bluuebunny/crossref_metadata_2025_split huggingface dataset:
Subthermocline Eddies over the Washington Continental Slope as Observed by Seagliders, 2003–09
Authors: Pelland Noel A. , Eriksen Charles C. , Lee Craig M. 
Published: July 2013

Abstract
In the California Current System, subthermocline, lenslike anticyclonic eddies generated within the California Undercurrent (CU) are one mechanism for lateral transport of the warm, saline waters of the CU. Garfield et al. established the name “Cuddies” for eddies of this type and hypothesized that they account for a significant fraction of the offshore transport of CU water. This study presents observations of subthermocline eddies collected from a time series of Seaglider surveys in the northern California Current System. Gliders made 46 crossings of subthermocline anticyclones and 17 crossings of subthermocline cyclones over 5.5 yr. Close inspection grouped these into 20 distinct anticyclones and 10 distinct cyclones. Water properties at the core of anticyclonic eddies were similar to those in the core of the CU over the continental slope; these anticyclones are examples of Cuddies. Anticyclonic (cyclonic) eddies had average radii of 20.4 (20.6) km, peak azimuthal current speeds of 0.25 (0.23) m s−1, and average core anomalies of potential vorticity 65% below (125% above) ambient values. Anticyclones contained an order of magnitude greater available heat and salt anomaly relative to background conditions than cyclones on average. Circumstantial evidence of eddy decay through lateral intrusions was found although this was not observed consistently. Observed eddy properties and the geometry of flow over the continental slope were consistent with eddy formation due to frictional torque acting on the CU. Loss of heat and salt from the CU due to subthermocline eddies is estimated to account for 44% of the freshening and cooling of the CU as it flows poleward.
Aspects of the Correlation between Sodar and Mast Instrument Winds
Authors: Bradley Stuart 
Published: July 2013

Abstract
On a uniform terrain site, differences between a sodar and a mast-mounted cup anemometer will arise because of turbulent fluctuations and wind components being measured in different spaces, and because of the inherent difference between scalar and vector averaging. This paper develops theories for turbulence-related random fluctuations resulting from finite sampling rates and sampling from spatially distributed volumes. Coefficients of determination (R2) are predicted comparable to those obtained in practice. It is shown that more than two-thirds of the reduction in R2 arises from differences in the winds measured by mast instruments and by sodars, rather than by sodar errors: both instruments are measuring accurately, but just not in the same place or at the same time. The result is that sodars being used operationally should be able to measure winds to a root-mean-square accuracy of around 2%.
The DeTect Inc. RAPTOR VAD-BL Radar Wind Profiler
Authors: Lau Elías , McLaughlin Scott , Pratte Frank , Weber Bob , Merritt David , Wise Maikel , Zimmerman Gary , James Matthew , Sloan Megan 
Published: July 2013

Abstract
The DeTect Inc. RAPTOR velocity–azimuth display boundary layer (VAD-BL) radar wind profiler is a pulsed Doppler radar used to make automatic unattended measurements of wind profiles in the lower atmosphere. All data products are produced on site, in real time, and utilize quality control software to screen out interference. The nominal frequencies are 915 and 1290 MHz but other frequencies can be accommodated. While the architecture is similar to other boundary layer wind profilers, the RAPTOR VAD-BL is designed to provide consistently superior data quality due to its antenna design and signal processing capabilities. The antenna is a high-performance parabolic reflector with a feed that is designed in house for the operational frequency of the radar. The antenna is mounted on a robust military-grade azimuth-only positioner. The RAPTOR VAD-BL can collect data from several opposing beam positions with the goal of producing higher-quality wind data using the velocity–azimuth display (VAD) algorithm. The Advanced Signal Processing Engine (ASPEN) software used to calculate winds outperforms conventional consensus algorithms. The health and status of all critical subsystems is monitored via the profiler health monitor (PHM), a stand-alone monitor with its own microprocessor. Results from systems deployed for operational applications show the potential for the retrieval of high-quality data with excellent height coverage and a solid design that allows the antenna to perform under sustained high wind loading.
Palliative care for people with heart failure: Summary of current evidence and future direction
Authors: Gadoud Amy , Jenkins Shona MM , Hogg Karen J 
Published: July 2013

