bluuebunny/crossref_metadata_2025_split huggingface dataset:
An intelligent decision support system for quantitative assessment of gastric atrophy
Authors: Al-Omari Faruq A , Matalka Ismail I , Al-Jarrah Mohammad A , Obeidat Fatima N , Kanaan Faisal M 
Published: February 2011

AimsTo build an automated decision support system to assist pathologists in grading gastric atrophy according to the updated Sydney system.MethodsA database of 143 biopsies was used to train and examine the proposed system. A panel of three experienced pathologists reached a consensus regarding the grading of the studied biopsies using the visual scale of the updated Sydney system. Digital imaging techniques were utilised to extract a set of discriminating morphological features that describe each atrophy grade sufficiently and uniquely. A probabilistic neural networks structure was used to build a grading system. To evaluate the performance of the proposed system, 66% of the biopsies (94 biopsy images) were used for training purposes and 34% (49 biopsy images) were used for testing and validation purposes.ResultsDuring the training phase, a 98.9% precision was achieved, whereas during testing, a precision of 95.9% was achieved. The overall precision achieved was 97.9%.ConclusionsA fully automated decision support system to grade gastric atrophy according to the updated Sydney system is proposed. The system utilises advanced image processing techniques and probabilistic neural networks in conducting the assessment. The proposed system eliminates inter- and intra-observer variations with high reproducibility.
Current experience and attitudes to biomedical scientist cut-up: results of an online survey of UK consultant histopathologists
Authors: Simmons E J V , Sanders D S A , Carr R A 
Published: February 2011

AimsTo assess the current utilisation of biomedical scientist (BMS) surgical specimen cut-up in the UK and attitudes of consultant histopathologists to the practice.MethodsEmail invitations were sent to all UK consultant histopathologists to participate in an online survey (SurveyMonkey) assessing attitudes to and utilisation of BMS surgical specimen cut-up.Results463 individual replies were received (35% response rate) from 1320 invitations to participate, covering 181 UK histopathology departments. A majority of the respondents were either fully in favour of BMS cut-up (52.7%), or in favour but with some reservation (46.2%). Only five respondents (1.1%) were completely opposed to BMS cut-up. 267 (57.7%) respondents reported that their BMS staff loaded biopsies only. 148 (32%) reported BMS cut-up of more complex benign specimens, and 83 (17.9%) reported BMS handling of orientated skin specimens. Only 39 (8.4%) reported that BMS staff in their departments currently cut-up larger cancer resections.ConclusionsThis survey is representative of current BMS cut-up practice in the UK. The majority of UK consultant histopathologists replying to this survey support BMS cut-up to some degree, but utilisation of BMS cut-up is rather limited and patchy at present. Cost, staffing constraints, perceived quality issues and individual consultant preferences are cited as reasons for limited uptake currently. Recognised benefits of promoting BMS cut-up include better use of consultant time, enhanced team working, BMS job satisfaction and career progression, and better adherence to standard operating procedures.
Transitional changes in arborescent lignophytes at the Devonian–Carboniferous boundary
Authors: Decombeix Anne-Laure , Meyer-Berthaud Brigitte , Galtier Jean 
Published: February 2011

Abstract:

It is usually considered that after the extinction of the Devonian tree
Archaeopteri
s, no new arborescent lignophytes were established before the late Tournaisian. A reassessment of this pattern is presented here based on a three-fold approach: a re-evaluation of the taxic diversity of Tournaisian lignophyte trees based on descriptions of new plants from palaeotropical latitudes, a study of the patterns of phenotypic changes occurring among early lignophytes using a principal coordinate analysis and a phylogenetic analysis of the affinities of the arborescent taxa. The best supported results indicate that a substantial taxonomic and phenotypic diversity of arborescent lignophytes was already established in the first part of the Tournaisian, including some taxa that persisted until the Serpukhovian. Two genera may have originated in the Late Devonian and crossed the Devonian–Carboniferous boundary. Fewer originations and a decrease in phenotypic diversity occurred in the Viséan. The phenotypic distinctiveness of tree stems compared with those of other growth forms in the lignophytes is assessed. We propose a scenario in which the presence of lignophyte trees is continuous across the Devonian–Carboniferous boundary, with arborescent taxa distinct from
Archaeopteris
already present in the latest Devonian, possibly in upland floras, and diversifying significantly soon after the Devonian–Carboniferous boundary.

