bluuebunny/crossref_metadata_2025_split huggingface dataset:
Seasonal Cycle of the Mixed Layer Heat Budget in the Northeastern Tropical Atlantic Ocean
Authors: Foltz Gregory R. , Schmid Claudia , Lumpkin Rick 
Published: May 2013

Abstract
The seasonal cycle of the mixed layer heat budget in the northeastern tropical Atlantic (0°–25°N, 18°–28°W) is quantified using in situ and satellite measurements together with atmospheric reanalysis products. This region is characterized by pronounced latitudinal movements of the intertropical convergence zone (ITCZ) and strong meridional variations of the terms in the heat budget. Three distinct regimes within the northeastern tropical Atlantic are identified. The trade wind region (15°–25°N) experiences a strong annual cycle of mixed layer heat content that is driven by approximately out-of-phase annual cycles of surface shortwave radiation (SWR), which peaks in boreal summer, and evaporative cooling, which reaches a minimum in boreal summer. The surface heat-flux-induced changes in the mixed layer heat content are damped by a strong annual cycle of cooling from vertical turbulent mixing, estimated from the residual in the heat balance. In the ITCZ core region (3°–8°N) a weak seasonal cycle of mixed layer heat content is driven by a semiannual cycle of SWR and damped by evaporative cooling and vertical turbulent mixing. On the equator the seasonal cycle of mixed layer heat content is balanced by an annual cycle of SWR that reaches a maximum in October and a semiannual cycle of turbulent mixing that cools the mixed layer most strongly during May–July and November. These results emphasize the importance of the surface heat flux and vertical turbulent mixing for the seasonal cycle of mixed layer heat content in the northeastern tropical Atlantic.
Nonlinear Radiating Instability of a Barotropic Eastern Boundary Current
Authors: Wang Jinbo , Spall Michael A. , Flierl Glenn R. , Malanotte-Rizzoli Paola 
Published: May 2013

Abstract
Linear and nonlinear radiating instabilities of an eastern boundary current are studied using a barotropic quasigeostrophic model in an idealized meridional channel. The eastern boundary current is meridionally uniform and produces unstable modes in which long waves are most able to radiate. These long radiating modes are easily suppressed by friction because of their small growth rates. However, the long radiating modes can overcome friction by nonlinear energy input transferred from the more unstable trapped mode and play an important role in the energy budget of the boundary current system. The nonlinearly powered long radiating modes take away part of the perturbation energy from the instability origin to the ocean interior. The radiated instabilities can generate zonal striations in the ocean interior that are comparable to features observed in the ocean. Subharmonic instability is identified to be responsible for the nonlinear resonance between the radiating and trapped modes, but more general nonlinear triad interactions are expected to apply in a highly nonlinear environment.
Reconstructing the Ocean's Interior from Surface Data
Authors: Wang Jinbo , Flierl Glenn R. , LaCasce Joseph H. , McClean Julie L. , Mahadevan Amala 
Published: May 2013

AbstractA new method is proposed for extrapolating subsurface velocity and density fields from sea surface density and sea surface height (SSH). In this, the surface density is linked to the subsurface fields via the surface quasigeostrophic (SQG) formalism, as proposed in several recent papers. The subsurface field is augmented by the addition of the barotropic and first baroclinic modes, whose amplitudes are determined by matching to the sea surface height (pressure), after subtracting the SQG contribution. An additional constraint is that the bottom pressure anomaly vanishes. The method is tested for three regions in the North Atlantic using data from a high-resolution numerical simulation. The decomposition yields strikingly realistic subsurface fields. It is particularly successful in energetic regions like the Gulf Stream extension and at high latitudes where the mixed layer is deep, but it also works in less energetic eastern subtropics. The demonstration highlights the possibility of reconstructing three-dimensional oceanic flows using a combination of satellite fields, for example, sea surface temperature (SST) and SSH, and sparse (or climatological) estimates of the regional depth-resolved density. The method could be further elaborated to integrate additional subsurface information, such as mooring measurements.
Techniques for Using MODIS Data to Remotely Sense Lake Water Surface Temperatures
Authors: Grim Joseph A. , Knievel Jason C. , Crosman Erik T. 
Published: May 2013

