bluuebunny/crossref_metadata_2025_split huggingface dataset:
A comparability study of 5 commercial KRAS tests
Authors: Oliner Kelly , Juan Todd , Suggs Sid , Wolf Michael , Sarosi Ildiko , Freeman Daniel J , Gyuris Tibor , Baron Will , Bakker Andreas , Parker Alex , Patterson Scott D 
Published: April 2010

Abstract

Background
Activating mutations in the KRAS gene occur frequently in human tumors, including colorectal carcinomas; most mutations occur in codons 12 and 13. Mutations in KRAS have been associated with poor response to anti-epidermal growth factor receptor antibodies. Therefore, an accurate and readily available analysis of KRAS mutational status is needed. The aim of this study was to evaluate concordance between KRAS assays performed by 6 different laboratories.

Methods
Forty formalin-fixed paraffin-embedded colorectal cancer tumor samples were obtained. Sample sections were submitted for KRAS mutation analysis to 5 independent commercial laboratories (Agencourt, Gentris, Genzyme, HistoGeneX, and Invitek) and to the Amgen DNA Sequencing Laboratory for direct polymerase chain reaction sequencing. The assay used by Invitek is no longer commercially available and has been replaced by an alternative technique. Results from the commercial services were compared with those from Amgen direct sequencing by κ statistics.

Results

KRAS mutations were observed in codon 12 and/or 13 in 20 of 40 (50%) samples in Amgen direct sequencing assays. Results from HistoGeneX (κ = 0.95), Genzyme (κ = 0.94), and Agencourt (κ = 0.94) were in almost perfect agreement with these results, and the results from Gentris were in substantial agreement with the results from Amgen (κ = 0.75). The Invitek allele-specific assay demonstrated slight agreement (κ = 0.13).

Conclusions
This study provides data on the comparability of KRAS mutational analyses. The results suggest that most (but not all) commercial services provide analysis that is accurate and comparable with direct sequencing.
Cancer risks of dermatomyositis and polymyositis: a nationwide cohort study in Taiwan
Authors: Chen Yi-Ju , Wu Chun-Ying , Huang Yu-Lin , Wang Chang-Bi , Shen Jui-Lung , Chang Yun-Ting 
Published: April 2010

Abstract
Introduction
The association of idiopathic inflammatory myositis (IIM) and malignancies has been reported, but rarely in Asian countries. Our aim was to investigate the risk of cancer among IIM patients without a prior history of malignancies, in Taiwan.

Methods
We conducted a nationwide cohort study of 1,012 patients with dermatomyositis (DM) and 643 patients with polymyositis (PM), but without prior history of malignancies, utilizing the National Health Insurance Database from 1997 to 2007. Standardized incidence ratios (SIRs) of cancers were analyzed.

Results
A total of 95 cancers (9.4%) in DM and 33 cancers (4.4%) in PM were identified. Overall cancer risk was significantly elevated in DM patients (SIR = 5.11, 95% confidence interval [CI] = 5.01 to 5.22) and PM patients (SIR = 2.15, 95% CI = 2.08 to 2.22). Most cancers were detected in the first year of observation. The risk of cancer decreased with observation time, yet remained elevated compared with the general population in both study groups after 5 years of follow-up. DM was associated with sustained elevated risk of cancers in every age group, whereas the risk of cancer in PM was highest in younger patients and decreased with age. DM patients were at the greatest risk of cancers of the nasopharynx, lungs and hematopoietic malignancies.

Conclusions
Patients with IIM are at increased risk for cancer and should receive age-appropriate and gender-appropriate malignancy evaluations, with additional assessment for nasopharyngeal, lung and hematologic malignancy following diagnosis, and with continued vigilance for development of cancers in follow-up.
Frequency tuning and intensity coding of sound in the auditory periphery of the lake sturgeon, Acipenser fulvescens
Authors: Meyer Michaela , Fay Richard R. , Popper Arthur N. 
Published: April 2010

