bluuebunny/crossref_metadata_2025_split huggingface dataset:
Middle pancreatectomy
Authors: Motoi Fuyuhiko , Egawa Shinichi , Unno Michiaki 
Published: November 2011

AbstractMiddle pancreatectomy is parenchyma‐ and adjacent organ‐sparing pancreatectomy indicated for small tumors located in the body, but deeply located in the gland, and therefore hard to enucleate. Others lesions including pancreatic trauma or arteriovenous malformation are also candidate targets. Invasive ductal carcinoma, even when the tumor is small enough, is not eligible because the most of these tumors show extrapancreatic invasion. After exposure of neck to body of the pancreas, middle pancreatectomy was performed by proximal and distal transection, reconstruction after Roux‐Y pancreaticojejunostomy, which is the most common. This procedure is low‐invasive and allow the preservation of exocrine and endocrine pancreatic function without loss of duodenal passage, however, it also has a high morbidity associated with pancreatic fistula. This article provides indications and surgical techniques with special focus on the procedure of middle pancreatectomy.
First Report of 1 Micron Spatial Resolution Chemical Imaging of a Zirconium Single Crystal by FT-NIR Microspectroscopy
Authors: Baianu I. 
Published: November 2011

AbstractThis is the first report of 1 micron resolution chemical images of a Zirconium single crystal by FT-NIR Microspectroscopy. The FT-NIR spectra were obtained with a PerkinElmer SpectrumONE NTS spectrometer. The chemical images were obtained with a PerkinElmer Autoimage model FT-NIR microscope equipped with a very high sensitivity In /GaAs detector capable of precise measurements at ~10 ng, that was coupled to the SpectrumONE NTS FT-NIR spectrometer.
Landslide-dammed paleolake perturbs marine sedimentation and drives genetic change in anadromous fish
Authors: Mackey Benjamin H. , Roering Joshua J. , Lamb Michael P. 
Published: November 2011

Large bedrock landslides have been shown to modulate rates and processes of river activity by forming dams, forcing upstream aggradation of water and sediment, and generating catastrophic outburst floods. Less apparent is the effect of large landslide dams on river ecosystems and marine sedimentation. Combining analyses of 1-m resolution topographic data (acquired via airborne laser mapping) and field investigation, we present evidence for a large, landslide-dammed paleolake along the Eel River, CA. The landslide mass initiated from a high-relief, resistant outcrop which failed catastrophically, blocking the Eel River with an approximately 130-m-tall dam. Support for the resulting 55-km-long, 1.3-km
3
lake includes subtle shorelines cut into bounding terrain, deltas, and lacustrine sediments radiocarbon dated to 22.5 ka. The landslide provides an explanation for the recent genetic divergence of local anadromous (ocean-run) steelhead trout (
Oncorhynchus mykiss
) by blocking their migration route and causing gene flow between summer run and winter run reproductive ecotypes. Further, the dam arrested the prodigious flux of sediment down the Eel River; this cessation is recorded in marine sedimentary deposits as a 10-fold reduction in deposition rates of Eel-derived sediment and constitutes a rare example of a terrestrial event transmitted through the dispersal system and recorded offshore.
Nitrosyl hydride (HNO) replaces dioxygen in nitroxygenase activity of manganese quercetin dioxygenase
Authors: Kumar Murugaeson R. , Zapata Adrian , Ramirez Alejandro J. , Bowen Sara K. , Francisco Wilson A. , Farmer Patrick J. 
Published: November 2011

