bluuebunny/crossref_metadata_2025_split huggingface dataset:
Simultaneous metabolic labeling of cells with multiple amino acids: Localization and dynamics of histone acetylation and methylation
Authors: Ren Chen , Liu Shujun , Ghoshal Kalpana , Hsu Pang‐Hung , Jacob Samson T. , Marcucci Guido , Freitas Michael A. 
Published: January 2007

AbstractSimultaneous metabolic labeling of cells with multiple amino acids combined with acetic acid urea‐PAGE and MS was used to characterize histones in Kasumi‐1 cells treated with the histone deacetylase inhibitor depsipeptide (DDP). The approach allowed for rapid targeting, identification, and subsequent characterization of peptides containing sites of acetylation or methylation. Multiple methylation sites were determined for histone H3 including: di‐ and tri‐methylation of K9 and K27; mono‐ and di‐methylation of K36 and K79; and mono‐methylation of K37. The acetylation patterns for histones H4 and H3 were established. Quantitative analysis of the modification change after treatment with DDP was also performed and the dynamics of H4 acetylation determined. Functional analysis by RT‐PCR showed that DDP unregulated p21 expression with a maximum after 18‐h exposure. Chromatin immunoprecipitation experiments indicated that DDP treatment caused an accumulation of hyperacetylated histone H4 and H3 isoforms and a decrease in K9 di‐methylation of H3 on the p21 promoter.
Characterization of human prostate and breast cancer cell lines for experimental T cell‐based immunotherapy
Authors: Carlsson Björn , Forsberg Ole , Bengtsson Mats , Tötterman Thomas H. , Essand Magnus 
Published: January 2007

AbstractBACKGROUNDIn order to develop experimental immunotherapy for prostate and breast cancer it is of outmost importance to have representative target cell lines that through human leukocyte antigen (HLA) class I molecules present relevant levels of peptides from tumor‐associated antigens for cytotoxic T lymphocyte (CTL) recognition.METHODSWe sequenced the HLA‐A and HLA‐B loci of eight commonly used prostate and breast cancer cell lines and analyzed the surface expression of HLA‐ABC, HLA‐DR, CD40, CD80, CD86, and CD54 by flow cytometry. We also analyzed the cell lines for mRNA expression from 25 genes reported to be specifically or preferentially expressed by prostate cells.RESULTSAmong the analyzed cell lines we found that LNCaP, PC‐346C and MCF‐7 are HLA‐A*0201 positive. However, the HLA‐A2 expression level is low and only MCF‐7 upregulates HLA‐A2 in response to IFN‐γ stimulation. MCF‐7 also expresses high levels of CD54, which further improve its value as a CTL target cell line. On the other hand, LNCaP and PC‐346C express 25 and 23 out of 25 prostate‐related genes, respectively, while MCF‐7 expresses 16 out of 25 genes.CONCLUSIONSNone of the analyzed prostate cancer cell lines are optimal CTL target cells. However, MCF‐7 could in many cases be used as a complement to HLA‐A*0201 positive prostate cancer cells. The LNCaP and PC‐346C cell lines are rich sources of prostate‐related antigens that may be valuable for cancer vaccine development. Prostate 67: 389–395, 2007. © 2007 Wiley‐Liss, Inc.
Ten‐year survival and cardiovascular mortality in patients with advanced prostate cancer primarily treated by intramuscular polyestradiol phosphate or orchiectomy
Authors: Mikkola Arto , Aro Jussi , Rannikko Sakari , Ruutu Mirja 
Published: January 2007

