bluuebunny/crossref_metadata_2025_split huggingface dataset:
Observed Decadal North Atlantic Tripole SST Variability. Part I: Weather Noise Forcing and Coupled Response
Authors: Fan Meizhu , Schneider Edwin K. 
Published: August 2011

Abstract
The mechanisms responsible for the decadal variability of the tripole mode of North Atlantic SST during the latter half of the twentieth century are diagnosed using a new technique. The SST and associated ocean variability are reconstructed by forcing an interactive ensemble coupled GCM by the surface fluxes resulting from weather noise. The weather noise surface fluxes are obtained from the NCEP–NCAR reanalysis by removing the simulated atmospheric feedback to the observed SST evolution. Simulations are performed to reconstruct and estimate the contributions of the local weather noise heat flux and wind stress to the observed evolution of the tripole pattern. The results indicate that the North Atlantic tripole pattern is forced primarily by the local weather noise surface heat flux. The roles of several types of ocean circulation variability, including gyres forced by the wind stress weather noise, the wind stress feedback to the SST, and the meridional overturning circulation, are also examined. Conclusions from this approach are expected to be model dependent. Further analysis, in the context of a simple model, of the mechanisms producing the tripole variability is presented in Part II.
Surface Air Temperature and Humidity from Intersatellite-Calibrated HIRS Measurements in High Latitudes
Authors: Shi Lei , Peng Ge , Bates John J. 
Published: August 2011

Abstract
High-latitude ocean surface air temperature and humidity derived from intersatellite-calibrated High-Resolution Infrared Radiation Sounder (HIRS) measurements are examined. A neural network approach is used to develop retrieval algorithms. HIRS simultaneous nadir overpass observations from high latitudes are used to intercalibrate observations from different satellites. Investigation shows that if HIRS observations were not intercalibrated, then it could lead to intersatellite biases of 1°C in the air temperature and 1–2 g kg−1 in the specific humidity for high-latitude ocean surface retrievals. Using a full year of measurements from a high-latitude moored buoy site as ground truth, the instantaneous (matched within a half-hour) root-mean-square (RMS) errors of HIRS retrievals are 1.50°C for air temperature and 0.86 g kg−1 for specific humidity. Compared to a large set of operational moored and drifting buoys in both northern and southern oceans greater than 50° latitude, the retrieval instantaneous RMS errors are within 2.6°C for air temperature and 1.4 g kg−1 for specific humidity. Compared to 5 yr of International Maritime Meteorological Archive in situ data, the HIRS specific humidity retrievals show less than 0.5 g kg−1 of differences over the majority of northern high-latitude open oceans.
A General Filter for Stretched-Grid Models: Application in Two-Dimension Polar Geometry
Authors: Surcel Dorina , Laprise René 
Published: August 2011

Abstract
Variable-resolution grids are used in global atmospheric models to improve the representation of regional scales over an area of interest: they have reduced computational cost compared to uniform high-resolution grids, and avoid the nesting issues of limited-area models. To address some concerns associated with the stretching and anisotropy of the variable-resolution computational grid, a general convolution filter operator was developed.
The convolution filter that was initially applied in Cartesian geometry in a companion paper is here adapted to cylindrical polar coordinates as an intermediate step toward spherical polar latitude–longitude grids. Both polar grids face the so-called “pole problem” because of the convergence of meridians at the poles.
In this work the authors will present some details related to the adaptation of the filter to cylindrical polar coordinates for both uniform as well as stretched grids. The results show that the developed operator is skillful in removing the extraneous fine scales around the pole, with a computational cost smaller than that of common polar filters. The results on a stretched grid for vector and scalar test functions are satisfactory and the filter’s response can be optimized for different types of test function and noise one wishes to remove.
Value from Ambiguity in Ensemble Forecasts
Authors: Allen Mark S. , Eckel F. Anthony 
Published: August 2011

