bluuebunny/crossref_metadata_2025_split huggingface dataset:
Clinical performance of the CLART human papillomavirus 2 assay compared with the hybrid capture 2 test
Authors: Pista Angela , Verdasca Nuno , Oliveira Ana 
Published: December 2010

AbstractPersistent infection by high‐risk human papillomavirus (HR‐HPV) is a cause of cervical cancer. The use of HPV detection in cervical screening programs may improve the ability to identify women at risk of cervical cancer. Therefore, the development of appropriate methods for the detection of HR‐HPV is essential. The aim of this study was to evaluate the clinical performance of the CLART Human Papillomavirus 2 assay (CLART) in comparison with the Hybrid Capture 2 test (HC2), using a clinical cut‐off of cervical intraepithelial neoplasia grade 2 or worse. Discrepant results were analyzed further by the PapilloCheck HPV genotyping system. In the 425 studied women, HR‐HPV positivity rates were similar by both tests (CLART‐13 HR‐HPV: 63.1%; CLART‐17 HR‐HPV: 64.7%; HC2: 64.5%). Agreement between CLART‐13 HR‐HPV (κ = 0.969; concordance level 98.6%), CLART‐17 HR‐HPV (κ = 0.974; concordance level 98.8%), and HC2 were very good. When 13 HR‐HPV types were considered, the two tests showed a clinical sensitivity of 96% (95% CI: 92.6–97.9). The clinical specificity of CLART‐13 HR‐HPV was 73.6% (95% CI: 66.7–79.5) for cervical intraepithelial neoplasia grade 2 or worse, which was comparable to HC2 (71.4%; 95% CI: 64.3–77.5). When all 17 HR‐HPV types were considered, CLART showed a clinical sensitivity of 96.9% (95% CI: 93.8–98.5) and a clinical specificity of 71.9% (95% CI: 64.9–78.0). In conclusion, the CLART assay is efficient, sensitive, reproducible, and has a similar performance to HC2 for cervical intraepithelial neoplasia grade 2 or worse. Furthermore, this assay has the advantage of detecting and genotyping 35 HPV types by a single test, which can provide additional information on the predictive value of infection with HR‐HPV. J. Med. Virol. 83:272–276, 2011. © 2010 Wiley‐Liss, Inc.
Soluble CD30: A serum marker for Epstein–Barr virus‐associated lymphoproliferative diseases
Authors: Haque Tanzina , Chaggar Turren , Schafers Jenna , Atkinson Claire , McAulay Karen A. , Crawford Dorothy H. 
Published: December 2010

AbstractThe soluble form of CD30 (sCD30), a member of tumor necrosis factor receptor superfamily, has been used as a marker of disease activity in various lymphomas. Epstein–Barr virus (EBV) is a potent stimulator of CD30 expression. The study aims to evaluate whether sCD30 can be used as a diagnostic marker for EBV‐associated infectious mononucleosis (IM) and post‐transplant lymphoproliferative disease (PTLD). Plasma from EBV seropositive healthy controls (N = 90), acute IM patients (n = 90), non‐PTLD heart/lung transplant recipients (N = 30) and EBV‐positive PTLD patients (N = 23) was tested for sCD30 using a commercially available ELISA kit. EBV DNA was tested by real time quantitative polymerase chain reaction assay. Significantly higher sCD30 levels were observed in acute IM patients (median 242.9 ng/ml) compared to EBV seropositive controls (median 15.7 ng/ml; P < 0.0001). These levels were highest in IM patients within 14 days of onset of illness. PTLD patients had significantly higher sCD30 levels (median 94 ng/ml) than healthy controls (P < 0.0001) and transplant patients (median 27 ng/ml; P = 0.0007). EBV DNA was detected mostly in acute IM and PTLD patients. In both cases there was a significant correlation between sCD30 and EBV DNA levels in plasma (P < 0.0001). This study demonstrates that sCD30 and EBV DNA levels can be used as potential markers for diagnosis of IM and PTLD. J. Med. Virol. 83:311–316, 2011. © 2010 Wiley‐Liss, Inc.
Etiological role of human papillomavirus infection for inverted papilloma of the bladder
Authors: Shigehara Kazuyoshi , Sasagawa Toshiyuki , Doorbar John , Kawaguchi Shohei , Kobori Yoshitomo , Nakashima Takao , Shimamura Masayoshi , Maeda Yuji , Miyagi Tohru , Kitagawa Yasuhide , Kadono Yoshifumi , Konaka Hiroyuki , Mizokami Atsushi , Koh Eitetsu , Namiki Mikio 
Published: December 2010