Abstract
This study describes a stepwise methodology used to provide daily high-spatial-resolution water surface temperatures from Moderate Resolution Imaging Spectroradiometer (MODIS) satellite data for use nearly in real time for the Great Salt Lake (GSL). Land surface temperature (LST) is obtained each day and then goes through the following series of steps: land masking, quality control based on other concurrent datasets, bias correction, quality control based on LSTs from recent overpasses, temporal compositing, spatial hole filling, and spatial smoothing. Although the techniques described herein were calibrated for use on the GSL, they can also be applied to any other inland body of water large enough to be resolved by MODIS, as long as several months of in situ water temperature observations are available for calibration. For each of the buoy verification datasets, these techniques resulted in mean absolute errors for the final MODIS product that were at least 62% more accurate than those from the operational Real-Time Global analysis. The MODIS product provides realistic cross-lake temperature gradients that are representative of those directly observed from individual MODIS overpasses and is also able to replicate the temporal oscillations seen in the buoy datasets over periods of a few days or more. The increased accuracy, representative temperature gradients, and ability to resolve temperature changes over periods down to a few days can be vital for providing proper surface boundary conditions for input into numerical weather models.
River Forecast Application for Water Management: Oil and Water?
Authors: Werner Kevin , Averyt Kristen , Owen Gigi 
Published: May 2013

Abstract
Managing water resources generally and managing reservoir operations specifically have been touted as opportunities for applying forecasts to improve decision making. Previous studies have shown that the application of forecasts into water management is not pervasive. This study uses a scenario-based approach to explore whether and how people implement forecast information into reservoir operations decisions in a workshop setting. Although it was found that participants do utilize both forecast and observed information, they generally do not utilize probabilistic forecast information in a manner to appropriately minimize risks associated with the tail end of the forecast distribution. This study found strong tendencies for participants to wait for observed information, as opposed to forecast information, before making decisions. In addition, study participants tended to make decisions based on median forecast values instead of considering forecast probability. These findings support the development of quantitative decision support systems to optimally utilize probabilistic forecasts as well as for forecast agencies such as NOAA/NWS to continue investments in work to better understand contexts and environments where forecasts are used or have the potential for use in supporting water management decisions.
Summarizing the incidence of adverse events using volcano plots and time intervals
Authors: Zink Richard C , Wolfinger Russell D , Mann Geoffrey 
Published: May 2013

Background Adverse event incidence analyses are a critical component for describing the safety profile of any new intervention. The results typically are presented in lengthy summary tables. For therapeutic areas where patients have frequent adverse events, analysis and interpretation are made more difficult by the sheer number and variety of events that occur. Understanding the risk in these instances becomes even more crucial. Purpose We describe a space-saving graphical summary that overcomes the limitations of traditional presentations of adverse events and improves interpretability of the safety profile. Methods We present incidence analyses of adverse events graphically using volcano plots to highlight treatment differences. Data from a clinical trial of patients experiencing an aneurysmal subarachnoid hemorrhage are used for illustration. Adjustments for multiplicity are illustrated. Results Color is used to indicate the treatment with higher incidence; bubble size represents the total number of events that occur in the treatment arms combined. Adjustments for multiple comparisons are displayed in a manner to indicate clearly those events for which the difference between treatment arms is statistically significant. Furthermore, adverse events can be displayed by time intervals, with multiple volcano plots or animation to appreciate changes in adverse event risk over time. Such presentations can emphasize early differences across treatments that may resolve later or highlight events for which treatment differences may become more substantial with longer follow-up. Limitations Treatment arms are compared in a pairwise fashion. Conclusions Volcano plots are space-saving tools that emphasize important differences between the adverse event profiles of two treatment arms. They can incorporate multiplicity adjustments in a manner that is straightforward to interpret and, by using time intervals, can illustrate how adverse event risk changes over the course of a clinical trial.
Upregulation of myeloid cell leukemia-1 potentially modulates beclin-1-dependent autophagy in ischemic stroke in rats
Authors: Xingyong Chen , Xicui Sun , Huanxing Su , Jingsong Ou , Yi Huang , Xu Zhang , Ruxun Huang , Zhong Pei 
Published: May 2013

Abstract

Background
The mechanisms that underlie autophagy in cerebral ischemia remain poorly defined. Myeloid cell leukemia-1 (Mcl1), an anti-apoptotic member of the Bcl-2 family of proteins, regulates the balance between autophagy and apoptosis. However, little is known regarding its expression profile and contribution to cell fate in the brain following ischemic stroke.