Supplementary material:

A list of taxa, characters and matrices used in the principal coordinate analysis and phylogenetic analysis is available at
http://www.geolsoc.org.uk/SUP18447
.
Provenance and exhumation of an exotic eclogite-bearing nappe in the Caledonides: a U–Pb and Rb–Sr study of the Jæren nappe, SW Norway
Authors: Smit M.A. , Bröcker M. , Kooijman E. , Scherer E.E. 
Published: February 2011

Abstract:

The provenance and exhumation history of paragneisses that enclose the 471–458 Ma eclogites in the Caledonian Jæren nappe, SW Norway, were constrained by performing U–Pb analysis on detrital zircon and Rb–Sr dating of mica. Zircon grains from four samples were analysed by laser ablation inductively coupled plasma mass spectrometry, providing detrital U–Pb ages between 3130 and 620 Ma. These data suggest Laurentian provenance, implying the existence of an early Caledonian (Taconian) HP fragment of Laurentian crust in the southern Scandinavian Caledonides. Several rims and recrystallized zircon patches yielded U–Pb ages averaging at 469 ± 6 Ma (2σ). These are identical to the Lu–Hf ages of the eclogites and underscore the importance of Taconian metamorphism in this part of the Caledonides. The main phengite Rb–Sr age cluster at 424.4 ± 4.6 Ma provides time constraints on the amphibolite-facies recrystallization of former high-Si phengite. Five out of seven biotite Rb–Sr ages were identical, yielding a weighted mean age of 413.6 ± 2.6 Ma. Low-Si phengite and biotite in three samples gave
c
. 400 Ma ages. The Rb–Sr data record the mid-crustal emplacement of the exotic Jæren nappe and its subsequent unroofing along the western edge of Baltica during the backsliding and collapse of the Scandian orogenic front.

Supplementary material:

The sample locations, U–Pb isotope data and ages for zircon, and the phengite and biotite major element data are available at
http://www.geolsoc.org.uk/SUP18448
.
Stress-state evolution of the brittle upper crust during compressional tectonic inversion as defined by successive quartz vein types (High-Ardenne slate belt, Germany)
Authors: Van Noten Koen , Muchez Philippe , Sintubin Manuel 
Published: February 2011

Abstract:
In the frontal part of the Rhenohercynian fold-and-thrust belt (High-Ardenne slate belt, Germany), two successive types of quartz veins, oriented normal and parallel to bedding respectively, are interpreted to reflect the early Variscan compressional tectonic inversion of the Ardenne–Eifel sedimentary basin. Fracturing and sealing occurred in Lower Devonian siliciclastic multilayers under very low-grade metamorphic conditions in a brittle upper crust. A geometrical and microthermometric analysis of these veins has helped to constrain the kinematic and pressure–temperature conditions of both vein types, allowing the reconstruction of the stress-state evolution in a basin during tectonic inversion. It is demonstrated that bedding-normal extension veins, which developed under low differential stresses and repeatedly opened and sealed (crack-seal) under near-lithostatic fluid pressures, reflect the latest stage of an extensional stress regime. Bedding-parallel veins, which developed at differential stresses that were still low enough to allow the formation of extension veins, cross-cut the bedding-normal veins and preceded the regional fold and cleavage development. These veins show a pronounced bedding-parallel fabric, reflecting bedding-normal uplift and bedding-parallel shearing under lithostatic to supra-lithostatic fluid pressures during the early stages of a compressional stress regime. This kinematic history corroborates that fluid overpressures are easy to maintain during compressional tectonic inversion at the onset of orogeny.
Late Palaeozoic terrestrial habitats and biotas: the effect of changing climates
Authors: Hilton Jason , Cleal Christopher J. 
Published: February 2011

Abstract:
The 2009 Lyell Meeting held at the Geological Society, London, reviewed various aspects of the interrelationship between Late Palaeozoic habitats, biotas and climates. The following five papers are based on some of the presentations given at the meeting.
FOXQ1 Regulates Epithelial-Mesenchymal Transition in Human Cancers
Authors: Qiao Yuanyuan , Jiang Xia , Lee Shuet Theng , Karuturi R.K. Murthy , Hooi Shing Chuan , Yu Qiang 
Published: February 2011

