bluuebunny/crossref_metadata_2025_split huggingface dataset:
Performance of the Vaisala RS80A/H and RS90 Humicap Sensors and the Meteolabor “Snow White” Chilled-Mirror Hygrometer in Paramaribo, Suriname
Authors: Verver Gé , Fujiwara Masatomo , Dolmans Pier , Becker Cor , Fortuin Paul , Miloshevich Larry 
Published: November 2006

Abstract
In climate research there is a strong need for accurate observations of water vapor in the upper atmosphere. Radiosoundings provide relative humidity profiles but the accuracy of many routine instruments is notoriously inadequate in the cold upper troposphere. In this study results from a soundings program executed in Paramaribo, Suriname (5.8°N, 55.2°W), are presented. The aim of this program was to compare the performance of different humidity sensors in the upper troposphere in the Tropics and to test different bias corrections suggested in the literature. The payload of each sounding consisted of a chilled-mirror “Snow White” sensor from Meteolabor AG, which was used as a reference, and two additional sensors from Vaisala, that is, either the RS80A, the RS80H, or the RS90. In total 37 separate soundings were made.
For the RS80A a clear, dry bias of between −4% and −8% RH is found in the lower troposphere compared to the Snow White observation, confirming the findings in previous studies. A mean dry bias was found in the upper troposphere, which could be effectively corrected. The RS80H sensor shows a significant wet bias of 2%–5% in RH in the middle and upper troposphere, which has not been reported before. Comparing observations with RS80H sensors of different ages gives no indication of sensor aging or sensor contamination. It is therefore concluded that the plastic cover introduced by Vaisala to avoid sensor contamination is effective. Finally, the RS90 sensor yields a small but significant wet bias of 2%–3% below 7-km altitude.
The time-lag error correction from Miloshevich et al. was applied to the Vaisala data, which resulted in an increased variability in the relative humidity profile above 9- (RS80A), 8- (RS80H), and 11-km (RS90) altitude, respectively, which is in better agreement with the Snow White data.
The averaged Snow White profile is compared with the average profiles of relative humidity from the European Centre for Medium-Range Weather Forecasts (ECMWF). No significant bias is found in either the analyses or the forecasts. The correlation coefficient for the Snow White and ECMWF data between 200 and 800 hPa was 0.66 for the 36-h forecast and 0.77 for the analysis.
Evaluation of Radar Rainfall Products: Lessons Learned from the NASA TRMM Validation Program in Florida
Authors: Amitai Eyal , Marks David A. , Wolff David B. , Silberstein David S. , Fisher Brad L. , Pippitt Jason L. 
Published: November 2006

Abstract
Evaluation of the Tropical Rainfall Measuring Mission (TRMM) satellite observations is conducted through a comprehensive ground validation (GV) program. Since the launch of TRMM in late 1997, standardized instantaneous and monthly rainfall products are routinely generated using quality-controlled ground-based radar data adjusted to the gauge accumulations from four primary sites. As part of the NASA TRMM GV program, effort is being made to evaluate these GV products. This paper describes the product evaluation effort for the Melbourne, Florida, site. This effort allows us to evaluate the radar rainfall estimates, to improve the algorithms in order to develop better GV products for comparison with the satellite products, and to recognize the major limiting factors in evaluating the estimates that reflect current limitations in radar rainfall estimation. Lessons learned and suggested improvements from this 8-yr mission are summarized in the context of improving planning for future precipitation missions, for example, the Global Precipitation Measurement (GPM).
Integrated siRNA design based on surveying of features associated with high RNAi effectiveness
Authors: Gong Wuming , Ren Yongliang , Xu Qiqi , Wang Yejun , Lin Dong , Zhou Haiyan , Li Tongbin 
Published: November 2006