Abstract
This study explores the objective application of ambiguity information, that is, the uncertainty in forecast probability derived from an ensemble. One application approach, called uncertainty folding, merges ambiguity with forecast uncertainty information for subsequent use in standard risk-analysis decision making. Uncertainty folding is found to be of no practical benefit when tested in a low-order, weather forecast simulation. A second approach, called ulterior motives, attempts to use ambiguity information to aid secondary decision factors not considered in the standard risk analysis, while simultaneously maintaining the primary value associated with the probabilistic forecasts. Following ulterior motives, the practical utility of ambiguity information is demonstrated on real-world ensemble forecasts used to support decisions concerning the preparation for freezing temperatures paired with a secondary desire for the reduction in repeat false alarms. Sample products for communicating ambiguity to the user are also presented.
Development and implementation of a method for characterizing clinical pharmacy interventions and medication use in a cancer center
Authors: Tuffaha Haitham W , Koopmans Sara M 
Published: August 2011

Purpose: Develop and implement a method to characterize clinical pharmacy activities and the associated medication use in a comprehensive cancer center. A standard characterization of clinical pharmacy services facilitates benchmarking and informs continuous development. Methods: A set of quantifiable parameters to describe clinical pharmacy activities and the associated medication use was proposed and validated by peer review. For implementation, clinical pharmacy interventions for six clinical pharmacy services at the King Hussein Cancer Center in 2008 were prospectively documented and the numbers of patients and medications dispensed for the same period were obtained from the admission office and pharmacy database respectively. Results: The method comprised four main aspects: (1) number of interventions, (2) type of interventions, (3) number of doses dispensed, and (4) the NNI which is the number of doses dispensed for one intervention to occur. A total of 8552 interventions were recorded for 37,784 patient days. Interventions were highest in the pediatric oncology and ICU with 2612 (31%) and 1867 (22%) respectively, followed by medical oncology 1563 (18%), BMT 998 (12%), palliative care 792 (9%), and surgery 720 (8%). Interventions per 1000 patient days were: ICU 555, pediatric oncology 326, BMT 319, palliative care 244, medical oncology 137, and surgery 83. Main intervention categories for all services: therapeutic 3055 (36%), safety 2195 (26%), quality assurance 2376 (28%), and education-information 925 (10%). The number of doses dispensed per 1000 patient days was: BMT 19,404, palliative care 17,272, ICU 12,290, medical oncology 13,182, pediatric oncology 12,093, and surgery 8976. Finally, NNI was as follows: ICU 22, pediatric oncology 39, BMT 60, palliative care 71, medical oncology 96, and surgery 109. Conclusion: A method for characterizing clinical pharmacy interventions and medication use was developed and used to compare different oncology clinical pharmacy services. Further work is warranted to refine and validate the parameters proposed.
Design and implementation of a user-centric swimming performance monitoring tool
Authors: Mullane S L , Chakravorti N , Conway P P , West A A 
Published: August 2011

The current methods for measuring swimmer performance are time consuming and require substantial manual interaction. Inevitably, such techniques are prone to error or require a large amount of post-event processing. The aim of the research outlined in this paper is to design a novel performance analysis tool to monitor and measure swimmer performance using wireless technology previously developed at Loughborough University and determine how to communicate these data effectively to the coach in real time. The overall system effectiveness is reliant upon effective data collection, storage, and analysis. Providing the functionality to design an effective system requires robust technology, appropriate structures in persistent storage, and interface design to communicate the capability set to the user. This paper is focused on the development of a graphical user interface (GUI); a type of human–machine interface (HMI), to support users within the swimming domain. The computer integrated manufacture open system architecture (CIMOSA), generally applied as a form of business process modelling, has been used to structure the development of a user-centric, real-time monitoring system that supports the needs of the coaches, sports scientists, and swimmers. A methodology that uses the CIMOSA reference architecture as the foundation has been proposed and implemented to create a user-driven GUI that accommodates variation in requirements of user types in the swimming domain to optimize the performance analysis methods.
Subgrouping Patients With Low Back Pain
Authors: Hebert Jeffrey J. , Koppenhaver Shane L. , Walker Bruce F. 
Published: August 2011