Results
In this study, we investigated the expression profile and cellular distribution of Mcl1 in brains from transient middle cerebral artery occlusion (MCAO) model rats. Brain slices from sham-operated control rats showed minimal immunoreactivity for Mcl1. Mcl1 was mainly produced in neurons. Immunoreactivity for Mcl1 increased as early as 4 hours after MCAO, peaked at 24 hours, and then declined, but still remained high, at 72 hours. Mcl1 positive cells never colocalized with either cleaved caspase-3 or terminal deoxynucleotidyl transferase-mediated dUTP nick-end labeling-positive cells. Both microtubule-associated protein 1 light chain 3 (LC3) and beclin-1 were evident in ischemic brain between 4 and 72 hours after MCAO. Most cells with strong LC3 staining were also labeled with beclin-1. Beclin-1 did colocalize with caspase-3 or Mcl1. Beclin-1/caspase-3 positive cells displayed the characteristic features of apoptosis including cell shrinkage and pyknotic nuclei, whereas beclin-1/Mcl1 positive cells had normal morphology. Pretreatment with 3-methyladenine attenuated autophagy without affecting the level of Mcl1 protein.

Conclusions
These findings demonstrate that the expression of Mcl1 is involved in the survival of neuronal cells. In addition, the coexpression of Mcl1 with beclin-1 may attenuate beclin-1-dependent autophagy during ischemic stroke in rats.
High-throughput screen of essential gene modules in Mycobacterium tuberculosis: a bibliometric approach
Authors: Xu Guangyu , Liu Bin , Wang Fang , Wei Chengguo , Zhang Ying , Sheng Jiyao , Wang Guoqing , Li Fan 
Published: May 2013

Abstract

Background
Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (M. tuberculosis). The annotation of functional genome and signaling network in M. tuberculosis are still not systematic. Essential gene modules are a collection of functionally related essential genes in the same signaling or metabolic pathway. The determination of essential genes and essential gene modules at genomic level may be important for better understanding of the physiology and pathology of M. tuberculosis, and also helpful for the development of drugs against this pathogen. The establishment of genomic operon database (DOOR) and the annotation of gene pathways have felicitated the genomic analysis of the essential gene modules of M. tuberculosis.

Method
Bibliometric approach has been used to perform a High-throughput screen for essential genes of M. tuberculosis strain H37Rv. Ant colony algorithm were used to identify the essential genes in other M. tuberculosis reference strains. Essential gene modules were analyzed by operon database DOOR. The pathways of essential genes were assessed by Biocarta, KEGG, NCI-PID, HumanCyc and Reactome. The function prediction of essential genes was analyzed by Pfam.

Results
A total approximately 700 essential genes were identified in M. tuberculosis genome. 40% of operons are consisted of two or more essential genes. The essential genes were distributed in 92 pathways in M. tuberculosis. In function prediction, 61.79% of essential genes were categorized into virulence, intermediary metabolism/respiration,cell wall related and lipid metabolism, which are fundamental functions that exist in most bacteria species.

Conclusion
We have identified the essential genes of M. tuberculosis using bibliometric approach at genomic level. The essential gene modules were further identified and analyzed.
Reflex anuria following acute cardiac event
Authors: Jeevagan Vijayabala , Navinan Mitrakrishnan , Munasinghe Arunie , Nazar Abdul , Wijewardena Anura , Constantine Godwin 
Published: May 2013

Abstract

Background
Reflex anuria is an uncommon cause for acute renal failure, which occurs almost always after manipulation or irritation to kidneys, ureter, bladder or other pelvic organs.