AbstractBackgroundShort interfering RNAs have allowed the development of clean and easily regulated methods for disruption of gene expression. However, while these methods continue to grow in popularity, designing effective siRNA experiments can be challenging. The various existing siRNA design guidelines suffer from two problems: they differ considerably from each other, and they produce high levels of false-positive predictions when tested on data of independent origins.ResultsUsing a distinctly large set of siRNA efficacy data assembled from a vast diversity of origins (thesiRecordsdata, containing records of 3,277 siRNA experiments targeting 1,518 genes, derived from 1,417 independent studies), we conducted extensive analyses of all known features that have been implicated in increasing RNAi effectiveness. A number of features having positive impacts on siRNA efficacy were identified. By performing quantitative analyses on cooperative effects among these features, then applying adisjunctive rule merging(DRM) algorithm, we developed a bundle of siRNA design rule sets with the false positive problem well curbed. A comparison with 15 online siRNA design tools indicated that some of the rule sets we developed surpassed all of these design tools commonly used in siRNA design practice in positive predictive values (PPVs).ConclusionThe availability of the large and diverse siRNA dataset fromsiRecordsand the approach we describe in this report have allowed the development of highly effective and generally applicable siRNA design rule sets. Together with ever improving RNAi lab techniques, these design rule sets are expected to make siRNAs a more useful tool for molecular genetics, functional genomics, and drug discovery studies.
Novel mutation of the PRNPgene of a clinical CJD case
Authors: Kotta Konstantia , Paspaltsis Ioannis , Bostantjopoulou Sevasti , Latsoudis Helen , Plaitakis Andreas , Kazis Dimitrios , Collinge John , Sklaviadis Theodoros 
Published: November 2006

Abstract

Background
Transmissible spongiform encephalopathies (TSEs), a group of neurodegenerative diseases, are thought to be caused by an abnormal isoform of a naturally occurring protein known as cellular prion protein, PrPC. The abnormal form of prion protein, PrPSc accumulates in the brain of affected individuals. Both isoforms are encoded by the same prion protein gene (PRNP), and the structural changes occur post-translationally. Certain mutations in the PRNP gene result in genetic TSEs or increased susceptibility to TSEs.

Case presentation
A 70 year old woman was admitted to the hospital with severe confusion and inability to walk. Relatives recognized memory loss, gait and behavioral disturbances over a six month period prior to hospitalization. Neurological examination revealed Creutzfeldt-Jakob disease (CJD) related symptoms such as incontinence, Babinski sign and myoclonus. EEG showed periodic sharp waves typical of sporadic CJD and cerebrospinal fluid analysis (CSF) was positive for the presence of the 14-3-3-protein. As the disease progressed the patient developed akinetic mutism and died in the tenth month after onset of the disease symptoms. Unfortunately, no autopsy material was available. PRNP sequencing showed the occurrence of a point mutation on one allele at codon 193, which is altered from ACC, coding for a threonine, to ATC, encoding an isoleucine (T193I).

Conclusion
Here we report a novel mutation of the PRNP gene found in an elderly female patient resulting in heterozygosity for isoleucine and threonine at codon 193, in which normally homozygosity for threonine is expected (T193). The patient presented typical clinical symptoms of CJD. EEG findings and the presence of the 14-3-3 protein in the CSF, contributed to CJD diagnosis, allowing the classification of this case as a probable CJD according to the World Health Organization (WHO) accepted criteria.
Novel self-epitopes derived from aggrecan, fibrillin, and matrix metalloproteinase-3 drive distinct autoreactive T-cell responses in juvenile idiopathic arthritis and in health
Authors: Kamphuis Sylvia , Hrafnkelsdóttir Kolbrún , Klein Mark R , de Jager Wilco , Haverkamp Margje H , van Bilsen Jolanda HM , Albani Salvatore , Kuis Wietse , Wauben Marca HM , Prakken Berent J 
Published: November 2006