Quercetin dioxygenase (QDO) catalyzes the oxidation of the flavonol quercetin with dioxygen, cleaving the central heterocyclic ring and releasing CO. The QDO from
Bacillus subtilis
is unusual in that it has been shown to be active with several divalent metal cofactors such as Fe, Mn, and Co. Previous comparison of the catalytic activities suggest that Mn(II) is the preferred cofactor for this enzyme. We herein report the unprecedented substitution of nitrosyl hydride (HNO) for dioxygen in the activity of Mn-QDO, resulting in the incorporation of both N and O atoms into the product. Turnover is demonstrated by consumption of quercetin and other related substrates under anaerobic conditions in the presence of HNO-releasing compounds and the enzyme. As with dioxygenase activity, a nonenzymatic base-catalyzed reaction of quercetin with HNO is observed above pH 7, but no enhancement of this basal reactivity is found upon addition of divalent metal salts. Unique and regioselective N-containing products (
14
N/
15
N) have been characterized by MS analysis for both the enzymatic and nonenzymatic reactions. Of the several metallo-QDO enzymes examined for nitroxygenase activity under anaerobic condition, only the Mn(II) is active; the Fe(II) and Co(II) substituted enzymes show little or no activity. This result represents an enzymatic catalysis which we denote nitroxygenase activity; the unique reactivity of the Mn-QDO suggests a metal-mediated electron transfer mechanism rather than metal activation of the substrate’s inherent base-catalyzed reactivity.
Cesium-137 deposition and contamination of Japanese soils due to the Fukushima nuclear accident
Authors: Yasunari Teppei J. , Stohl Andreas , Hayano Ryugo S. , Burkhart John F. , Eckhardt Sabine , Yasunari Tetsuzo 
Published: November 2011

The largest concern on the cesium-137 (
137
Cs) deposition and its soil contamination due to the emission from the Fukushima Daiichi Nuclear Power Plant (NPP) showed up after a massive quake on March 11, 2011. Cesium-137 (
137
Cs) with a half-life of 30.1 y causes the largest concerns because of its deleterious effect on agriculture and stock farming, and, thus, human life for decades. Removal of
137
Cs contaminated soils or land use limitations in areas where removal is not possible is, therefore, an urgent issue. A challenge lies in the fact that estimates of
137
Cs emissions from the Fukushima NPP are extremely uncertain, therefore, the distribution of
137
Cs in the environment is poorly constrained. Here, we estimate total
137
Cs deposition by integrating daily observations of
137
Cs deposition in each prefecture in Japan with relative deposition distribution patterns from a Lagrangian particle dispersion model, FLEXPART. We show that
137
Cs strongly contaminated the soils in large areas of eastern and northeastern Japan, whereas western Japan was sheltered by mountain ranges. The soils around Fukushima NPP and neighboring prefectures have been extensively contaminated with depositions of more than 100,000 and 10,000 MBq km
-2
, respectively. Total
137
Cs depositions over two domains: (
i
) the Japan Islands and the surrounding ocean (130–150 °E and 30–46 °N) and, (
ii
) the Japan Islands, were estimated to be more than 5.6 and 1.0 PBq, respectively. We hope our
137
Cs deposition maps will help to coordinate decontamination efforts and plan regulatory measures in Japan.
PubChem promiscuity: a web resource for gathering compound promiscuity data from PubChem
Authors: Canny Stephanie A. , Cruz Yasel , Southern Mark R. , Griffin Patrick R. 
Published: November 2011

Abstract
Summary: Promiscuity counts allow for a better understanding of a compound's assay activity profile and drug potential. Although PubChem contains a vast amount of compound and assay data, it currently does not have a convenient or efficient method to obtain in-depth promiscuity counts for compounds. PubChem promiscuity fills this gap. It is a Java servlet that uses NCBI Entrez (eUtils) web services to interact with PubChem and provide promiscuity counts in a variety of categories along with compound descriptors, including PAINS-based functional group detection.
Availability: http://chemutils.florida.scripps.edu/pcpromiscuity
Contact: southern@scripps.edu
Discovering transcription factor regulatory targets using gene expression and binding data
Authors: Maienschein-Cline Mark , Zhou Jie , White Kevin P. , Sciammas Roger , Dinner Aaron R. 
Published: November 2011