Context: Low back pain (LBP) is a prevalent condition imposing a large socioeconomic burden. Despite intensive research aimed at the efficacy of various therapies for patients with LBP, most evidence has failed to identify a superior treatment approach. One proposed solution to this dilemma is to identify subgroups of patients with LBP and match them with targeted therapies. Among the subgrouping approaches, the system of treatment-based classification (TBC) is promoted as a means of increasing the effectiveness of conservative interventions for patients with LBP. Evidence acquisition: MEDLINE and PubMed databases were searched from 1985 through 2010, along with the references of selected articles. Results: TBC uses a standardized approach to categorize patients into 1 of 4 subgroups: spinal manipulation, stabilization exercise, end-range loading exercise, and traction. Although the TBC subgroups are in various stages of development, recent research lends support to the effectiveness of this approach. Conclusions: While additional research is required to better elucidate this method, the TBC approach enhances clinical decision making, as evidenced by the improved clinical outcomes experienced by patients with LBP.
Clinical Outcomes and Return-to-Sports Participation of 50 Soccer Players After Anterior Cruciate Ligament Reconstruction Through a Sport-Specific Rehabilitation Protocol
Authors: Della Villa Stefano , Boldrini Lorenzo , Ricci Margherita , Danelon Furio , Snyder-Mackler Lynn , Nanni Gianni , Roi Giulio Sergio 
Published: August 2011

Background: Rehabilitation of soccer players after anterior cruciate ligament reconstruction is usually performed without sport-specific guidelines, and the final phases are often left to the team coaches. The possibility of changing this approach has not yet been investigated. Study Design: Case series. Hypothesis: A specific rehabilitation protocol for soccer players, with direct control of the last on-field rehabilitation phases, may lead to complete functional recovery. Methods: Fifty competitive soccer players who followed a sport-specific rehabilitation protocol for soccer were evaluated during the recovery period until their return to competition. The assessment of the functional outcomes was performed using the Knee Outcome Survey–Sports Activity Scale and isokinetic and aerobic fitness tests. Results: The average start of on-field rehabilitation was 90 ± 26 days after surgery; the average time to return to the competitions was 185 ± 52 days. The improvement in the Knee Outcome Survey–Sports Activity Scale during on-field rehabilitation was significant ( P < 0.01; from 79 ± 15% to 96 ± 7%). The isokinetic and aerobic fitness tests showed a significant improvement of muscle strength (knee extensors, +55%, P < 0.01; knee flexors, +86%, P < 0.01) and aerobic threshold (+23%, P < 0.01) from the beginning to the end of on-field rehabilitation. Conclusions: Adding on-field rehabilitation to the traditional protocols after anterior cruciate ligament reconstruction may safely lead to complete functional recovery in soccer players.
The ACR11 encodes a novel type of chloroplastic ACT domain repeat protein that is coordinately expressed with GLN2 in Arabidopsis
Authors: Sung Tzu-Ying , Chung Tsui-Yun , Hsu Chih-Ping , Hsieh Ming-Hsiun 
Published: August 2011

Abstract

Background
The ACT domain, named after bacterial aspartate kinase, chorismate mutase and TyrA (prephenate dehydrogenase), is a regulatory domain that serves as an amino acid-binding site in feedback-regulated amino acid metabolic enzymes. We have previously identified a novel type of ACT domain-containing protein family, the ACT domain repeat (ACR) protein family, in Arabidopsis. Members of the ACR family, ACR1 to ACR8, contain four copies of the ACT domain that extend throughout the entire polypeptide. Here, we describe the identification of four novel ACT domain-containing proteins, namely ACR9 to ACR12, in Arabidopsis. The ACR9 and ACR10 proteins contain three copies of the ACT domain, whereas the ACR11 and ACR12 proteins have a putative transit peptide followed by two copies of the ACT domain. The functions of these plant ACR proteins are largely unknown.

Results
The ACR11 and ACR12 proteins are predicted to target to chloroplasts. We used protoplast transient expression assay to demonstrate that the Arabidopsis ACR11- and ACR12-green fluorescent fusion proteins are localized to the chloroplast. Analysis of an ACR11 promoter-β-glucuronidase (GUS) fusion in transgenic Arabidopsis revealed that the GUS activity was mainly detected in mature leaves and sepals. Interestingly, coexpression analysis revealed that the GLN2, which encodes a chloroplastic glutamine synthetase, has the highest mutual rank in the coexpressed gene network connected to ACR11. We used RNA gel blot analysis to confirm that the expression pattern of ACR11 is similar to that of GLN2 in various organs from 6-week-old Arabidopsis. Moreover, the expression of ACR11 and GLN2 is highly co-regulated by sucrose and light/dark treatments in 2-week-old Arabidopsis seedlings.