AbstractJuvenile idiopathic arthritis (JIA) is a heterogeneous autoimmune disease characterized by chronic joint inflammation. Knowing which antigens drive the autoreactive T-cell response in JIA is crucial for the understanding of disease pathogenesis and additionally may provide targets for antigen-specific immune therapy. In this study, we tested 9 self-peptides derived from joint-related autoantigens for T-cell recognition (T-cell proliferative responses and cytokine production) in 36 JIA patients and 15 healthy controls. Positive T-cell proliferative responses (stimulation index ≥2) to one or more peptides were detected in peripheral blood mononuclear cells (PBMC) of 69% of JIA patients irrespective of major histocompatibility complex (MHC) genotype. The peptides derived from aggrecan, fibrillin, and matrix metalloproteinase (MMP)-3 yielded the highest frequency of T-cell proliferative responses in JIA patients. In both the oligoarticular and polyarticular subtypes of JIA, the aggrecan peptide induced T-cell proliferative responses that were inversely related with disease duration. The fibrillin peptide, to our knowledge, is the first identified autoantigen that is primarily recognized in polyarticular JIA patients. Finally, the epitope derived from MMP-3 elicited immune responses in both subtypes of JIA and in healthy controls. Cytokine production in short-term peptide-specific T-cell lines revealed production of interferon-γ (aggrecan/MMP-3) and interleukin (IL)-17 (aggrecan) and inhibition of IL-10 production (aggrecan). Here, we have identified a triplet of self-epitopes, each with distinct patterns of T-cell recognition in JIA patients. Additional experiments need to be performed to explore their qualities and role in disease pathogenesis in further detail.
Early changes of CD4-positive lymphocytes and NK cells in patients with severe Gram-negative sepsis
Authors: Giamarellos-Bourboulis Evangelos J , Tsaganos Thomas , Spyridaki Ekaterini , Mouktaroudi Maria , Plachouras Diamantis , Vaki Ilia , Karagianni Vassiliki , Antonopoulou Anastasia , Veloni Vassiliki , Giamarellou Helen 
Published: November 2006

Abstract
Introduction
Our aim was to define early changes of lymphocytes and of NK cells in severe sepsis and to correlate them with serum levels of soluble triggering receptor expressed on myeloid cells-1 (sTREM-1).

Methods
Blood was sampled from 49 patients with proven highly suspected infection by Gram-negative pathogens, within 12 hours of the advent of severe sepsis, and was also sampled from six healthy volunteers. White blood cells were targeted with monoclonal antibodies and were analyzed by flow cytometry. The concentrations of sTREM-1 were estimated by ELISA.

Results
The presence of CD3/CD4 cells was significantly lower (P < 0.0001) and that of NK cells significantly higher among patients with sepsis compared with controls (P = 0.011). The proportions (median ± standard error) of ANNEXIN-V/CD4/CD3-positive cells, of ANNEXIN-V/CD8/CD3-positive cells and of ANNEXIN-V/CD14-positive cells of the patient population were 7.41 ± 2.26%, 7.69 ± 3.42% and 1.96 ± 4.22%, respectively. Patients with NK cells >20% survived longer compared with those patients with NK cells ≤20% (P = 0.041), and patients with sTREM-1 concentrations >180 pg/ml survived longer compared with those patients with sTREM-1 concentrations ≤180 pg/ml (P = 0.042). A negative correlation was found between the percentages of ANNEXIN-V/CD4/CD3-positive cells and of CD3/CD4 cells (rs = -0.305, P = 0.049), and a positive correlation was found between the serum sTREM-1 concentration and the percentage of NK cells (rs = +0.395, P = 0.014). NK cells isolated from two healthy volunteers released sTREM-1 upon triggering with endotoxins.

Conclusion
Early severe sepsis is characterized by CD4-lymphopenia and increased NK cells, providing a survival benefit for the septic patient at percentages >20%. The survival benefit resulting from elevated NK cells might be connected to elevated serum levels of sTREM-1.
Cofilin plays a critical role in IL-8-dependent chemotaxis of neutrophilic HL-60 cells through changes in phosphorylation
Authors: Hirayama Akiko , Adachi Reiko , Otani Saki , Kasahara Tadashi , Suzuki Kazuhiro 
Published: November 2006