AbstractThe status of human papillomavirus (HPV) infection in urothelial inverted papilloma was examined in the present study. Formalin‐fixed and paraffin‐embedded tissues from eight cases of inverted papilloma of the bladder were studied. The presence of HPV‐DNA was examined by modified GP5/6+PCR using archival tissue sections by microdissection. HPV genotype was determined with a Hybri‐Max HPV genotyping kit. Immunohistochemical analysis for p16‐INK4a, mcm7, HPV‐E4, and L1, and in situ hybridization for the HPV genome were performed. HPV was detected in seven of eight cases (87.5%) of inverted papilloma. Three cases were diagnosed as inverted papilloma with atypia, while the remaining five were typical cases. HPV‐18 was detected in two cases, including one inverted papilloma with atypia, and HPV‐16 was detected in four cases, including one inverted papilloma with atypia. Multiple HPV type infection was detected in one typical case and one atypical case. High‐risk HPV was present in all HPV‐positive cases. Cellular proteins, p16‐INK4a and mcm7, which are surrogate markers for HPV‐E7 expression, were detected in all HPV‐positive cases, and their levels were higher in inverted papilloma with atypia than in typical cases. In contrast, HPV‐E4 and L1, which are markers for HPV propagation, were observed in some parts of the typical inverted papilloma tissue. High‐risk HPV infection may be one of the causes of urothelial inverted papilloma, and inverted papilloma with atypia may have malignant potential. J. Med. Virol. 83:277–285, 2011. © 2010 Wiley‐Liss, Inc.
Epstein–barr virus in diffuse large B‐Cell lymphoma in immunocompetent patients in Japan is as low as in Western Countries
Authors: Wada Naoki , Ikeda Junichiro , Hori Yumiko , Fujita Shigeki , Ogawa Hiroyasu , Soma Toshihiro , Sugiyama Haruo , Fukuhara Shirou , Kanamaru Akihisa , Hino Masayuki , Kanakura Yuzuru , Morii Eiichi , Aozasa Katsuyuki 
Published: December 2010

AbstractAccording to previous reports, the frequency of Epstein–Barr virus (EBV) positivity in diffuse large B‐cell lymphoma is higher in East Asia (approximately 9%) than in Western countries. The presence of the EBV genome was examined in diffuse large B‐cell lymphoma patients registered with the Osaka Lymphoma Study Group (OLSG) in Osaka, Japan, situated in East Asia. The EBV‐positive rate was examined with in situ hybridization (ISH) in 484 immunocompetent diffuse large B‐cell lymphoma patients registered with OLSG. The male‐to‐female ratio was 1.29, with ages ranging from 16 to 95 (median, 68) years. ISH with EBV‐encoded small RNAs (EBER) probes revealed positive signals in the nuclei of tumor cells: the frequency of positively stained cells among all tumor cells was almost none in 458 cases, 5–10% in 5, 10–20% in 5, 20–50% in 11, and >50% in 5. When the frequency was >20% or >50%, the EBV‐positive rate in the present series (3.3% or 1.0%) was rather similar to that reported in Western cases. Careful evaluation of patient backgrounds, including age distribution, type of lymphomas, exclusion of immunocompromised patients, and establishment of definite criteria for EBV positivity (>20%, >50%, or almost all tumor cells) are essential in comparing geographical differences. J. Med. Virol. 83:317–321, 2011. © 2010 Wiley‐Liss, Inc.
Variations in the functional domain of basal core promoter of hepatitis B virus among Eastern Indian patients with prevalence of genotypes A, C, and D among the same ethnic population
Authors: Biswas Avik , Banerjee Arup , Chandra Partha Kumar , Datta Sibnarayan , Panigrahi Rajesh , Dutta Deep , De Binay Krishna , Pal Manisha , Guha Subhashish Kamal , Chakrabarti Sekhar , Chakravarty Runu 
Published: December 2010

