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Cleavage of poly(ADP-ribose) polymerase: a sensitive parameter to study cell death.

Proteases play a crucial role in apoptosis or programmed cell death. The aim of this review is to highlight the purpose for which these proteases are activated, i.e., to specifically cleave a select subset of cellular proteins at an appropriate time during cell death. Poly(ADP-ribose) polymerase (PARP), a nuclear protein implicated in DNA repair, is one of the earliest proteins targeted for a specific cleavage to the signature 89-kDa fragment during apoptosis. Characterization of the apoptotic cleavage of PARP and other target proteins helped in understanding the role of cysteine aspartic acid specific proteases (caspases) in the apoptotic process. We have recently identified that in some models of cell death, the cleavage pattern for PARP is different from production of the signature 89-kDa fragment. Necrotic death of HL-60 cells and apoptotic death of Jurkat cells mediated by granzyme B and perforin were accompanied by distinct additional fragments, suggesting cleavage of PARP at other sites by caspases or other death proteases. This review summarizes how detection and characterization of PARP cleavage could serve as a sensitive parameter for identification of different types of cell death and as a marker for activation of different death proteases. The putative biological functions for early cleavage of PARP in apoptosis are also discussed.

Amino Acid Sequence↗

Identification of sotalol-induced changes in repolarization with T wave area-based repolarization duration parameters.

In this study, we investigated the validity of T wave area-based parameters for the identification of drug-induced changes of repolarization. Based on electrocardiograms from 39 healthy patients, we computed the stability of repolarization measurements and compared the sotalol-induced repolarization changes when measured with area-based parameters and traditional QT interval techniques (manual and automatic). Also, we evaluated the effect of different types of heart rate correction on these repolarization measurements. The results show that the stability of the automatic repolarization measurements is higher when measured using computer algorithm than using manual QT measurement. By using a population-based heart rate correction, the area-based parameters reveal significant modification of the overall shape of the T wave in its early, middle, and final part. In conclusion, morphological parameters of T wave are able to identify the changes in repolarization interval induced by sotalol. These parameters are more stable and thus more reliable than the traditional QT interval measurements.

Electrocardiography↗

Screening for beta-thalassaemia trait in anaemic pregnant women.

AIMS: To find a clinically practicable parameter for the identification of beta-thalassaemia trait (beta-TT) in anaemic pregnant women on the basis of routine use of haematological examination. METHODS: During 1998-2002, 304 anaemic pregnant women were observed in anaemia consultation hours. A retrospective study was carried out with the aim of finding a screening method for beta-TT in anaemic pregnant women. We compared a sensitivity and a specificity of six different parameters for identification of beta-TT. On the basis of a sensitivity and a specificity for each parameter, we calculated Youden's index, the likelihood ratio and determined the receiver-operating curves. The logistic regression of the variables MCV, MCH and microcytosis was accomplished. RESULTS: The analysis using receiver-operating curves as well as a calculation of Youden's index showed that the best parameter for screening of beta-TT in anaemic pregnant women is MCV < or = 75 fl. For differentiation between patients with iron deficiency anaemia (IDA) alone and patients with beta-TT and concomitant IDA, microcytosis > or = 15% was the most sensitive. By using MCH we identified 100% of patients in the group with beta-TT but only 67% of patients in the group with IDA. CONCLUSION: Our results suggest identification of beta-thalassaemia on the basis of quantification of HbA2 in all patients with MCV < or = 75 fl and normal iron status.

Anemia, Iron-Deficiency↗

Cytologic screening for cancer of the uterine cervix in Sweden evaluated by identification and simulation.

Parameters characterising the progression of cervical neoplasia were estimated from population-based cancer and mortality statistics in Sweden for 1958-1981 by means of a dynamic computer model. Proceeding from that model and these data, the incidence and prevalence curves were constructed, the effects of the extensive cytological screening measures introduced during the 1960s were assessed, and future gains due to the measures already undertaken up to 1981 could be simulated. About 4,000 cases of cancer in situ were diagnosed annually in Sweden after the end of the 1960s, most of them in women born later than 1919. The maximum reduction in the number of invasive cancers up to 1981 was 42% for women born in 1919-1923, but increased progressively for later birth cohorts and reached 69% for those born in 1934-1938. The corresponding reduction in mortality rates was of the same magnitude. The screening measures up to 1981 will ultimately result in a reduction of invasive cancer by about 12,500 cases and of the number of deaths due to this disease by about 4,100. Only a part of the total gain in the number of lives saved had been revealed at the end of the study period in 1981.

Adult↗

[Considerations on computer-assisted pattern recognition in the endometrium].

Histomorphological diagnosing very much depends on subjective empiric data. In histomorphology of the endometrium nomenclature as well as diagnostic classification lack uniformity and are full of controversy in literature. This results in opposing assessments of dignity of endometrial hyperplasias and prognosis of varying grades of carcinoma differentiation. One of the reasons is the lack of objective and reproducible diagnostic categories, not yet found. Morphometry with so-called computer-assisted interactive pattern recognition systems might offer the solution to numerous problems. Since there are no specific parameters for diagnostic identification of endometrial hyperplasias and carcinomas, only a combination of sensitive and reproducible parameters can allow for diagnostic identification. We report on our first computer-assisted pattern recognition studies and results that appear to provide an adequate basis for leaving descriptive diagnosing and turning to objective diagnosing. Such an objective diagnosing might not only be of clinical and therapeutic significance but also provide a new evaluation of the today's significance -- still full of controversy -- and prospective potency of endometrial hyperplasias. In computer-assisted interactive pattern recognition also lies the possibility of a contribution to objective tumour grading that appears to have high prognostic significance.