AbstractBACKROUNDThe aim of the study was to evaluate overall and prostate cancer (PCa) specific survival with special attention to cardiovascular (CV) mortality in patients primarily treated by parenteral polyestradiol phosphate (PEP) 240 mg/month or with orchiectomy (OE), taking into account the effect of pretreatment diseases and medication, and later PCa therapies.METHODSThe present Finnprostate 6 study (10‐year follow‐up) consisted of 244 patients with locally advanced PCa (T3‐4 M0) and 200 patients with metastatic PCa (T1‐4 M1). Patients were randomized to OE or PEP therapy. The T3‐4 M0 and T1‐4 M1 patients were analyzed separately.RESULTSThere was no difference in overall or PCa specific survival between the primary therapy groups in T3‐4 M0 or T1‐4 M1 patients. In the T3‐4 M0 patients the primary treatment (PEP vs. OE) was statistically significantly associated with a risk of CV deaths (P = 0.001). Such an association was not found in the T1‐4 M1 patients.CONCLUSIONSThe primary PEP and OE therapies are equal in terms of overall and PCa specific survival in patients with T3‐4 M0 or T1‐4 M1 disease. In T3‐4 M0 patients PEP increases the risk of CV deaths compared to OE but not in T1‐4 M1 patients. Prostate 67: 447–455, 2007. © 2007 Wiley‐Liss, Inc.
Thermal characterization of ceramic tapes using photoacoustic effect
Authors: K Annieta Philip , Joseph Lyjo K. , Irimpan Litty M. , Krishnan Bindu , Radhakrishnan P. , Nampoori V. P. N. , Natarajan Raghu 
Published: January 2007

AbstractThermal characterization of alumina–zirconia and zirconia ceramic tapes using a photoacoustic technique is presented. A transmission‐mode geometry is employed for the measurement of thermal diffusivity while a reflection‐mode geometry is used for the measurement of thermal effusivity. In both these geometries, the same open photoacoustic cell is used. From the measured values of thermal diffusivity and thermal effusivity, the thermal conductivity value has also been evaluated. (© 2007 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)
Red luminescence from freestanding GaN grown on LiAlO2 substrate by hydride vapor phase epitaxy
Authors: Wang Lijun , Richter E. , Weyers M. 
Published: January 2007

AbstractPhotoluminescence (PL) spectroscopy was used to study the red luminescence band from freestanding GaN grown on LiAlO2 substrate by hydride vapor phase epitaxy. The red luminescence band was observed with its peak at 1.78 eV and 1.85 eV at 10 K and 300 K, respectively. Temperature‐dependent PL data show that the 1.78 eV red band is due to a donor‐acceptor pair (DAP) transition. Excitation‐intensity‐dependent PL measurements at 10 K and 300 K reveal that the 1.85 eV band at 300 K is the overlap of the DAP band and the electron‐to‐acceptor (e, A0) transition band. Ion‐implantation experiments confirmed that both carbon and oxygen impurities are involved in the red luminescence transition. (© 2007 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)
Analysis on binary responses with ordered covariates and missing data
Authors: Taylor Jeremy M. G. , Wang Lu , Li Zhiguo 
Published: January 2007

AbstractWe consider the situation of two ordered categorical variables and a binary outcome variable, where one or both of the categorical variables may have missing values. The goal is to estimate the probability of response of the outcome variable for each cell of the contingency table of categorical variables while incorporating the fact that the categorical variables are ordered. The probability of response is assumed to change monotonically as each of the categorical variables changes level. A probability model is used in which the response is binomial with parameterspijfor each cell (i,j) and the number of observations in each cell is multinomial. Estimation approaches that incorporate Gibbs sampling with order restrictions onpijinducedviaa prior distribution, two‐dimensional isotonic regression and multiple imputation to handle missing values are considered. The methods are compared in a simulation study. Using a fully Bayesian approach with a strong prior distribution to induce ordering can lead to large gains in efficiency, but can also induce bias. Utilizing isotonic regression can lead to modest gains in efficiency, while minimizing bias and guaranteeing that the order constraints are satisfied. A hybrid of isotonic regression and Gibbs sampling appears to work well across a variety of scenarios. The methods are applied to a pancreatic cancer case–control study with two biomarkers. Copyright © 2007 John Wiley & Sons, Ltd.
Data exploration in meta‐analysis with smooth latent distributions
Authors: Eilers Paul H. C. 
Published: January 2007

