bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effect of Urban Growth on Aerosol Optical Depth—Tucson, Arizona, 35 Years Later
Authors: Prabhakar Gouri , Betterton Eric A. , Conant W. , Herman Benjamin M. 
Published: June 2014

AbstractMultiwavelength solar irradiance measurements between 400 and 900 nm were made on cloudless days in Tucson, Arizona, over a 30-month period between March 2010 and August 2012. They were analyzed to simultaneously retrieve aerosol optical depth (AOD) and ozone column abundance and to examine their monthly variation. These retrievals were compared with results from a similar study done at the same location between 1975 and 1977. The near tripling of population in Tucson over the past 35 years may have contributed to a 19% increase in the AOD, and the annual-mean ozone column abundance was found to be 11% lower than that inferred during the mid-1970s.
Computation of Radiation Budget on an Oblate Earth
Authors: Smith G. Louis , Doelling David R. 
Published: June 2014

Abstract
The effects of the earth’s oblateness on computation of its radiation budget from satellite measurements are evaluated. For the Clouds and the Earth’s Radiant Energy System (CERES) data processing, geolocations of the measurements are computed in terms of the geodetic coordinate system. Using this system accounts for oblateness in the computed solar zenith angle and length of day. The geodetic and geocentric latitudes are equal at the equator and poles but differ by a maximum of 0.2° at 45° latitude. The area of each region and zone is affected by oblateness as compared to geocentric coordinates, decreasing from zero at the equator to 1.5% at the poles. The global area receiving solar radiation is calculated using the equatorial and polar axes. This area varies with solar declination by 0.0005. For radiation budget computations, the earth oblateness effects are shown to be small compared to error sources of measuring or modeling.
An Enhanced Model of Land Water and Energy for Global Hydrologic and Earth-System Studies
Authors: Milly P. C. D. , Malyshev Sergey L. , Shevliakova Elena , Dunne Krista A. , Findell Kirsten L. , Gleeson Tom , Liang Zhi , Phillipps Peter , Stouffer Ronald J. , Swenson Sean 
Published: June 2014

AbstractLM3 is a new model of terrestrial water, energy, and carbon, intended for use in global hydrologic analyses and as a component of earth-system and physical-climate models. It is designed to improve upon the performance and to extend the scope of the predecessor Land Dynamics (LaD) and LM3V models by better quantifying the physical controls of climate and biogeochemistry and by relating more directly to components of the global water system that touch human concerns. LM3 includes multilayer representations of temperature, liquid water content, and ice content of both snowpack and macroporous soil–bedrock; topography-based description of saturated area and groundwater discharge; and transport of runoff to the ocean via a global river and lake network. Sensible heat transport by water mass is accounted throughout for a complete energy balance. Carbon and vegetation dynamics and biophysics are represented as in LM3V. In numerical experiments, LM3 avoids some of the limitations of the LaD model and provides qualitatively (though not always quantitatively) reasonable estimates, from a global perspective, of observed spatial and/or temporal variations of vegetation density, albedo, streamflow, water-table depth, permafrost, and lake levels. Amplitude and phase of annual cycle of total water storage are simulated well. Realism of modeled lake levels varies widely. The water table tends to be consistently too shallow in humid regions. Biophysical properties have an artificial stepwise spatial structure, and equilibrium vegetation is sensitive to initial conditions. Explicit resolution of thick (>100 m) unsaturated zones and permafrost is possible, but only at the cost of long (≫300 yr) model spinup times.
Global Precipitation Measurement (GPM) Ground Validation (GV) Prototype in the Korean Peninsula
Authors: Kim Ji-Hye , Ou Mi-Lim , Park Jun-Dong , Morris Kenneth R. , Schwaller Mathew R. , Wolff David B. 
Published: June 2014