Abstract
Epithelial-mesenchymal transition (EMT) in cancer cells plays a pivotal role in determining metastatic prowess, but knowledge of EMT regulation remains incomplete. In this study, we defined a critical functional role for the Forkhead transcription factor FOXQ1 in regulating EMT in breast cancer cells. FOXQ1 expression was correlated with high-grade basal-like breast cancers and was associated with poor clinical outcomes. RNAi-mediated suppression of FOXQ1 expression in highly invasive human breast cancer cells reversed EMT, reduced invasive ability, and alleviated other aggressive cancer phenotypes manifested in 3-dimensional Matrigel (BD Biosciences) culture. Conversely, enforced expression of FOXQ1 in differentiated human mammary epithelial cells (HMLER) or epithelial cancer cell lines provoked an epithelial to mesenchymal morphologic change, gain of stem cell–like properties, and acquisition of resistance to chemotherapy-induced apoptosis. Mechanistic investigations revealed that FOXQ1-induced EMT was associated with transcriptional inactivation of the epithelial regulator E-cadherin (CDH1). Our findings define a key role for FOXQ1 in regulating EMT and aggressiveness in human cancer. Cancer Res; 71(8); 3076–86. ©2011 AACR.
Phase I Trial of Weekly and Twice-Weekly Bortezomib with Rituximab, Cyclophosphamide, and Prednisone in Relapsed or Refractory Non–Hodgkin Lymphoma
Authors: Gerecitano John , Portlock Carol , Hamlin Paul , Moskowitz Craig H. , Noy Ariela , Straus David , Schulman Philip , Dumitrescu Otilia , Sarasohn Debra , Pappanicholaou Jennifer , Iasonos Alexia , Zhang Zhigang , Mo Qianxing , Horanlli Endri , Rojas Celeste N. , Zelenetz Andrew D. , O'Connor Owen A. 
Published: February 2011

Abstract
Purpose: To determine the safety and efficacy of substituting weekly or twice-weekly bortezomib for vincristine in the R-CVP (rituximab, cyclophosphamide, vincristine, and prednisone) regimen in patients with relapsed/refractory indolent and mantle cell lymphoma (MCL).
Experimental Design: Of the 57 patients in this phase I trial, 55 participated in 1 of 2 dosing schedules that included rituximab (375 mg/m2) and cyclophosphamide (750 or 1,000 mg/m2) administered on day 1 of each 21-day cycle and prednisone (100 mg orally) days 2 to 6. In the once-weekly schedule, bortezomib was administered on days 2 and 8; on the twice-weekly schedule, bortezomib was given on days 2, 5, 9, and 12. Bortezomib and cyclophosphamide were alternately escalated. A separate cohort of 10 patients in the twice-weekly schedule received concurrent pegfilgrastim (PegG) on day 2.
Results: Both schedules of R-CBorP (rituximab, cyclophosphamide, bortezomib, and prednisone) were well tolerated. Most toxicities across all dose levels and cycles were grade 1 or 2. The overall response rates for patients on the weekly (n = 13) and twice-weekly (n = 33) schedules were 46% [23% complete response/complete response unconfirmed (CR/CRu)] and 64% (36% CR/CRu), respectively. Concurrent PegG did not increase hematologic toxicities in this regimen. A randomized phase II study is under way to further compare toxicity and efficacy of the 2 dosing schedules.
Conclusions: R-CBorP is a safe and effective regimen in patients with relapsed/refractory indolent and MCLs. Most toxicities were grade 1 or 2, and a promising response rate was seen in this phase I study. Clin Cancer Res; 17(8); 2493–501. ©2011 AACR.
Experimental application of particle imaging to fluid velocity analysis in building drainage systems
Authors: Campbell DP 
Published: February 2011