Background: Heart failure is a common condition with a significant physical and psychological burden for patients and their families. The need for supportive and palliative care: It is well recognised that palliative care is important in patients with advanced heart failure. What is known: Heart failure patients have limited access to palliative care services. Barriers to palliative care include difficult prognostication due to the unpredictable disease trajectory and inadequate initiation of conversations about end-of-life care. What is not known: There are gaps in the evidence for symptom control, especially for symptoms other than pain or dyspnoea, but recommendations are becoming increasingly evidence based. Implications for research, policy and practice: There are challenges to research in this area although progress is being made with increasing numbers of trials and use of novel research methods. Integrated models of care based on symptom triggers rather than prognosis are recommended. At the centre is excellent communication both with the patient and between services to ensure the best possible care.
Clinical effects of intrathecal fentanyl on shoulder tip pain in laparoscopic total extraperitoneal inguinal hernia repair under spinal anaesthesia: A double-blind, prospective, randomized controlled trial
Authors: Sung Tae-Yun , Kim Min-Su , Cho Choon-Kyu , Park Dong-Ho , Kang Po-Soon , Lee Sang-Eok , Kwon Won-Kyoung , Woo Nam-Sik , Kim Seong-Hyop 
Published: July 2013

Objective The study evaluated the clinical intraoperative effects of intrathecal administration of fentanyl on shoulder tip pain in patients undergoing laparoscopic total extraperitoneal inguinal hernia repair (TEP) under spinal anaesthesia. Methods Patients undergoing TEP were allocated in a double-blinded, prospective, randomized manner to two groups. Spinal anaesthesia was induced by intrathecal administration of 2.8 ml of 0.5% hyperbaric bupivacaine (14 mg) in the control group and with 2.6 ml of 0.5% hyperbaric bupivacaine (13 mg) and 10 µg fentanyl (0.2 ml) in the experimental group. Results The quality of muscle relaxation, adequacy of operative space and incidence of pneumoperitoneum were similar in the two groups ( n = 36 per group). Compared with the control group, the experimental group had significantly fewer cases of hypotension (12 [33.3%]) versus 23 [63.9%]) and shoulder tip pain (nine [25%] versus 18 [50%]). Intraoperative shoulder tip pain was more severe in the control group than in the experimental group. Conclusions Addition of intrathecal fentanyl to local anaesthetic can relieve shoulder tip pain with no change in complications, especially hypotension, during TEP under spinal anaesthesia.
Clofarabine doubles the response rate in older patients with acute myeloid leukemia but does not improve survival
Authors: Burnett Alan K. , Russell Nigel H. , Hunter Ann E. , Milligan Donald , Knapper Steven , Wheatley Keith , Yin John , McMullin Mary F. , Ali Sahra , Bowen David , Hills Robert K. 
Published: July 2013

Key Points
In older patients with AML who are not suitable for intensive treatment, clofarabine doubles remission rates Survival is not improved compared with low-dose Ara-C
Picard iterations for nonexpansive and Lipschitz strongly accretive mappings in a real Banach space
Authors: Kang Shin Min , Rafiq Arif , Hussain Nawab , Kwun Young Chel 
Published: July 2013

Abstract
We study the convergence of a more general Picard iterative sequence for nonexpansive and Lipschitz strongly accretive mappings in an arbitrary real Banach space. Our results improve the results of Ćirić et al. (Nonlinear Anal. 70(12):4332-4337, 2009).

MSC:47H06, 47H09, 47J05, 47J25.
TCC: an R package for comparing tag count data with robust normalization strategies
Authors: Sun Jianqiang , Nishiyama Tomoaki , Shimizu Kentaro , Kadota Koji 
Published: July 2013

Abstract

Background
Differential expression analysis based on “next-generation” sequencing technologies is a fundamental means of studying RNA expression. We recently developed a multi-step normalization method (called TbT) for two-group RNA-seq data with replicates and demonstrated that the statistical methods available in four R packages (edgeR, DESeq, baySeq, and NBPSeq) together with TbT can produce a well-ranked gene list in which true differentially expressed genes (DEGs) are top-ranked and non-DEGs are bottom ranked. However, the advantages of the current TbT method come at the cost of a huge computation time. Moreover, the R packages did not have normalization methods based on such a multi-step strategy.