Abstract
Since 2009, the Korea Meteorological Administration (KMA) has participated in ground validation (GV) projects through international partnerships within the framework of the Global Precipitation Measurement (GPM) Mission. The goal of this work is to assess the reliability of ground-based measurements in the Korean Peninsula as a means for validating precipitation products retrieved from satellite microwave sensors, with an emphasis on East Asian precipitation. KMA has a well-developed operational weather service infrastructure composed of meteorological radars, a dense rain gauge network, and automated weather stations. Measurements from these systems, including data from four ground-based radars (GRs), were combined with satellite data from the Tropical Rainfall Measuring Mission (TRMM) precipitation radar (PR) and used as a proxy for GPM GV over the Korean Peninsula. A time series of mean reflectivity differences (GR − PR) for stratiform-only and above-brightband-only data showed that the time-averaged difference fell between −2.0 and +1.0 dBZ for the four GRs used in this study. Site-specific adjustments for these relative mean biases were applied to GR reflectivities, and detailed statistical comparisons of reflectivity and rain rate between PR and bias-adjusted GR were carried out. In rain-rate comparisons, surface rain from the TRMM Microwave Imager (TMI) and the rain gauges were added and the results varied according to rain type. Bias correction has had a positive effect on GR rain rate comparing with PR and gauge rain rates. This study confirmed advance preparation for GPM GV system was optimized on the Korean Peninsula using the official framework.
Surgical Trends in the Treatment of Superior Labrum Anterior and Posterior Lesions of the Shoulder
Authors: Patterson Brendan M. , Creighton R. Alexander , Spang Jeffrey T. , Roberson James R. , Kamath Ganesh V. 
Published: June 2014

Background: After failure of nonoperative treatment, repair has long been the primary treatment option for symptomatic superior labrum anterior and posterior (SLAP) lesions of the shoulder. There is growing evidence to support both biceps tenotomy and tenodesis as effective alternative treatments for SLAP lesions. Hypotheses: For patients with isolated SLAP lesions, the frequency of SLAP repair has decreased, while treatment with biceps tenodesis and tenotomy has increased. Similar trends are expected in patients with SLAP lesions undergoing concomitant rotator cuff repair. Study Design: Cohort study; Level of evidence, 3. Methods: A query of the American Board of Orthopaedic Surgery part II database was performed from 2002 to 2011. The database was searched for patients with isolated SLAP lesions undergoing SLAP repair, open biceps tenodesis, arthroscopic biceps tenodesis, or biceps tenotomy. The database was then queried a second time for patients undergoing arthroscopic rotator cuff repair with concomitant SLAP repair, biceps tenodesis, or biceps tenotomy. Results: From 2002 to 2011, there were 8963 cases reported for the treatment of an isolated SLAP lesion and 1540 cases reported for the treatment of SLAP lesions with concomitant rotator cuff repair. For patients with isolated SLAP lesions, the proportion of SLAP repairs decreased from 69.3% to 44.8% ( P < .0001), while biceps tenodesis increased from 1.9% to 18.8% ( P < .0001), and biceps tenotomy increased from 0.4% to 1.7% ( P = .018). For patients undergoing concomitant rotator cuff repair, SLAP repair decreased from 60.2% to 15.3% ( P < .0001), while biceps tenodesis or tenotomy increased from 6.0% to 28.0% ( P < .0001). There was a significant difference in the mean age of patients undergoing SLAP repair (37.1 years) versus biceps tenodesis (47.2 years) versus biceps tenotomy (55.7 years) ( P < .0001). Conclusion: Practice trends for orthopaedic board candidates indicate that the proportion of SLAP repairs has decreased over time, with an increase in biceps tenodesis and tenotomy. Increased patient age correlates with the likelihood of treatment with biceps tenodesis or tenotomy versus SLAP repair.
Correlation Between Clinical and Radiological Outcomes After Matrix-Induced Autologous Chondrocyte Implantation in the Femoral Condyles
Authors: Ebert Jay R. , Smith Anne , Fallon Michael , Wood David J. , Ackland Timothy R. 
Published: June 2014