Previous research into the hydraulic and pneumatic conditions in the pipework associated with building drainage waste and ventilation (DWV) systems has been interpreted as suggesting that the flow regime within the vertical stack consists of an annular water flow entraining a central air core with an associated pressure drop. However, previous evidence had suggested that a significant proportion of the water was found in the air core by Pink [A study of the effect of stack length on airflow in drainage stacks. BRE Current Paper, 1973; 38/73] and Wyly and Eaton [1961. Capacity of stacks in sanitary drainage systems for buildings. U.S. Department of Commerce, National Bureau of Standards, Monograph 3]. A new model has recently been proposed by Campbell and MacLeod [Investigation of the causative factors of airflow entrainment in building drainage-waste-ventilation (DWV) systems. Building Services Engineering Research Technology 1999; 20(3): 99—104] which suggests that the airflow entrainment is due to the distribution of work between the water annulus and the droplets falling in the central air core. This article describes the investigation of the velocity profile of mixed-phase fluid flow in building DWV systems utilising the particle tracking velocimetry (PTV) flow measurement technique previously established by Campbell [The application of particle tracking velocimetry as a velocity measurement technique. Building Services Engineering Research Technology 2006; 27(4): 327—40]. PTV is a non-intrusive optical flow measurement technique that supplies an instantaneous sample of velocity throughout a two-dimensional plane in the flow field. The results of the PTV investigation support the assumption that water droplets exist in the air core and have a velocity greater than that of the water annulus. Practical application: This article describes the application of particle tracking velocimetry (PTV) to the interaction between air and water in typical building drainage waste and ventilation (DWV) systems. Results indicate an unexpected distribution of mass across the stack discharge which, together with the nature of the air/water interface, governs air movement. The technique of PTV is particularly suited to this area, and represents the first steps towards eventual refinement of mathematical models designed to simulate building DWV system behaviour.
Pathologic mechanisms of type 1 VWD mutations R1205H and Y1584C through in vitro and in vivo mouse models
Authors: Pruss Cynthia M. , Golder Mia , Bryant Andrea , Hegadorn Carol A. , Burnett Erin , Laverty Kimberly , Sponagle Kate , Dhala Aly , Notley Colleen , Haberichter Sandra , Lillicrap David 
Published: February 2011

AbstractType 1 VWD is the mild to moderate reduction of VWF levels. This study examined the mechanisms underlying 2 common type 1 VWD mutations, the severe R1205H and more moderate Y1584C. In vitro biosynthesis was reduced for both mutations in human and mouse VWF, with the effect being more severe in R1205H. VWF knockout mice received hydrodynamic injections of mouse Vwf cDNA. Lower VWF antigen levels were demonstrated in both homozygous and heterozygous forms for both type 1 mutations from days 14-42. Recombinant protein infusions and hydrodynamic-expressed VWF propeptide to antigen ratios demonstrate that R1205H mouse VWF has an increased clearance rate, while Y1584C is normal. Recombinant ADAMTS13 digestions of Y1584C demonstrated enhanced cleavage of both human and mouse VWF115 substrates. Hydrodynamic-expressed VWF shows a loss of high molecular weight multimers for Y1584C compared with wild-type and R1205H. At normal physiologic levels of VWF, Y1584C showed reduced thrombus formation in a ferric chloride injury model while R1205H demonstrated similar thrombogenic activity to wild-type VWF. This study has elucidated several novel mechanisms for these mutations and highlights that the type 1 VWD phenotype can be recapitulated in the VWF knockout hydrodynamic injection model.
Characterization of immune-matched hematopoietic transplantation in zebrafish
Authors: de Jong Jill L. O. , Burns Caroline Erter , Chen Aye T. , Pugach Emily , Mayhall Elizabeth A. , Smith Alexandra C. H. , Feldman Henry A. , Zhou Yi , Zon Leonard I. 
Published: February 2011

AbstractEvaluating hematopoietic stem cell (HSC) function in vivo requires a long-term transplantation assay. Although zebrafish are a powerful model for discovering the genetics of hematopoiesis, hematopoietic transplantation approaches have been underdeveloped. Here we established a long-term reconstitution assay in adult zebrafish. Primary and secondary recipients showed multilineage engraftment at 3 months after transplantation. Limiting dilution data suggest that at least 1 in 65 000 zebrafish marrow cells contain repopulating activity, consistent with mammalian HSC frequencies. We defined zebrafish haplotypes at the proposed major histocompatibility complex locus on chromosome 19 and tested functional significance through hematopoietic transplantation. Matching donors and recipients dramatically increased engraftment and percentage donor chimerism compared with unmatched fish. These data constitute the first functional test of zebrafish histocompatibility genes, enabling the development of matched hematopoietic transplantations. This lays the foundation for competitive transplantation experiments with mutant zebrafish HSCs and chemicals to test for effects on engraftment, thereby providing a model for human hematopoietic diseases and treatments not previously available.
IL-27 renders DC immunosuppressive by induction of B7-H1
Authors: Karakhanova Svetlana , Bedke Tanja , Enk Alexander H , Mahnke Karsten 
Published: February 2011