Results

TCC (an acronym for Tag Count Comparison) is an R package that provides a series of functions for differential expression analysis of tag count data. The package incorporates multi-step normalization methods, whose strategy is to remove potential DEGs before performing the data normalization. The normalization function based on this DEG elimination strategy (DEGES) includes (i) the original TbT method based on DEGES for two-group data with or without replicates, (ii) much faster methods for two-group data with or without replicates, and (iii) methods for multi-group comparison. TCC provides a simple unified interface to perform such analyses with combinations of functions provided by edgeR, DESeq, and baySeq. Additionally, a function for generating simulation data under various conditions and alternative DEGES procedures consisting of functions in the existing packages are provided. Bioinformatics scientists can use TCC to evaluate their methods, and biologists familiar with other R packages can easily learn what is done in TCC.

Conclusion
DEGES in TCC is essential for accurate normalization of tag count data, especially when up- and down-regulated DEGs in one of the samples are extremely biased in their number. TCC is useful for analyzing tag count data in various scenarios ranging from unbiased to extremely biased differential expression. TCC is available at http://www.iu.a.u-tokyo.ac.jp/~kadota/TCC/ and will appear in Bioconductor (http://bioconductor.org/) from ver. 2.13.
Protein level identification of the Listeria monocytogenes Sigma H, Sigma L, and Sigma C regulons
Authors: Mujahid Sana , Orsi Renato H , Boor Kathryn J , Wiedmann Martin 
Published: July 2013

Abstract

Background
Transcriptional regulation by alternative sigma (σ) factors represents an important mechanism that allows bacteria to rapidly regulate transcript and protein levels in response to changing environmental conditions. While the role of the alternative σ factor σB has been comparatively well characterized in L. monocytogenes, our understanding of the roles of the three other L. monocytogenes alternative σ factors is still limited. In this study, we employed a quantitative proteomics approach using Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) to characterize the L. monocytogenes σL, σH, and σC protein regulons. Proteomic comparisons used a quadruple alternative σ factor mutant strain (ΔBCHL) and strains expressing a single alternative σ factor (i.e., σL, σH, and σC; strains ΔBCH, ΔBCL, and ΔBHL) to eliminate potential redundancies between σ factors.

Results
Among the three alternative σ factors studied here, σH provides positive regulation for the largest number of proteins, consistent with previous transcriptomic studies, while σL appears to contribute to negative regulation of a number of proteins. σC was found to regulate a small number of proteins in L. monocytogenes grown to stationary phase at 37°C. Proteins identified as being regulated by multiple alternative σ factors include MptA, which is a component of a PTS system with a potential role in regulation of PrfA activity.

Conclusions
This study provides initial insights into global regulation of protein production by the L. monocytogenes alternative σ factors σL, σH, and σC. While, among these σ factors, σH appears to positively regulate the largest number of proteins, we also identified PTS systems that appear to be co-regulated by multiple alternative σ factors. Future studies should not only explore potential roles of alternative σ factors in activating a “cascade” of PTS systems that potentially regulate PrfA, but also may want to explore the σL and σC regulons under different environmental conditions to identify conditions where these σ factors may regulate larger numbers of proteins or genes.
Intraepithelial lymphocyte distribution differs between the bulb and the second part of duodenum
Authors: Bednarska Olga , Ignatova Simone , Dahle Charlotte , Ström Magnus 
Published: July 2013

Abstract

Background
Evaluation of intraepithelial duodenal lymphocytosis (IDL) is important in celiac disease (CD). There is no established cut-off value for increased number of IELs in the bulb.
We therefore investigated the relation between IEL counts in the bulb and duodenal specimens in non-celiac subjects.

Methods
The number of CD3+ IELs was determined in specimens from the second part of the duodenum and from the bulb in 34 non-celiac subjects. The numbers of IELs in the villus tip and sides were counted and the quotient tip/side was calculated. HLA DQ2/DQ8 and serum antibodies against transglutaminase were analysed.

Results
The mean number of IELs per 100 enterocytes (95% CI) in specimens was 14.7 (11.8-17.6) in the bulb, and 21.2 (17.0-25.5) in the second part of the duodenum (p<0.01). There was no difference in IEL count or distribution comparing patients carrying or lacking HLA DQ2/DQ8.