AbstractMeta‐analysis with discrete outcomes is interpreted as the estimation (in one or two dimensions) of a non‐parametric smooth latent distribution of event probabilities (or rates). A simple but efficient EM algorithm is presented. A fine grid is used and fast smoothing is done by penalized least squares. Data exploration is the primary goal, but the estimated distribution can also be used to compute useful statistics of treatment effects. Copyright © 2007 John Wiley & Sons, Ltd.
First‐trimester uterine artery Doppler and spontaneous preterm delivery
Authors: Soares S. C. , Fratelli N. , Prefumo F. , Bhide A. , Thilaganathan B. 
Published: January 2007

AbstractObjectivesTo assess the relationship between first‐trimester uterine artery Doppler measurements and spontaneous preterm delivery.MethodsThis was a retrospective analysis of uterine artery Doppler findings at 11–14 weeks in 73 singleton pregnancies with spontaneous preterm labor and 2417 pregnancies delivered at term.ResultsThe uterine artery mean resistance index (RI) was 0.68 (coefficient of variation 19%) and 0.69 (17%) in the preterm and term delivery groups, respectively (P = 0.35). The mean pulsatility index (PI) was 1.42 (39%) and 1.42 (46%) in the term and preterm delivery groups, respectively (P = 0.95). Bilateral diastolic notches were present in 34% of preterm deliveries and 33% of controls (P = 0.84). Restricting the analysis to the 19 pregnancies with preterm delivery before 34 weeks of gestation, no significant difference from controls was observed for RI (mean 0.71, coefficient of variation 11%, P = 0.41), PI (mean 1.56, coefficient of variation 29%, P = 0.27) or the number of bilateral notches (42%, P = 0.41).ConclusionsDespite pathological evidence suggesting that defective placentation is associated with spontaneous preterm delivery, first trimester uterine artery resistance, as assessed by Doppler ultrasound investigation, is not different in pregnancies subsequently complicated by preterm labor compared to pregnancies delivered at term. This finding may be explained by a late failure of trophoblast development in cases destined to deliver preterm. Copyright © 2007 ISUOG. Published by John Wiley & Sons, Ltd.
Renal and Perinephric Abscesses: Analysis of 65 Consecutive Cases
Authors: Coelho Rafael Ferreira , Schneider‐Monteiro Edison D. , Mesquita José Luís Borges , Mazzucchi Eduardo , Marmo Lucon Antonio , Srougi Miguel 
Published: January 2007

AbstractObjectiveThe objective was to describe the last 10 years’ experience of the diagnosis and treatment of renal, perinephric, and mixed abscesses in an academic reference center.Patients and MethodsThe medical records of 65 patients with renal, perinephric, and mixed abscesses treated at our hospital from January 1992 to December 2002 were reviewed. The data collected included predisposing factors, symptoms, physical examination, initial diagnosis, laboratory and radiologic evaluation, treatment, and clinical outcome.ResultsPerinephric abscesses were found in 33 (50.8%) patients, renal abscesses were found in 16 (24.6%), and 16 (24.6%) had mixed abscesses. Urolithiasis (28%) and diabetes mellitus (28%) were the most common predisposing conditions. The duration of symptoms before hospital admission ranged from 2 to 180 days (mean 20 days). Urine culture was positive in 43% of patients and blood culture was positive in 40% of patients. Most of the perinephric abscesses received an interventional treatment: surgical drainage (24%), percutaneous drainage (42%) or nephrectomy (24%). Most patients were cured (73.3%) on discharge from hospital. Mixed (renal and perinephric) abscess treatment was similar: percutaneous drainage (37.5%), surgical drainage (18.75%) or nephrectomy (37.5%). Most patients were cured (60%) on discharge from hospital. Renal abscesses, however, were treated medically in 69% of patients and 73% were cured on discharge from hospital.ConclusionsPerinephric and mixed abscesses are successfully managed by interventional treatment. Renal abscesses can be managed by medical treatment only, reserving interventional treatment for large collections or patients with clinical impairment. Early diagnosis is an important factor in the outcome of renal and perinephric abscesses.
High Expression of Plasminogen Activator Inhibitor‐2 (PAI‐2) is a Predictor of Improved Survival in Patients with Pancreatic Adenocarcinoma
Authors: Smith Ross , Xue AiQun , Gill Anthony , Scarlett Christopher , Saxby Alexander , Clarkson Adele , Hugh Thomas 
Published: January 2007