SUMMARY
Acipenser fulvescens, the lake sturgeon, belongs to one of the few extant non-teleost ray-finned (bony) fishes. The sturgeons (family Acipenseridae) have a phylogenetic history that dates back about 250 million years. The study reported here is the first investigation of peripheral coding strategies for spectral analysis in the auditory system in a non-teleost bony fish. We used a shaker system to simulate the particle motion component of sound during electrophysiological recordings of isolated single units from the eighth nerve innervating the saccule and lagena. Background activity and response characteristics of saccular and lagenar afferents (such as thresholds, response–level functions and temporal firing) resembled the ones found in teleosts. The distribution of best frequencies also resembled data in teleosts (except for Carassius auratus, goldfish) tested with the same stimulation method. The saccule and lagena in A. fulvescens contain otoconia, in contrast to the solid otoliths found in teleosts, however, this difference in otolith structure did not appear to affect threshold, frequency tuning, intensity- or temporal responses of auditory afferents. In general, the physiological characteristics common to A. fulvescens, teleosts and land vertebrates reflect important functions of the auditory system that may have been conserved throughout the evolution of vertebrates.
Sonation in the male common snipe (Capella gallinago gallinagoL.) is achieved by a flag-like fluttering of their tail feathers and consequent vortex shedding
Authors: van Casteren A. , Codd J. R. , Gardiner J. D. , McGhie H. , Ennos A. R. 
Published: April 2010

SUMMARYMale common snipe (Capella gallinago gallinago) produce a ‘drumming’ sound with their outer tail feathers during their mating dives, but little is known about how this is achieved. We investigated the movements and sound producing capabilities of the outer tail feathers. Using a wind tunnel, we compared observations of the frequencies of sound produced with the predictions from aerodynamic theory. The feathers were also filmed in an air-flow with a high speed video camera, and subjected to morphological examination and biomechanical testing. We propose a mechanistic hypothesis of how the modified outer feathers of the male common snipe generate sound, and the adaptations that facilitate this. Video and audio analysis of the feather demonstrated that a fluttering of the trailing vane generated the sound. The flutter of the vane is facilitated by the rearward curvature of the feather shaft, reduced branching angles of the barbs in the trailing vane and the lack of hooks on the barbs along a hinge region, all of which increase its flexural compliance. Sound production occurred at the same frequency as the vane movements, at frequencies consistent with it being produced by a fluttering flag mechanism powered by vortex shedding.
The functional morphology of hooding in cobras
Authors: Young Bruce A. , Kardong Kenneth V. 
Published: April 2010

SUMMARYMany snakes, particularly cobras, form as part of a defensive display, a hood, an active lateral expansion of their neck skin and underlying musculature and ribs. We identified muscle groups possibly involved in hooding based on their attachments on the specialized ribs of the neck. We then used a combination of morphology, kinematic analysis, morphometrics, electromyography and muscle stimulation to test hypotheses about the functional basis of hooding. We confirmed that hood protraction and erection is an active process that begins cranially and extends caudally, often in stages, through the combined action of several sets of muscles. One set of axial muscles (levator costae and supracostalis lateralis superior) coursing along a line of action to rib displacement are the prime erectors acting to lift the hood. However, a second set of muscles connecting ribs to skin primarily keep the skin taut, rather than to displace the ribs relative to the vertebrae. A third set of muscles coursing between ribs function primarily to transmit forces between adjacent ribs rather than to move ribs. The maintenance of the erect hood requires continued muscle activity. Hood relaxation is due to both active muscle contraction of a fourth set of axial muscles and to passive recoil events in the costovertebral ligaments. The shape of the fully erect hood is reflective of the morphometrics of the underlying ribs, while the duration and kinematics of hood erection and relaxation are related to the behavioral context of the display.
Chitosan produces potent neuroprotection and physiological recovery following traumatic spinal cord injury
Authors: Cho Youngnam , Shi Riyi , Borgens Richard B. 
Published: April 2010