Conclusions
IEL count in non-celiac, HLA DQ2/DQ8 positive or negative patients is significantly lower in the bulb than in the second part of the duodenum. These findings implicate that the site of biopsy should be taken into account when considering duodenal lymphocytosis.
Multiple electrolyte disorders in a neurosurgical patient: solving the rebus
Authors: Corradetti Valeria , Esposito Pasquale , Rampino Teresa , Gregorini Marilena , Libetta Carmelo , Bosio Francesca , Valsania Teresa , Pattonieri Eleonora Francesca , Rocca Chiara , Bianzina Stefania , Dal Canton Antonio 
Published: July 2013

Abstract

Background
It is important to ensure an adequate sodium and volume balance in neurosurgical patients in order to avoid the worsening of brain injury.
Indeed, hyponatremia and polyuria, that are frequent in this patient population, are potentially harmful, especially if not promptly recognized.
Differential diagnosis is often challenging, including disorders, which, in view of similar clinical pictures, present very different pathophysiological bases, such as syndrome of inappropriate antidiuresis, cerebral/renal salt wasting syndrome and diabetes insipidus.

Case presentation
Here we present the clinical report of a 67-year-old man with a recent episode of acute subarachnoid haemorrhage, admitted to our ward because of severe hyponatremia, hypokalemia and huge polyuria.
We performed a complete workup to identify the underlying causes of these alterations and found a complex picture of salt wasting syndrome associated to primary polydipsia. The appropriate diagnosis allowed us to correct the patient hydro-electrolyte balance.

Conclusion
The comprehension of the pathophysiological mechanisms is essential to adequately recognize and treat hydro-electrolyte disorders, also solving the most complex clinical problems.
Wāhine hauora: linking local hospital and national health information datasets to explore maternal risk factors and obstetric outcomes of New Zealand Māori and non-Māori women in relation to infant respiratory admissions and timely immunisations
Authors: Filoche Sara , Garrett Susan , Stanley James , Rose Sally , Robson Bridget , Elley C Raina , Lawton Bev 
Published: July 2013

Abstract

Background
Significant health inequities exist around maternal and infant health for Māori, the indigenous people of New Zealand. The infants of Māori are more likely to die in their first year of life and also have higher rates of hospital admission for respiratory illnesses, with the greatest burden of morbidity being due to bronchiolitis in those under one year of age. Timely immunisations can prevent some respiratory related hospitalisations, although for Māori, the proportion of infants with age appropriate immunisations are lower than for non-Māori. This paper describes the protocol for a retrospective cohort study that linked local hospital and national health information datasets to explore maternal risk factors and obstetric outcomes in relation to respiratory admissions and timely immunisations for infants of Māori and non-Māori women.

Methods/Design
The study population included pregnant women who gave birth in hospital in one region of New Zealand between 1995 and 2009. Routinely collected local hospital data were linked via a unique identifier (National Health Index number) to national health information databases to assess rates of post-natal admissions and access to health services for Māori and non-Māori mothers and infants. The two primary outcomes for the study are: 1. The rates of respiratory hospitalisations of infants (≤ 1 yr of age) calculated for infants of both Māori and non-Māori women (for mothers under 20 years of age, and overall) accounting for relationship to parity, maternal age, socioeconomic deprivation index, maternal smoking status. 2. The proportion of infants with age appropriate immunisations at six and 12 months, calculated for both infants born to Māori women and infants born to non-Māori women, accounting for relationship to parity, maternal age, socioeconomic deprivation index, smoking status, and other risk factors.

Discussion
Analysis of a wide range of routinely collected health information in which maternal and infant data are linked will allow us to directly explore the relationship between key maternal factors and infant health, and provide a greater understanding of the causes of health inequalities that exist between the infants of Māori and non-Māori mothers.
Cost-effectiveness of MRI for breast cancer screening in BRCA1/2 mutation carriers
Authors: Pataky Reka , Armstrong Linlea , Chia Stephen , Coldman Andrew J , Kim-Sing Charmaine , McGillivray Barbara , Scott Jenna , Wilson Christine M , Peacock Stuart 
Published: July 2013