Background: Matrix-induced autologous chondrocyte implantation (MACI) is an established technique for the repair of knee chondral defects, although the correlation between clinical and radiological outcomes after surgery is poorly understood. Purpose: To determine the correlation between clinical and radiological outcomes throughout the postoperative timeline to 5 years after MACI. Study Design: Cohort study (diagnosis); Level of evidence, 3. Methods: This retrospective study was undertaken in 83 patients (53 male, 30 female) with complete clinical and radiological follow-up at 1, 2, and 5 years after MACI. The mean age of patients was 38.9 years (range, 13-62 years), with a mean body mass index (BMI) of 26.6 kg/m2 (range, 16.8-34.8 kg/m2), mean defect size of 3.3 cm2 (range, 1-9 cm2), and mean preoperative duration of symptoms of 9.2 years (range, 1-46 years). Patients indicated for MACI in this follow-up were 13 to 65 years of age, although they were excluded if they had a BMI >35 kg/m2, had undergone prior extensive meniscectomy, or had ongoing progressive inflammatory arthritis. Patients were assessed clinically using the Knee Injury and Osteoarthritis Outcome Score (KOOS). Magnetic resonance imaging (MRI) was used to evaluate the graft using a 1.5-T or 3-T clinical scanner; the MRI assessment included 8 parameters of graft repair (infill, signal intensity, border integration, surface contour, structure, subchondral lamina, subchondral bone, and effusion) based on the magnetic resonance observation of cartilage repair tissue (MOCART) score as well as an MRI composite score. The degree of an association between the MRI parameters and the KOOS subscales at each postoperative time point was assessed with the Spearman correlation coefficient (SCC), and significance was determined at P < .05. Ethics approval was obtained from the appropriate hospital and university Human Research Ethics Committees, and informed consent was gathered from all patients. Results: The only MRI parameter displaying consistent evidence of an association with the KOOS subscales was effusion, with a pattern of increasing strength of correlations over time and statistically significant associations at 5 years with KOOS-Pain (SCC, 0.25; P = .020), KOOS–Activities of Daily Living (SCC, 0.26; P = .018), and KOOS-Sport (SCC, 0.32; P = .003). Apart from a significant correlation between subchondral lamina and KOOS-Sport at 1 year (SCC, 0.27; P = .016), no further significant findings were observed. Conclusion: Apart from some consistent evidence of an association between the KOOS and effusion, this analysis demonstrated a limited correlative capacity between clinical and radiological outcomes up to 5 years after surgery.
The first Australian painting of schizophrenia by Ivor Francis
Authors: Kaplan Robert M 
Published: June 2014

Objective: This article examines the 1943 surrealistic painting Schizophrenia by Ivor Francis, the first major Australian art work depicting a mental disorder. Francis was influenced by Max Harris who encouraged him to read works on surrealism and psychoanalysis, but took his ideas from the book on schizophrenia by the radical Melbourne psychiatrist, Reg Ellery. Conclusion: Ivor Francis produced a riveting painting that stands as an enduring visual beacon in the cultural history of Antipodean psychiatry.
Transcription of the activating receptor NKG2D in natural killer cells is regulated by STAT3 tyrosine phosphorylation
Authors: Zhu Shiguo , Phatarpekar Prasad V. , Denman Cecele J. , Senyukov Vladimir V. , Somanchi Srinivas S. , Nguyen-Jackson Hoainam T. , Mace Emily M. , Freeman Alexandra F. , Watowich Stephanie S. , Orange Jordan S. , Holland Steven M. , Lee Dean A. 
Published: June 2014

Key Points
STAT3 directly regulates expression of NKG2D in NK cells. Defects in STAT3 signaling result in deficient NKG2D responses to cytokine.
Expression-based network biology identifies immune-related functional modules involved in plant defense
Authors: Tully Joel P , Hill Aubrey E , Ahmed Hadia MR , Whitley Ryan , Skjellum Anthony , Mukhtar M Shahid 
Published: June 2014

Abstract

Background
Plants respond to diverse environmental cues including microbial perturbations by coordinated regulation of thousands of genes. These intricate transcriptional regulatory interactions depend on the recognition of specific promoter sequences by regulatory transcription factors. The combinatorial and cooperative action of multiple transcription factors defines a regulatory network that enables plant cells to respond to distinct biological signals. The identification of immune-related modules in large-scale transcriptional regulatory networks can reveal the mechanisms by which exposure to a pathogen elicits a precise phenotypic immune response.

Results
We have generated a large-scale immune co-expression network using a comprehensive set of Arabidopsis thaliana (hereafter Arabidopsis) transcriptomic data, which consists of a wide spectrum of immune responses to pathogens or pathogen-mimicking stimuli treatments. We employed both linear and non-linear models to generate Arabidopsis immune co-expression regulatory (AICR) network. We computed network topological properties and ascertained that this newly constructed immune network is densely connected, possesses hubs, exhibits high modularity, and displays hallmarks of a “real” biological network. We partitioned the network and identified 156 novel modules related to immune functions. Gene Ontology (GO) enrichment analyses provided insight into the key biological processes involved in determining finely tuned immune responses. We also developed novel software called OCCEAN (One Click Cis-regulatory Elements ANalysis) to discover statistically enriched promoter elements in the upstream regulatory regions of Arabidopsis at a whole genome level. We demonstrated that OCCEAN exhibits higher precision than the existing promoter element discovery tools. In light of known and newly discovered cis-regulatory elements, we evaluated biological significance of two key immune-related functional modules and proposed mechanism(s) to explain how large sets of diverse GO genes coherently function to mount effective immune responses.