SUMMARYChitosan, a non-toxic biodegradable polycationic polymer with low immunogenicity, has been extensively investigated in various biomedical applications. In this work, chitosan has been demonstrated to seal compromised nerve cell membranes thus serving as a potent neuroprotector following acute spinal cord trauma. Topical application of chitosan after complete transection or compression of the guinea pig spinal cord facilitated sealing of neuronal membranes in ex vivo tests, and restored the conduction of nerve impulses through the length of spinal cords in vivo, using somatosensory evoked potential recordings. Moreover, chitosan preferentially targeted damaged tissues, served as a suppressor of reactive oxygen species (free radical) generation, and the resultant lipid peroxidation of membranes, as shown in ex vivo spinal cord samples. These findings suggest a novel medical approach to reduce the catastrophic loss of behavior after acute spinal cord and brain injury.
Aversiveness of sounds in phocid seals: psycho-physiological factors, learning processes and motivation
Authors: Götz Thomas , Janik Vincent M. 
Published: April 2010

SUMMARYAversiveness of sounds and its underlying physiological mechanisms in mammals are poorly understood. In this study we tested the influence of psychophysical parameters, motivation and learning processes on the aversiveness of anthropogenic underwater noise in phocid seals (Halichoerus grypus and Phoca vitulina). We compared behavioural responses of seals to playbacks of sounds based on a model of sensory unpleasantness for humans, sounds from acoustic deterrent devices and sounds with assumed neutral properties in different contexts of food motivation. In a captive experiment with food presentation, seals habituated quickly to all sound types presented at normalised received levels of 146 dB re. 1 μPa (r.m.s., root mean square). However, the fast habituation of avoidance behaviour was also accompanied by a weak sensitisation process affecting dive times and place preference in the pool. Experiments in the wild testing animals without food presentation revealed differential responses of seals to different sound types. We observed avoidance behaviour at received levels of 135–144 dB re. 1 μPa (sensation levels of 59–79 dB). In this experiment, sounds maximised for ‘roughness’ perceived as unpleasant by humans also caused the strongest avoidance responses in seals, suggesting that sensory pleasantness may be the result of auditory processing that is not restricted to humans. Our results highlight the importance of considering the effects of acoustic parameters other than the received level as well as animal motivation and previous experience when assessing the impacts of anthropogenic noise on animals.
Variation in the seasonal patterns of innate and adaptive immunity in the red-eared slider (Trachemys scripta)
Authors: Zimmerman Laura M. , Paitz Ryan T. , Vogel Laura A. , Bowden Rachel M. 
Published: April 2010

SUMMARYThe primary function of the immune system is to protect the organism from invading pathogens. In vertebrates, this has resulted in a multifaceted system comprised of both innate and adaptive components. The immune system of all jawed vertebrates is complex, but unlike the endothermic vertebrates, relatively little is known about the functioning of the ectothermic vertebrate immune system, especially the reptilian system. Because turtles are long-lived ectotherms, factors such as temperature and age may affect their immune response, but comprehensive studies are lacking. We investigated variation in immune responses of adult male and female red-eared sliders (Trachemys scripta) across the entire active season. We characterized seasonal variation in innate, cell-mediated and humoral components via bactericidal capacity of plasma, delayed-type hypersensitivity and total immunoglobulin levels, respectively. Results indicate that all immune measures varied significantly across the active season, but each measure had a different pattern of variation. Interestingly, temperature alone does not explain the observed seasonal variation. Immune measures did not vary between males and females, but immunoglobulin levels did vary with age. This study demonstrates the highly dynamic nature of the reptilian immune system, and provides information on how biotic and abiotic factors influence the immune system of a long-lived ectotherm.
Frequency coding of particle motion by saccular afferents of a teleost fish
Authors: Lu Zhongmin , Xu Zemin , Buchser William J. 
Published: April 2010