Abstract
Motivation: Identifying the target genes regulated by transcription factors (TFs) is the most basic step in understanding gene regulation. Recent advances in high-throughput sequencing technology, together with chromatin immunoprecipitation (ChIP), enable mapping TF binding sites genome wide, but it is not possible to infer function from binding alone. This is especially true in mammalian systems, where regulation often occurs through long-range enhancers in gene-rich neighborhoods, rather than proximal promoters, preventing straightforward assignment of a binding site to a target gene.
Results: We present EMBER (Expectation Maximization of Binding and Expression pRofiles), a method that integrates high-throughput binding data (e.g. ChIP-chip or ChIP-seq) with gene expression data (e.g. DNA microarray) via an unsupervised machine learning algorithm for inferring the gene targets of sets of TF binding sites. Genes selected are those that match overrepresented expression patterns, which can be used to provide information about multiple TF regulatory modes. We apply the method to genome-wide human breast cancer data and demonstrate that EMBER confirms a role for the TFs estrogen receptor alpha, retinoic acid receptors alpha and gamma in breast cancer development, whereas the conventional approach of assigning regulatory targets based on proximity does not. Additionally, we compare several predicted target genes from EMBER to interactions inferred previously, examine combinatorial effects of TFs on gene regulation and illustrate the ability of EMBER to discover multiple modes of regulation.
Availability: All code used for this work is available at http://dinner-group.uchicago.edu/downloads.html
Contact: dinner@uchicago.edu
Supplementary Information: Supplementary data are available at Bioinformatics online.
Low levels of population genetic structure in the gilthead sea bream, Sparus aurata, along the coast of Italy
Authors: Franchini Paolo , Sola Luciana , Crosetti Donatella , Milana Valentina , Rossi Anna Rita 
Published: November 2011

AbstractFranchini, P., Sola, L., Crosetti, D., Milana, V., and Rossi, A. R. 2012. Low levels of population genetic structure in the gilthead sea bream, Sparus aurata, along the coast of Italy. – ICES Journal of Marine Science, 69: 41–50. The gilthead sea bream, Sparus aurata, is a coastal, commercially important fish. Contrasting results concerning the genetic structure of the species at different geographic scales have been reported. Here, an investigation is made into the population genetic structure of S. aurata along the coast of Italy, using samples analysed previously and material from new sampling sites (12) and using different microsatellite loci (10). One sample from the eastern Atlantic and three temporal replicates from one site were also included. The presence of a weak (overall FST = 0.0072), but significant, genetic population subdivision was detected by F-statistics. Temporal replicates indicate genetic data consistency over time. Isolation by distance between the Atlantic and the coast of Italy is suggested by a Mantel test. The distributional pattern of genetic variance obtained by analysis of molecular variation reflects the geographic sampling areas, but is only partially congruent with the results obtained with fewer sites and loci. The dispersal of passive eggs/larvae by the main currents appears to contribute to shaping the gene flow. Given the intensity of sea bream aquaculture activities in Italy, the possibility that aquaculture may have partially contributed to the population genetic pattern detected cannot be excluded.
Influenza H1N1 (swine flu) vaccination: a safety surveillance feasibility study using self‐reporting of serious adverse events and pregnancy outcomes
Authors: Mackenzie Isla S. , MacDonald Thomas M. , Shakir Saad , Dryburgh Moira , Mantay Brian J. , McDonnell Patrick , Layton Deborah 
Published: November 2011