Conclusions
We used a network-based, top-down approach to discover immune-related modules from transcriptomic data in Arabidopsis. Detailed analyses of these functional modules reveal new insight into the topological properties of immune co-expression networks and a comprehensive understanding of multifaceted plant defense responses. We present evidence that our newly developed software, OCCEAN, could become a popular tool for the Arabidopsis research community as well as potentially expand to analyze other eukaryotic genomes.
Genomic scars as biomarkers of homologous recombination deficiency and drug response in breast and ovarian cancers
Authors: Watkins Johnathan A , Irshad Sheeba , Grigoriadis Anita , Tutt Andrew NJ 
Published: June 2014

AbstractPoly (ADP-ribose) polymerase (PARP) inhibitors and platinum-based chemotherapies have been found to be particularly effective in tumors that harbor deleterious germline or somatic mutations in the BRCA1 or BRCA2 genes, the products of which contribute to the conservative homologous recombination repair of DNA double-strand breaks. Nonetheless, several setbacks in clinical trial settings have highlighted some of the issues surrounding the investigation of PARP inhibitors, especially the identification of patients who stand to benefit from such drugs. One potential approach to finding this patient subpopulation is to examine the tumor DNA for evidence of a homologous recombination defect. However, although the genomes of many breast and ovarian cancers are replete with aberrations, the presence of numerous factors able to shape the genomic landscape means that only some of the observed DNA abnormalities are the outcome of a cancer cell’s inability to faithfully repair DNA double-strand breaks. Consequently, recently developed methods for comprehensively capturing the diverse ways in which homologous recombination deficiencies may arise beyond BRCA1/2 mutation have used DNA microarray and sequencing data to account for potentially confounding features in the genome. Scores capturing telomeric allelic imbalance, loss of heterozygosity (LOH) and large scale transition score, as well as the total number of coding mutations are measures that summarize the total burden of certain forms of genomic abnormality. By contrast, other studies have comprehensively catalogued different types of mutational pattern and their relative contributions to a given tumor sample. Although at least one study to explore the use of the LOH scar in a prospective clinical trial of a PARP inhibitor in ovarian cancer is under way, limitations that result in a relatively low positive predictive value for these biomarkers remain. Tumors whose genome has undergone one or more events that restore high-fidelity homologous recombination are likely to be misclassified as double-strand break repair-deficient and thereby sensitive to PARP inhibitors and DNA damaging chemotherapies as a result of prior repair deficiency and its genomic scarring. Therefore, we propose that integration of a genomic scar-based biomarker with a marker of resistance in a high genomic scarring burden context may improve the performance of any companion diagnostic for PARP inhibitors.
Is the DSM-5 chapter on somatic symptom disorder any better than DSM-IV somatoform disorder?
Authors: Mayou Richard 
Published: June 2014

SummaryDSM-5 is a modest improvement on DSM-IV, notably in abandoning the distinction between medically explained and unexplained symptoms, but problems remain. The chapter text is incoherent, contradicts the classification and will be clinically unhelpful. ICD-11 should attempt a more logical and consistent revision.
Measuring clinically significant outcomes – LDQ, CORE-10 and SSQ as dimension measures of addiction
Authors: Raistrick Duncan , Tober Gillian , Sweetman Jenny , Unsworth Sally , Crosby Helen , Evans Tom 
Published: June 2014