ABSTRACTIL-27, an IL-12 family member, was initially described as a proinflammatory cytokine. Nevertheless, it also poses anti-inflammatory activity, being involved in suppressing development of TH-17 cells as well as in the induction of inhibitory Tr1 cells. Recent data obtained in mice suggest that it can down-modulate the function of APCs. However, until now, nothing was known about the influence of IL-27 on human DCs. We investigated the effect of IL-27 on in vitro human MoDCs and on ex vivo blood DCs. Our results show that treatment of mDCs with IL-27 led to specific up-regulation of surface expression of several molecules, including B7-H1, in the absence of general DC maturation. Moreover, we demonstrated that IL-27-treated DCs exhibit a reduced capacity to stimulate proliferation and cytokine production of allogeneic T cells as compared with control DCs. Decisively, we identified B7-H1 as a crucial molecule, responsible for suppressive effects of “IL-27 DC” on T cells. Our data demonstrate for the first time that in addition to the dual role of IL-27 in the modulation of T cell activation and differentiation, human IL-27 modulates an immune response through DCs, i.e., by inducing immunosuppressive B7-H1 molecules and reducing the stimulatory potential of DCs.
Citrus Polyphenol Hesperidin Stimulates Production of Nitric Oxide in Endothelial Cells while Improving Endothelial Function and Reducing Inflammatory Markers in Patients with Metabolic Syndrome
Authors: Rizza Stefano , Muniyappa Ranganath , Iantorno Micaela , Kim Jeong-a , Chen Hui , Pullikotil Philomena , Senese Nicoletta , Tesauro Manfredi , Lauro Davide , Cardillo Carmine , Quon Michael J. 
Published: February 2011

Context:
Hesperidin, a citrus flavonoid, and its metabolite hesperetin may have vascular actions relevant to their health benefits. Molecular and physiological mechanisms of hesperetin actions are unknown.

Objective:
We tested whether hesperetin stimulates production of nitric oxide (NO) from vascular endothelium and evaluated endothelial function in subjects with metabolic syndrome on oral hesperidin therapy.

Design, Setting, and Interventions:
Cellular mechanisms of action of hesperetin were evaluated in bovine aortic endothelial cells (BAEC) in primary culture. A randomized, placebo-controlled, double-blind, crossover trial examined whether oral hesperidin administration (500 mg once daily for 3 wk) improves endothelial function in individuals with metabolic syndrome (n = 24).

Main Outcome Measure:
We measured the difference in brachial artery flow-mediated dilation between placebo and hesperidin treatment periods.

Results:
Treatment of BAEC with hesperetin acutely stimulated phosphorylation of Src, Akt, AMP kinase, and endothelial NO synthase to produce NO; this required generation of H2O2. Increased adhesion of monocytes to BAEC and expression of vascular cell adhesion molecule-1 in response to TNF-α treatment was reduced by pretreatment with hesperetin. In the clinical study, when compared with placebo, hesperidin treatment increased flow-mediated dilation (10.26 ± 1.19 vs. 7.78 ± 0.76%; P = 0.02) and reduced concentrations of circulating inflammatory biomarkers (high-sensitivity C-reactive protein, serum amyloid A protein, soluble E-selectin).

Conclusions:
Novel mechanisms for hesperetin action in endothelial cells inform effects of oral hesperidin treatment to improve endothelial dysfunction and reduce circulating markers of inflammation in our exploratory clinical trial. Hesperetin has vasculoprotective actions that may explain beneficial cardiovascular effects of citrus consumption.
Rapid Detection of Myocardial Infarction With a Sensitive Troponin Test
Authors: Scharnhorst Volkher , Krasznai Krisztina , van’t Veer Marcel , Michels Rolf 
Published: February 2011

Abstract
Rapid identification and treatment of patients with a myocardial infarction (MI) is mandatory. We studied the diagnostic capacities of a sensitive troponin assay for detection of MI in emergency department patients within 2 hours after arrival.
The study included 157 patients suspected of having non–ST-elevation acute coronary syndrome. Blood was drawn on arrival (T0) and 2 (T2), 6, and 12 hours later. At T2, a troponin concentration above the MI cutoff is 87% sensitive and 100% specific for MI detection (positive predictive value [PPV], 100%; negative predictive value [NPV], 96%). If a difference of more than 30% between the troponin measurements at T0 and T2 in the absence of an absolute troponin increase above the 99th percentile of a reference population is also considered indicative of MI, the sensitivity increases to 100% and specificity decreases to 87% (PPV, 70%; NPV, 100%). Sensitivity and specificity of creatine kinase–MB and myoglobin are lower than those of troponin.
By using a sensitive troponin assay and simple algorithms, the diagnosis of MI can be determined within 2 hours after arrival at the emergency department. Measurement of myoglobin and creatine kinase–MB has no added value.