AbstractMutations in the basal core promoter (BCP) and precore (PC) regions are associated with persistent and intermittently high hepatitis B virus (HBV) replication in several patients. The variability in the functional domains of BCP and PC region of HBV and their association with disease progression and clinical outcome were assessed in Eastern India, an unique region where three HBV genotypes, A, D, and C are prevalent among the same ethnic group. PCR amplification and direct sequencing of BCP and PC region was done on sera obtained from 130 HBsAg positive subjects with different clinical presentations. Associations of the apparent risk factors with clinical advancement were evaluated by statistical methods including multiple logistic regression analyses (MLR). HBV genotype A was present in 33.08%, C in 25.38%, and D in 41.54% cases. Genotypes A and C were associated with higher rate of T1762/A1764 mutations than the most predominant genotype D. HBeAg negative state was associated with considerably higher rate of C1753 mutation. T1762/A1764 along with C1753 was common among cirrhosis and T1762/A1764 without C1753 was frequent among chronic liver disease cases. No significant association was found between A1896 point mutation and clinical status. Multivariate analysis revealed that T1762/A1764 double mutation, HBV/A, age ≥25 years, C1753 and A1899 were critical factors for clinical advancement while age ≥25 years and C1753 as significant predictor for cirrhosis in comparison with chronic liver disease. In conclusion, the analysis of the BCP variability may help in monitoring the progression towards advanced liver disease in Eastern Indian patients. J. Med. Virol. 83:253–260, 2011. © 2010 Wiley‐Liss, Inc.
Using detection of survivin‐expressing circulating tumor cells in peripheral blood to predict tumor recurrence following curative resection of gastric cancer
Authors: Cao Weiguo , Yang Weiping , Li Hao , Lou Guying , Jiang Jinsong , Geng Mei , Xi Wenqi , Ren Ruobing , Qu Qing , Jin Xiaolong , Zhu Yanbo , Jin Yening 
Published: December 2010

AbstractBackground and ObjectivesThe present study was designed to investigate the clinicopathological role of survivin‐expressing circulating tumor cells (CTCs) and to determine whether the presence of survivin‐expressing CTCs is an independent predictor of tumor recurrence following curative resection of gastric cancer.MethodsThis study included 98 patients who underwent potentially curative resection. Reverse transcription polymerase chain reaction enzyme linked immunosorbent assay (RT‐PCR ELISA) was used to measure survivin mRNA in peripheral blood.ResultsOf the 98 patients studied, 45 (45.9%) were positive for survivin mRNA. Survivin mRNA expression correlated with Lauren classification (P < 0.001), pathological tumor (pT) stage (P < 0.001), pathological tumor node metastasis (pTNM) stage (P = 0.009), and degree of differentiation (P = 0.001). The pTNM stage and the status of survivin mRNA were independent prognostic factors of disease‐free survival (P = 0.007 and <0.001, respectively).ConclusionsThe detection of CTCs expressing survivin mRNA could be a good clinical biomarker used to predict the prognosis of patients with curatively resected gastric cancer. J. Surg. Oncol. 2011; 103:110–115. © 2010 Wiley‐Liss, Inc.
Esophageal cancer—the five year survivors
Authors: Kim Tad , Grobmyer Stephen R , Smith Reshelle , Ben‐David Kfir , Ang Darwin , Vogel Stephen B , Hochwald Steven N 
Published: December 2010