Case presentation
Here we describe a case of acute renal failure due to reflex anuria following acute cardiac event. This patient had background history of urolithiasis. In the absence of other pre renal, renal or post- renal causes for acute kidney injury, we believe reflex anuria is the causative entity for acute renal failure in our patient.

Conclusion
Acute renal failure due to reflex anuria is related to a reflex mechanism involving arteriolar vasoconstriction and urethral spasm. Patients with reflex anuria can be successfully managed with medical or surgical interventions. Our case suggests that reflex anuria should be considered as one of the differential diagnosis of acute renal failure following acute cardiac event, especially in patients with background urological problem.
Expression of follicle-stimulating hormone receptor by the vascular endothelium in tumor metastases
Authors: Siraj Ahsan , Desestret Virginie , Antoine Martine , Fromont Gaëlle , Huerre Michel , Sanson Marc , Camparo Philippe , Pichon Christophe , Planeix François , Gonin Julie , Radu Aurelian , Ghinea Nicolae 
Published: May 2013

Abstract

Background
The Follicle Stimulating Hormone receptor (FSHR) is expressed by the vascular endothelium in a wide range of human tumors. It was not determined however if FSHR is present in metastases which are responsible for the terminal illness.

Methods
We used immunohistochemistry based on a highly FSHR-specific monoclonal antibody to detect FSHR in cancer metastases from 6 major tumor types (lung, breast, prostate, colon, kidney, and leiomyosarcoma ) to 6 frequent locations (bone, liver, lymph node, brain, lung, and pleura) of 209 patients.

Results
In 166 patients examined (79%), FSHR was expressed by blood vessels associated with metastatic tissue. FSHR-positive vessels were present in the interior of the tumors and some few millimeters outside, in the normally appearing tissue. In the interior of the metastases, the density of the FSHR-positive vessels was constant up to 7 mm, the maximum depth available in the analyzed sections. No significant differences were noticed between the density of FSHR-positive vessels inside vs. outside tumors for metastases from lung, breast, colon, and kidney cancers. In contrast, for prostate cancer metastases, the density of FSHR-positive vessels was about 3-fold higher at the exterior of the tumor compared to the interior. Among brain metastases, the density of FSHR-positive vessels was highest in lung and kidney cancer, and lowest in prostate and colon cancer. In metastases of breast cancer to the lung pleura, the percentage of blood vessels expressing FSHR was positively correlated with the progesterone receptor level, but not with either HER-2 or estrogen receptors. In normal tissues corresponding to the host organs for the analyzed metastases, obtained from patients not known to have cancer, FSHR staining was absent, with the exception of approx. 1% of the vessels in non tumoral temporal lobe epilepsy samples.

Conclusion
FSHR is expressed by the endothelium of blood vessels in the majority of metastatic tumors.
Lipid-lowering pharmacotherapy and socioeconomic status: atherosclerosis risk in communities (ARIC) surveillance study
Authors: Kitzmiller Joseph P , Foraker Randi E , Rose Kathy M 
Published: May 2013

Abstract

Background
Lipid-reduction pharmacotherapy is often employed to reduce morbidity and mortality risk for patients with dyslipidemia or established cardiovascular disease. Associations between socioeconomic factors and the prescribing and use of lipid-lowering agents have been reported in several developed countries.

Methods
We evaluated the association of census tract-level neighborhood household income (nINC) and lipid-lowering medications received during hospitalization or at discharge among 3,546 (5,335 weighted) myocardial infarction (MI) events in the United States (US) Atherosclerosis Risk In Communities (ARIC) surveillance study (1999–2002). Models included neighborhood household income, race, gender, age, study community, year of MI, hospital type (teaching vs. nonteaching), current or past history of hypertension, diabetes or heart failure, and presence of cardiac pain.

Results
About fifty-nine percent of patients received lipid-lowering pharmacotherapy during hospitalization or at discharge. Low nINC was associated with a lower likelihood (prevalence ratio 0.89, 95% confidence interval: 0.79, 1.01) of receiving lipid-lowering pharmacotherapy compared to high neighborhood household income, and no significant change in this association resulted when adjusted for the above-mentioned covariates.