AbstractObjectiveRecent findings suggest that the urokinase‐type plasminogen activator (uPA), its receptor (uPAR), plasminogen activator inhibitor‐1 (PAI‐1), and ‐2 (PAI‐2) play key roles in cancer invasion.Summary Background DataThe prognostic value of components of this system is well established in breast cancer. However, little is known of its involvement in pancreatic cancer (PC).MethodsQuantitative real‐time polymerase chain reaction (Q‐RT‐PCR) was used on tissue‐banked specimens and immunohistochemistry (IHC) on paraffin specimens was used to measure expression of uPA, uPAR, PAI‐1, and PAI‐2 proteins in 46 PC and 12 cystadenoma specimens. Results were related to survival using Cox’s proportional hazards testing.ResultsIncreased expression of uPA, uPAR, and PAI‐1 in PC tissue were independently associated with a higher Union Internationale Contre le Cancer [International Union Against Cancer (UICC)] tumor stage (P < 0.001) and were intercorrelated (P < 0.001). Overexpression of uPAR indicated reduced survival (P = 0.03). Conversely, PAI‐2 messenger ribonucleic acid (mRNA) overexpression, which occurred in 21 of 46 tumors, negatively correlated with tumor size (P = 0.008) and survival (P < 0.007) but not with uPA, uPAR, or tumor stage. There was good agreement between PAI‐2 mRNA value and IHC score (P < 0.001). Using Cox’s stepwise analysis, PAI‐2 mRNA value (HR = 0.24; P = 0.001) and UICC tumor stage (HR = 2.014; P = 0.001) independently predicted survival. An IHC score for PAI‐2 of 3+ or 4+ also independently predicted improved survival (HR = 2.72; P = 0.025).ConclusionsThe uPA/uPAR/PAI‐1 system is activated in advanced pancreatic cancer and may account for the tumor’s aggressive behavior, whereas PAI‐2 expression appears to be independent of uPA/uPAR/PAI‐1 and is associated with improved prognosis. Because of its intercorrelation with mRNA expression, PAI‐2 IHC may be used as an indicator of survival.
Assessment of Anal Sphincter Function by Sengstaken‐Blakemore Tube Anal Manometry
Authors: Günal Ömer , Gürleyik Emin , Arikan Yüksel , Pehlivan Mevlut 
Published: January 2007

AbstractBackgroundAnal manometry is a useful tool for testing the effectiveness of surgical treatment. However, most techniques for anal pressure measurement are not easily available because of high cost. The aim of the present study was to introduce an easy and reproducible method for measuring anal pressures in testing the effectiveness of surgical procedures.Materials and methodsWe used a Sengstaken‐Blakemore tube connected to a mercury manometer. After calibration of the system by inflating the distal (gastric) balloon and filling connection lines to the mercury manometer with 0.9% NaCl solution, resting and squeezing anal pressures were measured. The system was used on 50 human subjects (35 with anal fissure and 15 normal volunteers). Left lateral internal sphincterotomy had been performed in the anal fissure cases. Anal pressures were measured preoperatively and on postoperative days (POD) 2 and 20.ResultsPreoperative resting anal pressures in the group with anal fissure (83.4 ± 1 mmHg) were significantly higher than those in the group of normal individuals (52 ± 1.2 mmHg; p = 0.001). Resting anal pressures after the sphincterotomy (29 ± 1 mmHg) were found to be significantly lower on POD 2, and resting anal pressure measurements (47 ± 1 mmHg) on POD 20 were lower than the corresponding preoperative values. These values are closer to those of normal volunteers (p = 0.016).ConclusionsAnal manometry can be performed with this easily constructible and inexpensive system. This reproducible method can be used in the assessment of the results of surgical treatment in patients with anal and perianal diseases.
Recurrent Renal Hyperparathyroidism Caused by Parathyromatosis
Authors: Matsuoka Susumu , Tominaga Yoshihiro , Sato Tetsuhiko , Uno Nobuaki , Goto Norihiko , Katayama Akio , Uchida Kazuharu , Tsuzuki Toyonori 
Published: January 2007