AbstractBackgroundEsophageal cancer in the United States carries a poor prognosis with overall 5 year survival rate of approximately 10%. Due to this dismal outcome, data analyzing factors predictive of survival for greater than 5 years are not available.MethodsSingle institution retrospective review of esophageal resection for curative intent from 1984 to 2004. We identified 50 actual 5 year survivors (long term survivors, LTS) out of 266 patients (19%) with invasive esophageal cancer and, using multivariate logistic regression, compared characteristics between the LTS, and short‐term (<5 year) survivors (STS).ResultsThere was no significant difference in clinical T stage or N stage by EUS (P = 0.81) or in the utilization of neoadjuvant therapy in the LTS versus STS (58% vs. 62%, respectively, P = 0.36). The LTS group was significantly more likely to have pathologic complete response (69% vs. 41%, P < 0.001), lower pathologic T stage, i.e., pT0, pTis, or pT1 (83% vs. 45%, P < 0.001), pN0 stage (97% vs. 68%, P < 0.001), favorable tumor differentiation (well or well to moderate, 39% vs. 13%, P < 0.001), and absence of angiolymphatic (88% vs. 69%, P < 0.01) or perineural invasion (95% vs. 83%, P = 0.04). In comparing the factors predictive of outcome in LTS versus the STS with increasing relative risk, absence of perineural invasion (RR 0.41 (0.27, 0.61)), negative margins (RR 0.41 (0.29, 0.57)), absence of angiolymphatic invasion (RR 0.39 (0.30, 0.51)), pN0 stage (RR 1.37 (1.23, 1.52)), pT0 or pT1 (RR 1.85 (1.64, 2.07)), pathologic complete response (RR 2.02 (1.76, 2.31)), and favorable tumor grade (RR 3.00 (2.49, 3.61)) were associated with improved survival.ConclusionTumor biological factors including favorable tumor grade may be the most important influence on 5 year actual survival in esophageal cancer. J. Surg. Oncol. 2011; 103:179–183. © 2010 Wiley‐Liss, Inc.
Temperature‐dependent kinetics for the ozonolysis of selected chlorinated alkenes in the gas phase
Authors: Leather Kimberley E. , McGillen Max R. , Ghalaieny Mohamed , Shallcross Dudley E. , Percival Carl J. 
Published: December 2010

AbstractThe ozonolysis of olefinic species is an important tropospheric process impacting on climate and human health. However, few studies have investigated these reactions as a function of temperature and even less information is available upon the effects of alkene heteroatomic substitution on the Arrhenius parameters. The electron‐withdrawing capacity of substituents about the olefinic bond strongly influences the rate of alkene ozonolysis. To understand better the effect of these substitutions, the temperature‐dependence of a series of ozone–chloroalkene reactions is investigated. Experiments were conducted in the EXTreme RAnge (EXTRA) chamber, over the range of 292–409 K and 760 Torr. The experimentally determined rate coefficients were fitted using an Arrhenius‐type analysis to yield the following activation energies: 30.80 ± 0.79, 23.18 ± 0.59, 65.2 ± 2.8, 116.9 ± 5.6, 29.5 ± 1.8, and 18.67 ± 0.96 kJ mol−1and preexponentialA‐factors 1.22+0.39−0.29×10−15, 9.3+6.7−5.4×10−16, 1.6+2.5−1.0×10−10, 6+22−3.9×10−4, 1.7+1.6−0.8×10−14, and 4.2+1.9−1.3×10−15cm3molecule−1s−1forcis‐1,2‐dichloroethene,trans‐1,2‐dichloroethene, trichloroethene, tetrachloroethene, 2‐chloropropene, and 3‐chloro‐1‐butene, respectively. © 2010 Wiley Periodicals, Inc. Int J Chem Kinet 43: 120–129, 2011
Formation of H‐atoms in the pyrolysis of cyclohexane and 1‐hexene: A shock tube and modeling study
Authors: Peukert Sebastian , Naumann Clemens , Braun‐Unkhoff Marina , Riedel Uwe 
Published: December 2010