Conclusion
Patient’s socioeconomic status appeared to influence whether they were prescribed a lipid-lowering pharmacotherapy after hospitalization for myocardial infarction in the US ARIC surveillance study (1999–2002).
Characterization of a novel swollenin from Penicillium oxalicum in facilitating enzymatic saccharification of cellulose
Authors: Kang Kang , Wang Shaowen , Lai Guohong , Liu Gang , Xing Miao 
Published: May 2013

Abstract

Background
Plant expansins and fungal swollenin that can disrupt crystalline cellulose have great potential for applications in conversion of biomass. Recent studies have been mainly focused on Trichoderma reesei swollenin that show relatively low activity in the promotion of cellulosic hydrolysis. Our aim was to isolate a novel swollenin with greater disruptive activity, to establish an efficient way of producing recombinant swollenin, and to optimize the procedure using swollenin in facilitation of cellulosic hydrolysis.

Results
A novel gene encoding a swollenin-like protein, POSWOI, was isolated from the filamentous fungus Penicillium oxalicum by Thermal Asymmetric Interlaced PCR (TAIL-PCR). It consisted of a family 1 carbohydrate-binding module (CBM1) followed by a linker connected to a family 45 endoglucanase-like domain. Using the cellobiohydrolase I promoter, recombinant POSWOI was efficiently produced in T. reesei with a yield of 105 mg/L, and showed significant disruptive activity on crystalline cellulose. Simultaneous reaction with both POSWOI and cellulases enhanced the hydrolysis of crystalline cellulose Avicel by approximately 50%. Using a POSWOI-pretreatment procedure, cellulases can produce nearly twice as many reducing sugars as without pretreatment. The mechanism by which POSWOI facilitates the saccharification of cellulose was also studied using a cellulase binding assay.

Conclusion
We present a novel fungal swollenin with considerable disruptive activity on crystalline cellulose, and develop a better procedure for using swollenin in facilitating cellulosic hydrolysis. We thus provide a new approach for the effective bioconversion of cellulosic biomass.
Social determinants of health and periodontal disease in Brazilian adults: a cross- sectional study
Authors: Bonfim Maria de Lourdes Carvalho , Mattos Flavio Freitas , Ferreira Efigênia Ferreira e , Campos Ana Cristina Viana , Vargas Andréa Maria Duarte 
Published: May 2013

Abstract

Background
Recently, increasing importance has been placed on the social determinants of health and disease. The present study aimed to determine the prevalence of periodontal disease in Brazilian adults and identify possible relationships with social determinants.

Methods
A cross-sectional study was performed using a sample of 743 adults (aged 35–49 years) living in an urban area of a large city in southeastern Brazil. The condition of the periodontium was assessed using the Community Periodontal Index (CPI) according to the diagnostic criteria established by the World Health Organization (WHO). The variables related to social determinants were collected using a structured questionnaire. A descriptive analysis of all study variables was performed. Multiple correspondence analysis was subsequently performed to identify relationships between periodontal disease and the social determinants of health.

Results
The periodontal exams showed that 36.5% of adults had a healthy periodontium, 2.0% had gingival bleeding, 47.1% had calculus and 9.5% had periodontal pockets of 4–5 mm. Periodontal pockets of 6 mm or more were the worst periodontal condition found (affecting only 2.1% of the participants). The correspondence analysis enabled us to form three groups with different profiles. The first group was distinguished by the presence of bleeding (gingivitis) or a healthy periodontium. The members of this group were typically aged 35 to 39 years and had 9–12 years or more than 12 years of education. The second group consisted of subjects with calculus and periodontal pockets of 4–5 mm. The members of this group were typically white men aged 40–44 years with incomes greater than $ 300.00. The third group was distinguished by the presence of periodontal pockets of 6 mm or more. The members of this group were typically adult females, black and mixed individuals who had 8 years or less of schooling, individuals with incomes ≤ $ 300.00 and widowers.

Conclusion
The results suggest that periodontal health is worse in the group for which the social indicators are worse. Therefore, the social determinants of health also affect the severity of periodontal disease in adults Brazilian society.