WHAT IS ALREADY KNOWN ABOUT THIS SUBJECT• While the new H1N1 vaccines underwent the usual rigorous safety and efficacy testing, concerns remained that there may be unexpected side effects of the vaccines.• The strategy for H1N1 vaccine pharmacovigilance in the UK consisted of two patient studies by the two vaccine manufacturers, 14 small scale studies supported by the National Institute of Health Research, monitoring by specialist neurologists and the MHRA.• There were calls to investigate the feasibility of a large‐scale prospective active surveillance system for ‘near real‐time’ vaccine safety monitoring that would be complementary to the other aforementioned initiatives.WHAT THIS STUDY ADDS• This pilot study demonstrated that collecting ‘near real‐time’ reporting of event data from patients who experienced side effects as well as those who reported no problems after swine flu vaccination is feasible.• The use of information technologies improves patient involvement in research as well as dramatically limiting the cost of the study.• The online methodology facilitates rapid surveillance in response to urgent safety issues.AIMSDuring the global H1N1 influenza A (swine flu) pandemic 2009–2010, swine flu vaccines were expeditiously licensed and a mass vaccination programme for high risk groups, including pregnant women, was introduced in the UK. This pilot active safety surveillance study was performed to establish the feasibility of rapidly monitoring the new swine flu vaccines in large patient numbers receiving or offered the vaccination under normal conditions of use within a short time frame.METHODSA cohort design with safety data capture through modern technologies was carried out in Scotland, UK during the winter swine flu vaccination programme 2009–2010 in individuals receiving or offered the swine flu vaccination. The main outcome measures were self‐reported serious adverse events (SAEs) and pregnancy outcomes.RESULTSThe cohort comprised 4066 people; 3754 vaccinated and 312 offered the vaccination but not vaccinated. There were 939 self‐reported events (838 different events), 53 judged to fit SAE criteria by the investigators, with nine judged as possibly, probably or definitely vaccine related. None of the seven deaths (six in vaccinees) were judged as vaccine related. One hundred and twenty‐eight women reported 130 pregnancies during the study with 117 pregnant at study start. There were reports of four miscarriages in three women and six possible congenital abnormalities in live births.CONCLUSIONSOverall, no significant safety issues were identified. The methodology and use of modern technologies to collect safety data from large numbers of patients was successful and could be used again in similar safety studies.
Clot lysis time and the risk of myocardial infarction and ischaemic stroke in young women; results from the RATIO case–control study
Authors: Siegerink Bob , Meltzer Mirjam E. , de Groot Philip G. , Algra Ale , Lisman Ton , Rosendaal Frits R. 
Published: November 2011

SummaryReduced overall fibrinolytic capacity increases the risk of myocardial infarction (MI), as demonstrated in studies with predominantly male participants. We determined the influence of altered fibrinolysis on the risk of MI and ischaemic stroke (IS) in young women. The RATIO (Risk of Arterial Thrombosis In relation to Oral contraceptives) study is a population‐based case‐control study including young women with MI (n = 203), IS (N = 175) and 638 matched healthy controls. Fibrinolytic potential was determined with a tissue factor/tissue plasminogen activator induced clot‐lysis assay. Odds ratios (OR) adjusted for cardiovascular risk factors were obtained with logistic regression. Clot‐lysis time (CLT) was divided into tertiles based on the control group (T1–T3), with T2 as reference. Hypofibrinolysis (prolonged CLT) was associated with an increase in risk of MI (T3 vs. T2, OR 2·8; 95%confidence interval [CI] 1·7–4·7). Hyperfibrinolysis (decreased CLT) had no clear effect (T1 vs. T2, OR 1·6; 95% CI 0·9–2·9). Hypofibrinolysis did not affect the risk of IS (T3 vs. T2, OR 1·5; 95% CI 0·7–3·0), whereas hyperfibrinolysis increased this risk (T1 vs. T2, OR 4·1; 95% CI 2·1–8·0). Oral contraceptive use and smoking further increased these risks. Hypofibrinolysis increases the risk for MI in young women, a finding similar to previous studies. Counter‐intuitively, hyperfibrinolysis increased the risk of IS four‐fold, which suggests that MI and IS have different aetiologies.
Enhanced levels of CCL19 in patients with advanced acquired immune deficiency syndrome (AIDS)
Authors: Damås J K , Øktedalen O , Ueland T , Landrø L , Barstad J , Müller F , Frøland S S , Flo T H , Aukrust P 
Published: November 2011

Summary
Based on the ability to recruit lymphocytes and dendritic cells to lymphoid tissue and to promote inflammation, we hypothesized a role for dysregulated CCL19 and CCL21 levels in human immunodeficiency virus (HIV)-infected patients with advanced immunodeficiency, and in particular in those with accompanying Mycobacterium avium complex (MAC) infection. The hypothesis was explored by studies in HIV-infected patients with and without MAC infection, as well as in vitro, examining the ability of proteins from MAC to promote CCL19 and CCL21 responses in peripheral blood mononuclear cells (PBMC) during highly active anti-retroviral therapy (HAART). Our main findings were: (i) raised serum levels of CCL19 in HIV-infected patients with CD4+ T cell count &lt;50 cells/µl compared with HIV-infected patients with CD4+ T cell count &gt;500 cells/µl and healthy controls, with particularly high levels in those with MAC infection; (ii) elevated plasma levels of CCL19 predicted a higher mortality in acquired immune deficiency syndrome (AIDS)-patients, independent of ongoing MAC infection; and (iii) marked production of CCL19 in MAC-stimulated peripheral blood mononuclear cells (PBMC) and pronounced disturbances in MAC-induced CCL19 production in PBMC from HIV patients that was partly reversed during HAART. Our findings suggest the involvement of CCL19 in AIDS patients with advanced immunodeficiency, potentially mediating both adaptive and maladaptive responses.
Phenomenological shifts for healthcare professionals after experiencing a research‐based drama on living with dementia
Authors: Jonas‐Simpson Christine , Mitchell Gail J. , Carson Jennifer , Whyte Colleen , Dupuis Sherry , Gillies Jennifer 
Published: November 2011