Conclusions
This study reports the identification of four novel ACT domain repeat proteins, ACR9 to ACR12, in Arabidopsis. The ACR11 and ACR12 proteins are localized to the chloroplast, and the expression of ACR11 and GLN2 is highly coordinated. These results suggest that the ACR11 and GLN2 genes may belong to the same functional module. The Arabidopsis ACR11 protein may function as a regulatory protein that is related to glutamine metabolism or signaling in the chloroplast.
Effects of radiation therapy on tissue and serum concentrations of tumour associated trypsin inhibitor and their prognostic significance in rectal cancer patients
Authors: Gaber Alexander , Stene Christina , Hotakainen Kristina , Nodin Björn , Palmquist Ingrid , Bjartell Anders , Stenman Ulf-Håkan , Jeppsson Bengt , Johnson Louis B , Jirström Karin 
Published: August 2011

Abstract

Background
We have previously demonstrated that elevated concentrations of tumour-associated trypsin inhibitor (TATI) in both tumour tissue (t-TATI) and in serum (s-TATI) are associated with a poor prognosis in colorectal cancer patients. It was also found that s-TATI concentrations were lower in patients with rectal cancer compared to patients with colon cancer. In this study, we investigated the effects of neoadjuvant radiotherapy (RT) on concentrations of t-TATI and s-TATI in patients with rectal cancer.

Methods
TATI was analysed in serum, normal mucosa and tumour tissue collected at various time points in 53 rectal cancer patients enrolled in a case-control study where 12 patients received surgery alone, 20 patients 5 × 5 Gy (short-term) preoperative RT and 21 patients 25 × 2 Gy (long-term) preoperative RT. T-TATI was analysed by immunohistochemistry and s-TATI was determined by an immunofluorometric assay. Mann-Whitney U test and Wilcoxon Z (Z) test were used to assess t-TATI and s-TATI concentrations in relation to RT. Spearman's correlation (R) test was used to explore the associations between t-TATI, s-TATI and clinicopathological parameters. Overall survival (OS) according to high and low t-TATI and s-TATI concentrations was estimated by classification and regression tree analysis, Kaplan-Meier analysis and the log rank test.

Results
RT did not affect concentrations of t-TATI or s-TATI. In patients receiving short-term but not long-term RT, s-TATI concentrations were significantly higher 4 weeks post surgery than in serum drawn prior to surgery (Z = -3.366, P < 0.001). T-TATI expression correlated with male gender (R = 0.406, P = 0.008). High t-TATI expression in surgical specimens was associated with a significantly shorter OS (P = 0.045). S-TATI concentrations in serum drawn at all time points were associated with an impaired OS (P = 0.035 before RT, P = 0.001 prior to surgery, P = 0.043 post surgery). At all time points, s-TATI correlated with higher age (P < 0.001-0.021) and with increased s-creatinine concentrations assessed prior to surgery (P = 0.041).

Conclusions
The results presented here further validate the utility of t-TATI and s-TATI as prognostic biomarkers in patients with rectal cancer, independent of neoadjuvant RT.
Tribbles homolog 3 denotes a poor prognosis in breast cancer and is involved in hypoxia response
Authors: Wennemers Marloes , Bussink Johan , Scheijen Blanca , Nagtegaal Iris D , van Laarhoven Hanneke WM , Raleigh James A , Varia Mahesh A , Heuvel Joop JTM , Rouschop Kasper M , Sweep Fred CGJ , Span Paul N 
Published: August 2011

Abstract
Introduction
Hypoxia in solid tumors is associated with treatment resistance, resulting in poor prognosis. Tribbles homolog 3 (TRIB3) is induced during hypoxia and is involved in multiple cellular pathways involved in cell survival. Here, we investigated the role of TRIB3 in breast cancer.

Methods
TRIB3 mRNA expression was measured in breast tumor tissue from 247 patients and correlated with clinicopathological parameters and clinical outcome. Furthermore, we studied TRIB3 expression regulation in cell lines, xenografts tissues and human breast cancer material using Reverse transcriptase, quantitative polymerase chain reaction (RT-qPCR) and immunohistochemical staining. Finally, the effect of small interfering RNA (siRNA) mediated TRIB3 knockdown on hypoxia tolerance was assessed.