AbstractCyclohexane (cC6H12) plays an important role in the combustion of practical liquid fuels, as a major component of naphthenic compounds. Therefore, the pyrolysis of cyclohexane was investigated by measuring the formation of H‐atoms. The thermal decomposition of 1‐hexene (1‐C6H12) was also studied, because of the assumption that 1‐hexene is the sole initial product of cyclohexane decomposition. For cyclohexane, the measurements were performed over a temperature range of 1320–1550 K, at pressures ranging from 1.8 to 2.2 bar; 1‐hexene experiments were done at temperatures between 1250 and 1380 K and pressures between 1.5 and 2.5 bar. For each experiment, the time‐dependent formation of H‐atoms was measured behind reflected shock waves by using the method of atomic resonance absorption spectrometry. For the dissociation of 1‐hexene to n‐propyl (C3H7) and allyl (C3H5) radicals, the following Arrhenius expression was derived: kR2(T) = 2.3 × 1016 exp(−36,672 K/T) s−1. For cyclohexane, overall rate coefficients (kov) were deduced for the global reaction cC6H12 → products + H from the H‐atom time profiles; the following temperature dependency was obtained: kov(T) = 4.7 × 1016 exp(−44,481 K/T) s−1. For both sets of rate coefficient values, an uncertainty of ±30% is estimated. Especially concerning the isomerization cC6H12 → 1‐C6H12, our experimental results are in excellent agreement with the rate coefficient values given by Tsang (Tsang, W. Int J Chem Kinet 1978, 10, 1119–1138). A reaction model was assembled that is able to reproduce the H‐atom profiles measured for both sets of experiments. According to this model, H‐atoms are mostly stemming from the thermal decomposition of allyl radicals (C3H5), which arise from the decomposition of 1‐hexene. Furthermore, it will be shown that the recombination of allyl radicals with H‐atoms to propene (C3H6) also represents a very important subsequent reaction. © 2010 Wiley Periodicals, Inc. Int J Chem Kinet 43: 107–119, 2011
Bioactivity and emerging role of short and medium chain fatty acids
Authors: Huth Peter J. , Fulgoni Victor , Jandacek Ronald J. , Jones Peter J. , St‐Onge Marie‐Pierre , Senanayake Vijitha 
Published: December 2010

AbstractCardiovascular disease (CVD) and insulin resistance are directly linked to overweight and obesity. Thus, any dietary strategy capable of causing weight reduction will lower CVD and diabetes risk. Oils rich in medium‐chain saturated fatty acids (MCFA) are among several dietary components that may have potential in the treatment of obesity. MCFA are less energy dense and highly ketogenic compared to long‐chain saturated and unsaturated fatty acids (LCFA). MCFA also differ from LCFA in their digestive and metabolic pathways, since they are easily oxidized and utilized as energy, with little tendency to deposit as body fat. The dietary intake of short (SCFA) and medium‐chain saturated fatty acids from natural food sources is approximately 2.4 g/day and accounts for about 9% of the total saturated fatty acid (SFA) intake. Although early clinical studies with high levels of MCFA resulted in increased levels of plasma triacylglycerols (TAG) and low‐density lipoprotein cholesterol (LDL‐C), and reduced levels of high‐density lipoprotein cholesterol (HDL‐C) compared to diets enriched in unsaturated LCFA, these adverse effects have not been observed in more recent studies with smaller more realistic amounts of MCFA. The lower caloric value of SCFA and MCFA and their unique metabolic features form the basis for their clinical use in enteral and parenteral nutrition and for novel reduced calorie lipids for use in conventional food products.
Using Spherical Harmonic Surface Property Representations for Ligand‐Based Virtual Screening
Authors: Pérez‐Nueno Violeta I. , Venkatraman Vishwesh , Mavridis Lazaros , Clark Tim , Ritchie David W. 
Published: December 2010