SUMMARYThe saccule is known to play an important role in hearing in fishes. In this study we investigated spatial frequency selectivity of single saccular afferents in a teleost fish (the sleeper goby, Dormitator latifrons) to acoustic particle motion at 50–400 Hz. Saccular afferents have similar distributions of best sensitivity (−90.0 to −54.8 dB re. 1 g, mean ± s.d.=−81.1±8.0 dB) and characteristic frequencies (≤50–400 Hz, median=80 Hz) along the longitudinal, side-to-side and dorsoventral axes of fish. They were lowpass, bandpass or broadly tuned to low frequencies with Q50% at 15 dB above threshold in ranges from 0.28 to 3.30 (1.46±0.71), 0.18 to 2.54 (1.36±0.78), and 0.41 to 4.26 (2.25±0.1.12) along the three axes, showing slightly greater frequency tuning in the vertical axis than horizontal axes. At supra threshold we found tuning plasticity, i.e. best frequencies of saccular afferents shifted to high frequencies as stimulus level increased. Isolevel rate–frequency curves were asymmetrical with shallow slopes at the low-frequency edge and steep slopes at the high-frequency edge. Saccular afferents of the sleeper goby have similar capabilities of coding particle motion frequencies in the three orthogonal axes. Results from this and other studies suggest that (1) the saccule is the major hearing organ in this species, (2) the saccule of this species is capable of encoding sound frequencies in three dimensional space, and (3) saccular afferents in fishes without accessory auditory structures exhibit similar frequency selectivity in response to particle motion.
Background colour matching by a crab spider in the field: a community sensory ecology perspective
Authors: Defrize Jérémy , Théry Marc , Casas Jérôme 
Published: April 2010

SUMMARY
The question of whether a species matches the colour of its natural background in the perspective of the correct receiver is complex to address for several reasons; however, the answer to this question may provide invaluable support for functional interpretations of colour. In most cases, little is known about the identity and visual sensory abilities of the correct receiver and the precise location at which interactions take place in the field, in particular for mimetic systems. In this study, we focused on Misumena vatia, a crab spider meeting the criteria for assessing crypsis better than many other models, and claimed to use colour changes for both aggressive and protective crypsis. We carried out a systematic field survey to quantitatively assess the exactness of background colour matching in M. vatia with respect to the visual system of many of its receivers within the community. We applied physiological models of bird, bee and blowfly colour vision, using flower and spider spectral reflectances measured with a spectroradiometer. We observed that crypsis at long distance is systematically achieved, exclusively through achromatic contrast, in both bee and bird visions. At short distance, M. vatia is mostly chromatically detectable, whatever the substrate, for bees and birds. However, spiders can be either poorly discriminable or quite visible depending on the substrate for bees. Spiders are always chromatically undetectable for blowflies. We discuss the biological relevance of these results in both defensive and aggressive contexts of crypsis within a community sensory perspective.
Hand and foot pressures in the aye-aye (Daubentonia madagascariensis) reveal novel biomechanical trade-offs required for walking on gracile digits
Authors: Kivell Tracy L. , Schmitt Daniel , Wunderlich Roshna E. 
Published: April 2010

SUMMARYArboreal animals with prehensile hands must balance the complex demands of bone strength, grasping and manipulation. An informative example of this problem is that of the aye-aye (Daubentonia madagascariensis), a rare lemuriform primate that is unusual in having exceptionally long, gracile fingers specialized for foraging. In addition, they are among the largest primates to engage in head-first descent on arboreal supports, a posture that should increase loads on their gracile digits. We test the hypothesis that aye-ayes will reduce pressure on their digits during locomotion by curling their fingers off the substrate. This hypothesis was tested using simultaneous videographic and pressure analysis of the hand, foot and digits for five adult aye-ayes during horizontal locomotion and during ascent and descent on a 30° instrumented runway. Aye-ayes consistently curled their fingers during locomotion on all slopes. When the digits were in contact with the substrate, pressures were negligible and significantly less than those experienced by the palm or pedal digits. In addition, aye-ayes lifted their hands vertically off the substrate instead of ‘toeing-off’ and descended head-first at significantly slower speeds than on other slopes. Pressure on the hand increased during head-first descent relative to horizontal locomotion but not as much as the pressure increased on the foot during ascent. This distribution of pressure suggests that aye-ayes shift their weight posteriorly during head-first descent to reduce loads on their gracile fingers. This research demonstrates several novel biomechanical trade-offs to deal with complex functional demands on the mammalian skeleton.
A field study of adult witness interviewing practices in a Canadian police organization
Authors: Snook Brent , Keating Kathy 
Published: April 2010

