the phases of the menstrual cycle.

METHODS:
To test these hypotheses, we examined heart rate and blood pressure before and after administration of placebo and 2 doses of caffeine (1 and 2 mg/kg) in prepubertal (8- to 9-year-olds; n = 52) and postpubertal (15- to 17-year-olds; n = 49) boys (n = 54) and girls (n = 47) by using a double-blind, placebo-controlled, dose-response design.

RESULTS:
There was an interaction between gender and caffeine dose, with boys having a greater response to caffeine than girls. In addition, we found interactions between pubertal phase, gender, and caffeine dose, with gender differences present in postpubertal, but not in prepubertal, participants. Finally, we found differences in responses to caffeine across the menstrual cycle in post-pubertal girls, with decreases in heart rate greater in the midluteal phase and blood pressure increases greater in the midfollicular phase of the menstrual cycle.

CONCLUSIONS:
These data suggest that gender differences in response to caffeine emerge after puberty. Future research will determine the extent to which these gender differences are mediated by physiological factors, such as steroid hormones, or psychosocial factors, such as more autonomy and control over beverage purchases.
The Medical Cost of Abusive Head Trauma in the United States
Authors: Peterson Cora , Xu Likang , Florence Curtis , Parks Sharyn E. , Miller Ted R. , Barr Ronald G. , Barr Marilyn , Steinbeigle Ryan 
Published: June 2014

OBJECTIVES:
Health consequences of shaken baby syndrome, or pediatric abusive head trauma (AHT), can be severe and long-lasting. We aimed to estimate the multiyear medical cost attributable to AHT.

METHODS:
Using Truven Health MarketScan data, 2003–2011, we identified children 0 to 4 years old with commercial or Medicaid insurance and AHT diagnoses. We used exact case–control matching based on demographic and insurance characteristics such as age and health plan type to compare medical care between patients with and without AHT diagnoses. Using regression models, we assessed service use (ie, average annual number of inpatient visits per patient) and inpatient, outpatient (including emergency department), drug, and total medical costs attributable to an AHT diagnosis during the 4-year period after AHT diagnosis.

RESULTS:
We assessed 1209 patients with AHT and 5895 matched controls. Approximately 48% of patients with AHT received inpatient care within 2 days of initial diagnosis, and 25% were treated in emergency departments. AHT diagnosis was associated with significantly greater medical service use and higher inpatient, outpatient, drug, and total costs for multiple years after the diagnosis. The estimated total medical cost attributable to AHT in the 4 years after diagnosis was $47 952 (95% confidence interval [CI], $40 219–$55 685) per patient with AHT (2012 US dollars) and differed for commercially insured ($38 231 [95% CI, $29 898–$46 564]) and Medicaid ($56 691 [95% CI, $4290–$69 092]) patients.

CONCLUSIONS:
Children continue to have substantial excess medical costs for years after AHT. These estimates exclude related nonmedical costs such as special education and disability that also are attributable to AHT.
An uncommon case of Marine-Lenhart syndrome
Authors: Giuffrida Giuseppe , Giovinazzo Salvatore , Certo Rosaria , Vicchio Teresa Manuela , Baldari Sergio , Campennì Alfredo , Ruggeri Rosaria Maddalena 
Published: June 2014

The term Marine-Lenhart syndrome describes the association between Graves’ disease and autonomously functioning thyroid nodules (AFTN), such as toxic adenoma or toxic multinodular goiter. The two diseases may coexist or may be present at different moments in the same patient. In the literature, there are many reports on the development of Graves’ disease after radioiodine treatment for AFTN, but very little information may be found on the occurrence of AFTN after radioiodine therapy for Graves’ disease. We describe here the case of a female patient with Graves’ disease who was successfully treated with radioiodine for Graves’ disease, returning to normal thyroid function. Three years later, biochemical analysis and ultrasound examination identified a thyroid nodule that progressively increased in size. The 99mTc-pertechnetate scintigraphy showed avid uptake in the right lobule, which corresponded to a nodular lesion consistent with AFTN.
Classical molecular dynamics investigations of biphenyl-based carbon nanomembranes
Authors: Mrugalla Andreas , Schnack Jürgen 
Published: June 2014