AbstractLigand‐based virtual screening (VS) techniques have become well established in the drug discovery process. However, despite their relative success, there still exists the problem of how to define the initial query compounds and which of their conformations should be used. Here, we propose a novel shape plus surface property approach using multiple local spherical harmonic (SH) functions. We also investigate the use of shape‐based and shape plus property‐based consensus SH queries calculated in several different ways. The utility of these approaches is compared using the 40 pharmaceutically relevant targets of the DUD database. Our results show that using a combination of SH‐based properties often gives better VS performance than using simple shape‐based queries. Shape‐based consensus queries also perform well, but we find that explicit 3D shape‐property conformations should be retained for highly flexible ligands.
An international urogynecological association (IUGA)/international continence society (ICS) joint terminology and classification of the complications related directly to the insertion of prostheses (meshes, implants, tapes) and grafts in female pelvic floor surgery
Authors: Haylen Bernard T. , Freeman Robert M. , Swift Steven E. , Cosson Michel , Davila G. Willy , Deprest Jan , Dwyer Peter L. , Fatton Brigitte , Kocjancic Ervin , Lee Joseph , Maher Chris , Petri Eckhard , Rizk Diaa E. , Sand Peter K. , Schaer Gabriel N. , Webb Ralph 
Published: December 2010

AbstractIntroduction and hypothesisA terminology and standardized classification has yet to be developed for those complications arising directly from the insertion of synthetic (prostheses) and biological (grafts) materials in female pelvic floor surgery.MethodsThis report on the above terminology and classification combines the input of members of the Standardization and Terminology Committees of two International Organizations, the International Urogynecological Association (IUGA) and the International Continence Society (ICS) and a Joint IUGA/ICS Working Group on Complications Terminology, assisted at intervals by many expert external referees. An extensive process of 11 rounds of internal and external review took place with exhaustive examination of each aspect of the terminology and classification. Decision‐making was by collective opinion (consensus).ResultsA terminology and classification of complications related directly to the insertion of prostheses and grafts in female pelvic floor surgery has been developed, with the classification based on category (C), time (T) and site (S) classes and divisions, that should encompass all conceivable scenarios for describing insertion complications and healing abnormalities. The CTS code for each complication, involving three (or four) letters and three numerals, is likely to be very suitable for any surgical audit or registry, particularly one that is procedure‐specific. Users of the classification have been assisted by case examples, colour charts and online aids (www.icsoffice.org/complication).ConclusionA consensus‐based terminology and classification report for prosthesis and grafts complications in female pelvic floor surgery has been produced, aimed at being a significant aid to clinical practice and research. Neurourol. Urodynam. 30:2–12, 2011. © 2010 Wiley‐Liss
Resource allocation by means of project networks: Dominance results
Authors: Leus Roel 
Published: December 2010

AbstractThis article investigates the relationship between resource allocation and early‐start policies (ES‐policies), which are a type of scheduling policies introduced for stochastic scheduling and which can be represented by a directed acyclic graph. We present a formal treatment of resource flows as a representation of resource‐allocation decisions, extending the existing literature. Our results lead to suggestions for efficiency enhancements to enumeration algorithms for ES‐policies. © 2010 Wiley Periodicals, Inc. NETWORKS, Vol. 58(1), 50–58 2011
GRASP with path relinking heuristics for the antibandwidth problem
Authors: Duarte A. , Martí R. , Resende M.G.C. , Silva R.M.A. 
Published: December 2010

AbstractThis article proposes a linear integer programming formulation and several heuristics based on GRASP and path relinking for the antibandwidth problem. In the antibandwidth problem, one is given an undirected graph with n nodes and must label the nodes in a way that each node receives a unique label from the set {1, 2,…,n}, such that, among all adjacent node pairs, the minimum difference between the node labels is maximized. Computational results show that only small instances of this problem can be solved exactly (to optimality) with a commercial integer programming solver and that the heuristics find high‐quality solutions in much less time than the commercial solver. © 2010 Wiley Periodicals, Inc. NETWORKS, Vol. 58(3), 171–189 2011