jonas‐simpson c., mitchell g.j., carson j., whyte c., dupuis s. & gillies j. (2012) Phenomenological shifts for healthcare professionals after experiencing a research‐based drama on living with dementia. Journal of Advanced Nursing68(9), 1944–1955.AbstractAim.  The aim of this article is to report research findings describing phenomenological shifts, that is, changes in patterns of lived experience, for healthcare professionals who attended a performance of a research‐based drama, called I’m Still Here.Background.  The research drama, based on six studies, was created to help change the ways persons understand, think about and relate with persons living with dementia.Methods.  In 2006–2007, 50 healthcare professionals from various disciplines and eight nursing students participated in this study. Participants were recruited from four Canadian cities in the province of Ontario where focus groups were held before and after engaging in a live performance of I’m Still Here.Findings.  Analysis of focus group transcripts showed shifts in patterns of lived experience for the healthcare professional participants as evident in the participants’ descriptions. The phenomenological shifts reflected a move from descriptions of ‘diminishing humanness to discerning humanness’, from ‘disengaged care/mundane relating to reflexive relating in the now’, and ‘terrifying portrayals of loss to awakening to hopeful possibility’. The shifts described herein are supported with examples from the focus group transcripts.Conclusions.  Findings reveal the power of drama as a vibrant and meaningful means of shifting understandings, images and intended actions of healthcare professions which have the potential to affect the lived experiences, relationships and quality of life of persons with dementia.
Effect of sleep‐inducing music on sleep in persons with percutaneous transluminal coronary angiography in the cardiac care unit
Authors: Ryu Min‐Jung , Park Jeong Sook , Park Heeok 
Published: November 2011

Aim and objective.  The study compared the effect of earplug‐delivered sleep‐inducing music on sleep in persons with percutaneous transluminal coronary angiography in the cardiac care unit.Background.  Diverse types of music have been claimed to improve sleeping elsewhere, but relatively little is known in South Korea. Most studies investigating the effect of sleep‐inducing music on sleep have involved persons with insomnia, even though many persons with cardiovascular disease in the intensive care unit suffer from sleeping problems. There is a need to investigate the effect of sleep‐inducing music on sleep disorders in persons with percutaneous transluminal coronary angiography in the cardiac care unit.Design.  An experimental research design was used.Methods.  Data collection was conducted in the cardiac care unit of K University Hospital in D city, from 3 September–4 October 2010. Fifty‐eight subjects participated and were randomly assigned to the experimental group (earplug‐delivered sleep‐inducing music for 52 min beginning at 10:00 pm, while wearing an eyeshield, n = 29) and the control group (no music, but earplugs and eyeshield worn, n = 29). The quantity and quality of sleep were measured using questionnaires at 7 am the next morning for each group.Results.  Participants in the experimental group reported that the sleeping quantity and quality were significantly higher than control group (t = 3·181, p = 0·002, t = 5·269, p < 0·001, respectively).Conclusion.  Sleep‐inducing music significantly improved sleep in patients with percutaneous transluminal coronary angiography at a cardiac care unit. Offering earplugs and playing sleep‐inducing music may be a meaningful and easily enacted nursing intervention to improve sleep for intensive care unit patients.Relevance to clinical practice.  Nurses working at cardiac care unit can use music to improve sleeping in clients with percutaneous transluminal coronary angiography.