AbstractBackgroundParathyromatosis is defined as multiple foci of benign hyperfunctioning parathyroid tissue in the neck or mediastinum. Parathyromatosis is a problematic cause of recurrent hyperparathyroidism (HPT). In renal HPT, the stimuli of the parathyroid cells persist after parathyroidectomy (PTx), and for this reason, parathyromatosis might be important in renal HPT.MethodsBetween July 1973 and December 2005, 1,932 patients underwent PTx for advanced renal HPT in our department. We evaluated the frequency, clinical findings and the prognosis of this kind of parathyroid disorder.ResultsAfter total PTx with forearm autograft for renal HPT, which was performed initially in our department, the risk for developing parathyromatosis was 0.11% (2/1837); after sub‐total PTx, it was 5% (1/20). The risk for developing parathyromatosis was lower after total PTx with forearm autograft than after sub‐total PTx (P < 0.05). In patients who developed persistent or recurrent HPT and were referred to our department for neck re‐operation, parathyromatosis occurred in 12.1% (7/58); in those originally operated on at our hospital, the corresponding figure was 7.1% (3/42). This difference was not significant (P = 0.42). Only in 4 of 10 patients was parathyromatosis suggested before re‐operation. However, in spite of several re‐operations, high parathyroid hormone (PTH) levels persisted in 6 of 10 patients with parathyromatosis.ConclusionParathyromatosis is a non‐negligible cause of recurrent renal HPT in patients who require neck re‐exploration. Parathyromatosis is difficult to diagnose pre‐operatively and completely controlled by re‐operation. Parathyromatosis should be kept in mind when performing neck re‐exploration for recurrent renal HPT.
Special Anoscope for Easy Purse‐string Suture Application in Stapled Hemorrhoidopexy
Authors: Bozdag Ali Dogan , Nazli Okay , Tansug Tugrul , Derici Hayrullah , Deniz Vedat 
Published: January 2007

AbstractBackgroundInternal hemorrhoids and loose rectal mucosa may block exposure during the purse‐string suturing in stapled hemorrhoidopexy, and this may lead to complications.Materials and methodsTo retract the prolapsing rectal mucosa, we modified the purse‐string anoscope of the PPH01 kit (Ethicon‐Endosurgery, Cincinnati, OH, USA) and produced a special anoscope. The open part of the purse‐string suture anoscope is covered by transparent acrylic (Orthoacryl®, Dentaurum, Pforzheim, Germany). The covering had completely cylindrical outer and inner surfaces and was thin enough to let the anoscope easily rotate in the anal dilator and to let the 26 mm curved, round‐bodied needle of the 2/0 polypropylene suture move in the anoscope. A window, 3 cm long and 3–4 mm wide, was opened at the angled part of the anoscope 2 cm to the tip. This special anoscope was used for the purse‐string suture during the stapled hemorrhoidopexy procedure in five patients.Results and conclusionsNo postoperative complications, early or late, were encountered, and we propose that stapled hemorrhoidopexy procedure can be applied more easily by using this special anoscope.
Positron Emission Tomography in Relation to Noguchi’s Classification for Diagnosis of Peripheral Non‐Small‐Cell Lung Cancer 2 cm or Less in Size
Authors: Tsunezuka Y. , Shimizu Y. , Tanaka N. , Takayanagi T. , Kawano M. 
Published: January 2007