AbstractBackgroundWomen with mutations in BRCA1 or BRCA2 are at high risk of developing breast cancer and, in British Columbia, Canada, are offered screening with both magnetic resonance imaging (MRI) and mammography to facilitate early detection. MRI is more sensitive than mammography but is more costly and produces more false positive results. The purpose of this study was to calculate the cost-effectiveness of MRI screening for breast cancer in BRCA1/2 mutation carriers in a Canadian setting.MethodsWe constructed a Markov model of annual MRI and mammography screening for BRCA1/2 carriers, using local data and published values. We calculated cost-effectiveness as cost per quality-adjusted life-year gained (QALY), and conducted one-way and probabilistic sensitivity analysis.ResultsThe incremental cost-effectiveness ratio (ICER) of annual mammography plus MRI screening, compared to annual mammography alone, was $50,900/QALY. After incorporating parameter uncertainty, MRI screening is expected to be a cost-effective option 86% of the time at a willingness-to-pay of $100,000/QALY, and 53% of the time at a willingness-to-pay of $50,000/QALY. The model is highly sensitive to the cost of MRI; as the cost is increased from $200 to $700 per scan, the ICER ranges from $37,100/QALY to $133,000/QALY.ConclusionsThe cost-effectiveness of using MRI and mammography in combination to screen for breast cancer in BRCA1/2 mutation carriers is finely balanced. The sensitivity of the results to the cost of the MRI screen itself warrants consideration: in jurisdictions with higher MRI costs, screening may not be a cost-effective use of resources, but improving the efficiency of MRI screening will also improve cost-effectiveness.
Dolosigranulum pigrum keratitis: a three-case series
Authors: Sampo Magali , Ghazouani Oaufeh , Cadiou Dominique , Trichet Elodie , Hoffart Louis , Drancourt Michel 
Published: July 2013

Abstract

Background

Dolosigranulum pigrum is a commensal inhabitant of the upper respiratory tract suspected to be responsible for ocular infections but no well-described case of D. pigrum corneal infection has been reported. Herein culture and PCR-sequencing-based investigations of corneal scraping specimens confirmed D. pigrum keratitis in three patients.

Case presentation
Three elderly patients presented with unilateral keratitis. None was a corneal-contact lens wearer, one had previous cataract surgery and another suffered rheumatoid arthritis sicca syndrome. Culturing the corneal scraping specimen was positive for two cases and PCR-sequencing of bacterial 16S rDNA in the presence of negative controls identified D. pigrum in three cases. The two D. pigrum isolates were in-vitro susceptible to penicillin G, amoxicillin, doxycycline, rifampicin and gentamicin. In all cases, surgical treatment of corneal thinning was necessary, but corneal perforation occurred in two cases despite intensive antimicrobial treatment with ticarcillin, gentamicin and vancomycin or levofloxacin eye drops leading to enucleation in one case.

Conclusions

D. pigrum is the likely cause of corneal infection in three patients, with effective antibiotic treatment in two patients.
Eyelid-associated complications after autogenous fat injection for cosmetic forehead augmentation
Authors: Paik Ji-Sun , Cho Won-Kyung , Park Gyeong-Sin , Yang Suk-Woo 
Published: July 2013

Abstract

Background
We report two cases of unilateral upper eyelid swelling with multiple small lumps as an unusual complication of autogenous fat injection for cosmetic forehead augmentation.

Case presentation
Two female patients were referred to our clinic for unusual unilateral eyelid swelling, with multiple small lumps. The duration of symptoms differed in each case, but both patients had a history of autogenous fat injection for cosmetic forehead augmentation at a local plastic surgery clinic. The lumps were small (diameter 5 mm~10 mm), palpable, hard, and nonmobile, and were evaluated by magnetic resonance imaging (MRI). Lumps from the eyelids of two patients were excised under general anesthesia. All of the masses were located deeply and found near the superior orbital rim or lateral orbital rim. The lumps exhibited chronic inflammation with fibrosis. Some of the lumps showed foamy histiocytic aggregation and foreign body lipogranuloma, resulting from iatrogenic fat injection. After excision, all masses and swelling disappeared, and moderate ptotic eyelid or lagophthalmos of affected eyes also improved.

Conclusions
To our knowledge, eyelid swelling with multiple lumps in the eyelid is a very rare complication of autogenous fat injection for cosmetic forehead augmentation. This report should be helpful for ophthalmic clinicians who encounter these unusual symptoms.