Background: Free-standing carbon nanomembranes (CNM) with molecular thickness and macroscopic size are fascinating objects both for fundamental reasons and for applications in nanotechnology. Although being made from simple and identical precursors their internal structure is not fully known and hard to simulate due to the large system size that is necessary to draw definite conclusions.Results: We performed large-scale classical molecular dynamics investigations of biphenyl-based carbon nanomembranes. We show that one-dimensional graphene-like stripes constitute a highly symmetric quasi one-dimensional energetically favorable ground state. This state does not cross-link. Instead cross-linked structures are formed from highly excited precursors with a sufficient amount of broken phenyls.Conclusion: The internal structure of the CNM is very likely described by a disordered metastable state which is formed in the energetic initial process of electron irradiation and depends on the process of relaxation into the sheet phase.
Monetary Policy Deliberations : Committee Size and Voting Rules
Authors: Maurin Vincent , Vidal Jean-Pierre 
Published: June 2014

Quelle est la taille optimale d’un comité de politique monétaire ? Quelle est la meilleure règle de vote ? Dans l’esprit du théorème de Condorcet, cet article propose un modèle de prise de décision contenant des phases de délibération pendant lesquels les membres du comité peuvent changer de position. Ce processus de délibération est conclu par une décision qui peut être prise à l’unanimité, à la majorité simple ou à la majorité qualifiée. En termes de performance, la majorité simple apparaît plus efficace pour les comités composés d’un grand nombre de membres. En revanche, décider à l’unanimité n’est profitable que dans les comités de petite taille. D’une manière générale, les règles de super-majorité sont adaptées dans un environnement incertain, lorsque les propositions initiales ont moins de chance d’être correctes, ou dans des problèmes de décision asymétrique, quand la perte liée à l’adoption d’une mauvaise proposition est plus élevée que celle du rejet d’une bonne proposition. Classification JEL : D71, D78, D81, E58.
Wabash River Freshwater DrumAplodinotus grunniensDiet: Effects of Body Size, Sex, and River Gradient
Authors: Jacquemin Stephen J. , Pyron Mark , Allen Michael , Etchison Lucas 
Published: June 2014

AbstractThe objectives of this study were to describe the diets of freshwater drum Aplodinotus grunniens in the Wabash River in the Midwestern United States. We used a multivariate ordination approach (nonmetric multidimensional scaling) to describe drum diets combined with a generalized linear model to test for covariation of diet with body size, sex, and longitudinal river gradient. Hydropsychidae (trichoptera, caddisfly larvae), pleuroceridae (gastropoda), and heptageniidae (ephemeroptera, mayfly larvae) were the most consumed prey items (∼75% of overall diets). Among all freshwater drum, hydropsychidae, pleuroceridae, and heptageniidae were present in 69%, 23%, and 38% of stomachs, respectively. Freshwater drum diets were similar along an upstream–downstream river gradient spanning 350 river km, but varied with body size and sex. Small- and medium-sized fish tended to consume more diptera and annelids compared with the largest individuals, which fed on mollusks and crayfish. With control for body size, the diets of male individuals were composed of more diptera (chironomidae) and annelid prey items compared with female individuals, whose diets included more molluscs and crayfish. Overall, we interpret the lack of diet diversity in freshwater drum with Wabash River longitudinal gradient as evidence of diet specialization. Alternatively, we propose that a potential dietary–river-gradient signal may be diluted as a function of increased freshwater drum longitudinal movements.
Image-Based Modeling Approaches to 2D and 3D Digital Drafting in Archaeology at Tel Akko and Qasrin
Authors: Quartermaine Jamie , Olson Brandon R. , Killebrew Ann E. 
Published: June 2014

ABSTRACT
As archaeologists continue to adopt geographic information systems and computer-aided design software packages to record and store spatial data, excavations have begun to forgo hand-drawn plans in favor of digital recording. The purpose of this article is to present two case studies that have successfully utilized digital drafting techniques to create architectural plans at multiple scales. The first presents on-site 2D and 3D documentation at the site of Tel Akko, Israel, at the square, field, and tell scales. The second study combines orthophotos and legacy data to create an accurate site plan of Qasrin on the Golan Heights. Both harness image-based modeling to produce 2D and 3D spatial data in order to produce top plans with unprecedented spatial accuracy.