AbstractBackgroundF‐18 fluorodeoxyglucose positron emission tomography (18F‐FDG‐PET) scanning has become a critically important tool in diagnosis and management of non‐small‐cell lung cancer. However, the effectiveness of 18F‐FDG‐PET as a diagnostic tool for small‐sized lung cancer is controversial. The purpose of this study was to examine the accuracy of18F‐FDG‐PET in relation to Noguchi’s classification in the diagnosis of small peripheral non‐small‐cell lung cancer.MethodsBetween January 2003 and April 2006, 150 patients with peripheral lung lesions who were undergoing chest computed tomography (CT),18F‐FDG‐PET, and operation were analyzed.ResultsEighty‐three patients had malignant lesions, and 67 patients had benign lesions. PET had a sensitivity, specificity, positive predictive value, and negative predictive value of 75.9%, 64.1%, 72.4%, and 68.3%, respectively. In 37 patients with peripheral lung cancer measuring 2.0 cm or less in the greatest diameter, the sensitivity was 51.4% and the specificity was 51.9%. Among them, all 4 cases of Noguchi type A adenocarcinoma [localized bronchioloalveolar carcinoma (LBAC)], 4 of 5 type B and 8 of 17 type C were false negative, while 9 of 11 (81.8%) types D, E, and F (invasive carcinomas without a BAC component) were true positive.ConclusionThe accuracy of18F‐FDG‐PET is generally low in distinguishing malignancy from benign lesions in small lesions (<2.0‐cm diameter). The significance of PET as a diagnostic tool is small, especially when the tumor has a ground‐glass component at a high rate. The sensitivity of PET is high in small invasive carcinomas without a BAC component, but it is difficult to distinguish carcinoma from benign tumor from its image.
Lymph Node Ratio is More Valuable than Level III Involvement for Prediction of Outcome in Node‐Positive Breast Carcinoma Patients
Authors: Yildirim Emin , Berberoglu Ugur 
Published: January 2007

AbstractBackgroundWe examined the relationship between different expressions of positive axillary lymph nodes (PN) and the outcomes of node‐positive breast carcinoma patients to determine the best predictor(s) among these expressions and to assess whether anatomic high level involvement is an independent prognostic factor.Study DesignIn this retrospective study, the primary endpoints were distant recurrence (DR), locoregional recurrences (LRR), and disease‐free survival (DFS). Univariate and multivariate prognostic factor analyses were carried out using survival and regression methods in the data of 704 patients with PN.ResultsIn multivariate analysis, the number of PN, ratio of PN, log odds of PN, and level III (L‐III) involvement, separately, were significant factors for DR in addition to age, tumor size, and lymphovascular invasion (LVI). In the final model including all expressions of nodal involvement, age (continuousP= 0.001; hazard ratio [HR]: 0.98; 95% confidence Interval [95% CI]: 0.96–0.99), tumor size (continuous:P< 0.0001; HR: 1.3; 95% CI, 1.2–1.5), LVI (yes vs. no:P= 0.005; HR: 1.6; 95% CI, 1.2–2.2), and ratio of PN (continuous:P= 0.02; HR: 1.03; 95% CI, 1.01–1.06) were the independent prognostic factors for DR. For LRR, ratio of PN (continuous:P= 0.001; HR: 1.02; 95% CI, 1.01–1.03) was the most important factor in addition to age (continuous:P= 0.02; HR: 0.98; 95% CI, 0.97–0.99) and tumor size (continuous:P= 0.04; HR: 1.3; 95% CI, 1.1–1.6). When patients were stratified by number categories of PN (1–3 vs. 4–9 vs. ≥ 10), there was no difference between DFSs of patients with and without L‐III involvement. In contrast, when patients were stratified by L‐III involvement, DFSs according to the number categories were statistically different.ConclusionsRatio of PN was more valuable than number of PN for predicting outcome in node‐positive breast carcinoma patients. Level III involvement was not an independent prognostic indicator either for locoregional or for distant recurrences.