Results
Breast cancer patients with low, intermediate or high TRIB3 expression exhibited a mean disease free survival (DFS) of 80 (95% confidence interval [CI] = 74 to 86), 74 (CI = 67 to 81), and 63 (CI = 55 to 71) months respectively (P = .002, Mantel-Cox log-rank). The prognostic value of TRIB3 was limited to those patients that had received radiotherapy as part of their primary treatment (n = 179, P = .005) and remained statistically significant after correction for other clinicopathological parameters (DFS, Hazard Ratio = 1.90, CI = 1.17 to 3.08, P = .009). In breast cell lines TRIB3 expression was induced by hypoxia, nutrient starvation, and endoplasmic reticulum stress in an hypoxia inducible factor 1 (HIF-1) independent manner. TRIB3 induction after hypoxia did not increase with decreasing oxygen levels. In breast tumor xenografts and human breast cancer tissues TRIB3 co-localized with the hypoxic cell marker pimonidazole. The induction of TRIB3 by hypoxia was shown to be regulated via the PERK/ATF4/CHOP pathway of the unfolded protein response and knockdown of TRIB3 resulted in a dose-dependent increase in hypoxia sensitivity.

Conclusions
TRIB3 is independently associated with poor prognosis of breast cancer patients, possibly through its association with tumor cell hypoxia.
Learning the way to blood: first evidence of dual olfactory conditioning in a blood-sucking insect, Rhodnius prolixus. I. Appetitive learning
Authors: Vinauger Clément , Buratti Laura , Lazzari Claudio R. 
Published: August 2011

SUMMARY
It has been largely assumed that the individual experience of insects that are disease vectors might not only contribute to animal fitness, but also have an important influence on parasite transmission. Nevertheless, despite the invested efforts in testing the capacity to learn and remember information in blood-sucking insects, only little conclusive information has been obtained to date. Adapting a classical conditioning approach to our haematophagous model, we trained larvae of Rhodnius prolixus to associate l-lactic-acid, an odour perceived by these bugs but behaviourally neutral when presented alone, with food (i.e. positive reinforcement). Naive bugs – those exposed either to a conditioned stimulus (CS, l-lactic acid), unconditioned stimulus (US, heat) and reward (blood) alone or CS, US and reward in the absence of contingency – remained indifferent to the presence of an air stream loaded with l-lactic acid when tested in an olfactometer (random orientation), whereas the groups previously exposed to the contingency CS–US–reward (blood) were significantly attracted by l-lactic-acid. In a companion paper, the opposite, i.e. repellence, was induced in bugs exposed to the contingency of the same odour with a negative reinforcement. This constitutes the first evidence of olfactory conditioning in triatomine bugs, vectors of Chagas disease, and one of the few substantiations available to date of olfactory conditioning in haematophagous insects.
Effects of molting on the visual acuity of the blue crab,Callinectes sapidus
Authors: Baldwin Jamie , Johnsen Sönke 
Published: August 2011

SUMMARYIn crustaceans with compound eyes, the corneal lens of each facet is part of the exoskeleton and thus shed during molting. Here we used an optomotor assay to evaluate the impact of molting on visual acuity (as measured by the minimum resolvable angle, αmin) in the female blue crab, Callinectes sapidus. We found that visual acuity decreases substantially in the days prior to molting and is gradually recovered after molting. Four days prior to molting, αmin was 1.8 deg (N=5), a value approximating the best possible acuity in this species. In the 24 h before ecdysis occurred, αmin increased to 15.0 deg (N=12), corresponding to an eightfold drop in visual acuity. Within 6 days after molting, αmin returned to the pre-molting value. Micrographs of C. sapidus eyes showed that a gap between the corneal lens and the crystalline cone first appeared approximately 5 days prior to shedding and increased in width as the process progressed. This separation was likely responsible for the loss of visual acuity observed in behavioral tests. In blue crabs, mating is limited to the period of the female's pubertal molt, and a reduction in acuity during this time may have an effect on the sensory cues used in female mate choice. The results described here may be broadly applicable to all arthropods that molt and have particular importance for crustaceans that molt multiple times in their lifetime or have mating cycles that are paired with molting.