Purpose. The current study examined witness interviewing practices in a Canadian police organization. The effect of interviewer, interviewee, and interview characteristics on those practices was also examined. Method. Ninety witness interviews from a Canadian police organization were coded for the following interviewing practices: types of questions asked (i.e. open‐ended, probing, closed‐ended, clarification, multiple, leading, opinion/statement, and re‐asked), the number of interruptions, percentage of words spoken by interviewer, type of pre‐interview instructions (consequential vs. generic), and whether or not a free narrative was requested (and when requested during the interview). Characteristics pertaining to the interviewer (e.g. primary interviewer's age), interviewee (e.g. witness gender), and interview (e.g. crime type) were also coded. Results. Results showed that closed‐ended and probing questions were the most widely asked questions, and that open‐ended questions were asked relatively infrequently. It was also found that the 80–20 talking rule was violated in 89% of the interviews, interviewers rarely interrupted the witnesses, and free narratives were requested often. Overall, the effect of interviewer, interview, or interviewee characteristics on interviewing practices was minimal. Conclusions. The finding that scientifically prescribed interviewing practices are employed rarely by Canadian police officers highlights a need for increased professional interviewing training. The finding that practices are largely unaffected by personal and situational factors suggests that such training would be equally beneficial for all types of interviewers, interviewees, and contexts.
Moderation of Genetic Factors by Parental Divorce in Adolescents' Evaluations of Family Functioning and Subjective Wellbeing
Authors: van der Aa Niels , Boomsma Dorret I. , Rebollo-Mesa Irene , Hudziak James J. , Bartels Meike 
Published: April 2010

AbstractAdolescents' evaluations of family functioning may have a significant impact on their subjective well-being and adjustment. The aim of the study was to investigate the degree to which genetic and environmental influences affect variation in evaluations of general family functioning, family conflict, and quality of life and the overlap between them. We assessed whether genetic and environmental influences are moderated by parental divorce by analyzing self-report data from 6,773 adolescent twins and their non-twin siblings. Genetic, shared, and nonshared environmental influences accounted for variation in general family functioning and family conflict, with genetic influences being relatively more important in girls than boys in general family functioning. Genetic and nonshared environmental influences accounted for variation in quality of life, with genetic influences being relatively more important in girls. Evidence was found for interaction between genetic factors and parental divorce: genetic influence on general family functioning was larger in participants from divorced families. The overlap between general family functioning and quality of life, and family conflict and quality of life was accounted for the largest part by genetic effects, with nonshared environmental effects accounting for the remaining part. By examining the data from monozygotic twins, we found evidence for interaction between genotype and nonshared, non-measured, environmental influences on evaluations of general family functioning, family conflict, and quality of life.
Twin Study of Heritability of Eating Bread in Danish and Finnish Men and Women
Authors: Hasselbalch Ann L. , Silventoinen Karri , Keskitalo Kaisu , Pietiläinen Kirsi H. , Rissanen Aila , Heitmann Berit L. , Kyvik Kirsten O. , Sørensen Thorkild I. A. , Kaprio Jaakko 
Published: April 2010

AbstractBread is an elementary part of the western diet, and especially rye bread is regarded as an important source of fibre. We investigated the heritability of eating bread in terms of choice of white and rye bread and use-frequency of bread in female and male twins in Denmark and Finland. The study cohorts included 575 Danish (age range 18–67 years) and 2009 Finnish (age range 22–27 years) adult twin pairs. Self-reported frequency of eating bread was obtained by food frequency questionnaires. Univariate models based on linear structural equations for twin data were used to estimate the relative magnitude of the additive genetic, shared environmental and individual environmental effects on bread eating frequency and choice of bread. The analysis of bread intake frequency demonstrated moderate heritability ranging from 37–40% in the Finnish cohort and 23–26% in the Danish cohort. The genetic influence on intake of white bread was moderate (24–31%), while the genetic influence on intake of rye bread was higher in men (41–45%) than in women (24–33%). Environmental influences shared by the twins were not significant. Consumption of bread as well as choice of bread is influenced by genetic predisposition. Environmental factors shared by the co-twins (e.g., childhood environment) seem to have no significant effects on bread consumption and preference in adulthood.