AbstractCofilin is a ubiquitous, actin-binding protein. Only unphosphorylated cofilin binds actin and severs or depolymerizes filamentous actin (F-actin), and the inactive form of cofilin is phosphorylated at Ser 3. We reported recently that cofilin plays a regulatory role in superoxide production and phagocytosis by leukocytes, and in the present study, we investigated the role of cofilin in the chemotaxis of neutrophilic HL-60 cells. IL-8 is a potent, physiological chemokine, and it triggers a rapid, transient increase in F-actin beneath the plasma membrane and rapid dephosphorylation and subsequent rephosphorylation of cofilin. In this study, cofilin phosphorylation was found to be inhibited by S3-R peptide, which consists of a peptide corresponding to part of the phosphorylation site of cofilin and a membrane-permeable arginine polymer. When S3-R peptide was introduced into the neutrophilic cells, their chemotactic activity was enhanced, whereas a control peptide that contained an inverted sequence of the phosphorylation site of cofilin had no enhancing effect. Cofilin small interfering RNA (siRNA) decreased cofilin expression by about half and inhibited chemotaxis. In IL-8-stimulated cells, unphosphorylated cofilin accumulated around F-actin, and colocalization of F-actin and phosphorylated cofilin was observed, but these changes in cofilin localization were less prominent in cofilin siRNA-treated cells. The inhibitors of PI-3K wortmannin and LY294002 inhibited the chemotaxis and suppressed IL-8-evoked dephosphorylation and rephosphorylation of cofilin. These results suggested that unphosphorylated cofilin plays a critical role in leukocyte chemotaxis and that PI-3K is involved in the control of the phosphorylation/dephosphorylation cycle of cofilin.
Two-dimensional lubrication analysis and design optimization of a Scotch Yoke engine linear bearing
Authors: Wang X , Subic A , Watson H 
Published: November 2006

Recent study has shown that the application of a Scotch Yoke crank mechanism to a reciprocating internal combustion engine reduces the engine's size and weight and generates sinusoidal piston motion that allows for complete balance of the engine. This paper describes detailed investigation of the performance of a linear bearing assembly, which is one of the key components of the Scotch Yoke mechanism. The investigation starts by solving Reynolds equation for the Scotch Yoke linear bearing. The two-dimensional lubricant flow is numerically simulated and the calculated results are compared with experimental results from a linear bearing test rig. The performance characteristics and a design sensitivity analysis of the bearing are presented. Dynamic testing and analysis of an instrumented linear bearing on a test rig are used to validate the numerical simulation model. The oil supply and lubrication mechanism in the linear bearing are analysed and described in detail. This work aims to provide new insights into Scotch Yoke linear bearing design. In addition, strategies for optimization of the linear bearing are discussed.
Candidate Gene Genotypes, Along with Conventional Risk Factor Assessment, Improve Estimation of Coronary Heart Disease Risk in Healthy UK Men
Authors: Humphries Steve E , Cooper Jackie A , Talmud Philippa J , Miller George J 
Published: November 2006

Abstract
Background: One of the aims of cardiovascular genetics is to test the efficacy of the use of genetic information to predict cardiovascular risk. We therefore investigated whether inclusion of a set of common variants in candidate genes along with conventional risk factor (CRF) assessment enhanced coronary heart disease (CHD)-risk algorithms.
Methods: We followed middle-aged men in the prospective Northwick Park Heart Study II (NPHSII) for 10.8 years and analyzed complete trait and genotype information available on 2057 men (183 CHD events).
Results: Of the 12 genes previously associated with CHD risk, in stepwise multivariate risk analysis, uncoupling protein 2 (UCP2; P = 0.0001), apolipoprotein E (APOE; P = 0.0003), lipoprotein lipase (LPL; P = 0.007), and apolipoprotein AIV (APOA4; P = 0.04) remained in the model. Their combined area under the ROC curve (AROC) was 0.62 (0.58–0.66) [12.6% detection rate for a 5% false positive rate (DR5)]. The AROC for the CRFs age, triglyceride, cholesterol, systolic blood pressure, and smoking was 0.66 (0.61–0.70) (DR5 = 14.2%). Combining CRFs and genotypes significantly improved discrimination (P = 0.001). Inclusion of previously demonstrated interactions of smoking with LPL, interleukin-6 (IL6), and platelet/endothelial cell adhesion molecule (PECAM1) genotypes increased the AROC to 0.72 (0.68–0.76) for a DR5 of 19.1% (P = 0.01 vs CRF combined with genotypes).
Conclusions: For a modest panel of selected genotypes, CHD-risk estimates incorporating CRFs and genotype–risk factor interactions were more effective than risk estimates that used CRFs alone.
Introduction to the special issue: Media use and selectivity
Authors: Bilandzic Helena , Krotz Friedrich , Rössler Patrick 
Published: November 2006