Aims and methodTo determine values for reliable change and clinically significant change for the Leeds Dependence Questionnaire (LDQ) and Social Satisfaction Questionnaire (SSQ). The performance of these two measures with the Clinical Outcomes in Routine Evaluation (CORE-10) as three dimension measures of addiction was then explored.ResultsThe reliable change statistic for both LDQ and SSQ was ≥4; the cut-offs for clinically significant change were LDQ 410 males, ≤5 females, and SSQ ≥16. There was no overlap of 95% CIs for means by gender between ‘well-functioning’ and pre- and post-treatment populations.Clinical implicationsThese data enable the measurement of clinically significant change using the LDQ and SSQ and add to the evidence for the performance of the LDQ, CORE-10 and SSQ as dimension measures of addiction. The CORE-10 and SSQ can be used as treatment outcome measures for mental health problems other than addiction.
Outcomes by Tumor Subtype and Treatment Pattern in Women With Small, Node-Negative Breast Cancer: A Multi-Institutional Study
Authors: Vaz-Luis Ines , Ottesen Rebecca A. , Hughes Melissa E. , Mamet Rizvan , Burstein Harold J. , Edge Stephen B. , Gonzalez-Angulo Ana M. , Moy Beverly , Rugo Hope S. , Theriault Richard L. , Weeks Jane C. , Winer Eric P. , Lin Nancy U. 
Published: June 2014

Purpose Treatment decisions for patients with T1a,bN0M0 breast cancer are challenging. We studied the time trends in use of adjuvant chemotherapy and survival outcomes among these patients. Patients and Methods This was a prospective cohort study within the National Comprehensive Cancer Network Database that included 4,113 women with T1a,bN0M0 breast cancer treated between 2000 and 2009. Tumors were grouped by size (T1a, T1b), biologic subtype defined by hormone receptor (HR) and human epidermal growth factor receptor 2 (HER2) status, and receipt of chemotherapy with or without trastuzumab. Results Median follow-up time was 5.5 years. Eight percent of patients with HR-positive/HER2-negative tumors were treated with chemotherapy. Fifty-two percent of those with HER2-positive or HR-negative/HER2-negative breast cancers received chemotherapy, with an increase over the last decade. Survival outcomes diverged by subtype and size, but the 5-year distant relapse-free survival (DRFS) did not exceed 10% in any subgroup. The 5-year DRFS for patients with T1a tumors untreated with chemotherapy ranged from 93% to 98% (n = 49 to 972), and for patients with T1b tumors, it ranged from 90% to 96% (n = 17 to 2,005). Patients with HR-positive/HER2-negative disease had the best DRFS estimates, and patients with HR-negative/HER2-negative tumors had the lowest. In this observational, nonrandomized cohort study, the 5-year DRFS for treated patients with T1a tumors was 100% for all subgroups (n = 12 to 33), and for patients with T1b tumors, it ranged from 94% to 96% (n = 88 to 241). Conclusion Women with T1a,b tumors have an excellent prognosis without chemotherapy. Size and tumor subtype may identify patients in whom the rate of recurrence justifies consideration of chemotherapy. These patients represent an optimal group for evaluating less toxic adjuvant regimens to maintain efficacy while minimizing short- and long-term risks.
The Association between Severity of Injuries of Facial Bones in the Children and the Circumstances of the Injury
Authors: Харитонов  , Kharitonov D. , Тихонов  , Tikhonov E. 
Published: June 2014

The aim of the study is to identify the association between the severity of maxillofacial trauma and its origin. The study has included 58 cases of facial bone fractures in children of different ages received in different circumstances. All patients were treated in Maxillofacial Department of Voronezh Regional Pediatric Hospital № 2. In this paper it is shown that the gravity of the injury is directly dependent on the forces of the action of damaging factors, which is determined by the circumstances of an injury. The injuries are divided into two groups: low-speed trauma group and high-speed trauma group. The study has proved the necessity to reveal the separate group, i.e. medium-speed group of the traumas typical for children (a fall from a bike, a playground trauma). The results of this study are the following: the most frequent trauma in children is a low-speed trauma (a fall from one’s height, a criminal trauma), the most severe trauma is a high-speed-one (a high fall, road-traffic accidents, a blow into a face from a cattle).
Thou shalt not varus: still applicable in total knee arthroplasty?
Authors: Waterson H. B. , Philips J. R. A. , Mandalia V. I. , Toms A. D. 
Published: June 2014

Mechanical alignment has been a fundamental tenet of total knee arthroplasty (TKA) since modern knee replacement surgery was developed in the 1970s. The objective of mechanical alignment was to infer the greatest biomechanical advantage to the implant to prevent early loosening and failure. Over the last 40 years a great deal of innovation in TKA technology has been focusing on how to more accurately achieve mechanical alignment. Recently the concept of mechanical alignment has been challenged, and other alignment philosophies are being explored with the intention of trying to improve patient outcomes following TKA.This article examines the evolution of the mechanical alignment concept and whether there are any viable alternatives.