Abstract
An expanding media universe confronts readers, viewers, and users with an abundance of media content that, for the most part, will not be used by the audience, and will, in many cases, not even be considered for use. Selecting what to use and not to use is functional in avoiding information overload (Carlson, 2003) or ‘technostress’ (Rosen and Weil, 1997), but, at the same time, necessary to make use of the media environment. The selection of media initiates gratifications, serves particular functions, enables certain effects, all depending on the perspective. Media use and selectivity constitute a field of remarkable tradition in communication research. The question how individuals deal with media and why they use certain media content has been in the focus of communication research from the very beginning of empirical media research; since Lazarsfeld and his colleagues conducted their radio research projects (Lazarsfeld and Stanton, 1944), which included Herzog's (1944) widely cited study on daytime serial listeners. Thinking about media use reached a first prime with the emergence of Uses and Gratifications approaches; an abundance of studies about ‘what people do with the media’ have been published during the golden years of Uses and Gratifications in the 1970s and 1980s. Bryant and Miron (2004) identified Uses and Gratifications – along with Agenda Setting – as the approach most frequently used in three communication journals from 1956 through 2000.
Explaining and analyzing audiences: A social cognitive approach to selectivity and media use
Authors: Peters Oscar , Rickes Matthias , Jöckel Sven , Criegern Christian von , Deursen Alexander van 
Published: November 2006

Abstract
This study explored LaRose and Eastin's (2004) model of media attendance, within a European context. It extended the uses and gratifications (U and G) paradigm within the framework of social cognitive theory (SCT) by instituting new operational measures of gratifications sought, reconstructed as outcome expectations. Although the model of media attendance offers some promising steps forward in measuring media selectivity and usage, and to some extent is applicable to another context of media use, the relative importance of outcome expectancies in explaining media usage and selectivity is not fully supported.
The gender news use divide: Impacts of sex, gender, self-esteem, achievement, and affiliation motive on German newsreaders' exposure to news topics
Authors: Knobloch-Westerwick Silvia , Brück Julia , Hastall Matthias R 
Published: November 2006

Abstract
To examine the psychological origins of sex-typed news preferences, an online newsmagazine was presented to 246 German participants in a quasi-experimental design. The presented articles featured equal portions of social/interpersonal and achievement/performance topics. Newsreaders' selective news exposure was unobtrusively logged. Results show that, even when various intervening factors are eliminated, women read more about social/interpersonal topics than men did, and men spent more time on achievement/performance-related news than women. Newsreaders' self-esteem and gender role orientation influenced the preference of news content. This contribution will also discuss the effects of sex-typed news exposure.
The relevance of attention for selecting news content. An eye-tracking study on attention patterns in the reception of print and online media
Authors: Bucher Hans-Jürgen , Schumacher Peter 
Published: November 2006

Abstract
This article argues that a theory of media selectivity needs a theory of attention, because attention to a media stimulus is the starting point of each process of reception. Attention sequences towards media stimuli – pages of newspapers and online-newspapers – were analyzed using eye-tracking patterns from three different perspectives. First, attention patterns were compared under varying task conditions. Second, different types of media were tested. Third, attention sequences towards different forms of news with different design patterns were compared. Attention was seen as a prerequisite for reception: Its selective functions for these processes are especially important. Reception itself was examined within an action-theoretical framework and therefore described as a form of interaction between recipient and the media. Eye-tracking data were used as indicators of attention. Starting with a hypothesis on the impact of different media such as printed newspapers and online newspapers on the agenda-setting process of their audience, the study examined how the type of media and the form of news influences attention and selectivity. Our findings showed that visual cues such as salient photos or graphics and information hierarchies signalled by design and layout guide attention processes, not as an automatic process driven from the bottom up, but as stimuli for an active, intention-driven selection process. The results indicate that the form of news affects these patterns of interactive attention more than the medium itself.