Diagnosis, Computer-Assisted↗

Identification of quantitative trait loci regulating haematopoietic parameters in B6AKRF2 mice.

The haematopoietic system is a complex organised tissue with a hierarchical structure. Identification of organisational pathways within the haematopoietic system is relevant for a better understanding of haematopoiesis in health and disease. We have analysed numerous haematopoietic parameters in two panels of a total of 157 genetically distinct B6AKRF2 mice, derived from an intercross between AKR and C57Bl/6 mice, strains known to differ in various stem cell traits. The major objective of our study was to assess the extent to which various haematopoietic parameters, such as stem cell numbers, progenitor cell cycling, progenitor cell mobilisation and neutrophil numbers in blood and bone marrow are coregulated. The genotypes of these mice were used to search for genetic loci that regulate these parameters. We found significant quantitative trait loci (QTL) associated with the number of stem cells (CAFC-35) in the bone marrow and the number of neutrophils in the blood. However, most haematopoietic parameters appeared to be controlled by non-heritable (epigenetic) factors, or by multiple QTLs. Our study reveals striking differences in structure of the haematopoietic hierarchy between individual mice. Surprisingly, stem and progenitor cell pool size and proliferation rate, as well as peripheral blood cell counts are all independently regulated.

Animals↗

Acoustic parameters in speaker height and weight identification: sex-specific behaviour.

This study examines the ability of listeners to judge speaker height and weight from speech samples. Although previous investigations indicate that listeners are consistent in estimating body characteristics, it is not known which speech signal parameters are being used by the listeners for such estimates. Therefore, a series of listening tests was carried out in which male and female listeners judged the height and weight from male and female speakers reading isolated words and two text paragraphs. Both speaker sex and listener sex turned out to be important factors: Significant correlations between estimated height/weight and actual height/weight were found only for male speakers. The majority of these estimates came from the male listeners. Neither male nor female listeners, however, were able to estimate female speaker height or weight. Regression analysis involving F0, formant frequencies, energy below 1 kHz, and speech rate showed no significant correlations between these parameters and actually measured speaker height and weight, the only exception being a significant correlation between male speaker weight and speech rate. Furthermore, regression data suggested that the listeners (correctly) used speech rate information in judging male speaker weight, whereas low F0 and formant frequency values (wrongly) were taken to indicate large speaker body dimensions.

Adult↗

Analysis of the QUESTOR water quality model using a Fourier amplitude sensitivity test (FAST) for two UK rivers.

This paper presents the sensitivity analysis of a well-known in-stream water quality model, QUESTOR (QUality Evaluation and Simulation TOol for River systems) as applied to two rivers of contrasting land-use in the northeast of England: the 'rural' Ouse and the 'urban' Aire. The analysis employed a version of the Fourier Amplitude Sensitivity Test (FAST) that quantifies the contribution of changes in individual parameters and combination of parameters to the variance of the model output (here the Nash-Sutcliffe) in an efficient way. The quantification of the sensitivity of the model output to the parameters led to the identification of the most influential parameters. Differences between the Aire and the Ouse were found, reflecting their different water quality regime. Results highlighted the importance of interactions between two, or more, parameters on the model output. It led to question the one-at-a-time calibration method currently applied with QUESTOR and underlined the importance of including interactions between parameters in sensitivity analyses. Comparison of the relative influence of parameters versus input data showed contrasting results. In the urban system, the inputs from discharges (sewage treatment works and industrial effluents) were highly influential on model outputs and generally more important than the model parameters. For the rural river, the tributary discharges were most influential, but only at a similar or a lower level than the model parameters.

Chlorides↗

Identification of Streptococcus suis isolated from swine: proposal for biochemical parameters.

A study was made of the biochemical profiles of 59 strains serotyped as Streptococcus suis, isolated from diseased and clinically healthy pigs. The following parameters are proposed for the identification of the species: Voges-Proskauer negativity, hydrolysis of esculin positivity, trehalose positivity, negativity for growth in 6.5% NaCl, and absence of beta-hemolysis on sheep blood agar. S. suis serotype 2 is negative for hippurate, pyrrolidonylarylamidase, and mannose.

Animals↗

The evaluation of left ventricular function in man. A comparison of methods.

Comparisons of the sensitivities of parameters for assessing left ventricular performance in man were made in 38 patients. The parameters compared were the ejection fraction, ventriculographic contraction patterns, the left ventricular end-diastolic pressure, and the contractile indices including the contractile element velocity at 10 mm Hg (Vce 10) and maximal contractile element velocity (Vmax). The contractile indices were obtained by catheter tip manometry, utilizing developed pressure (DP) to calculate the velocity of contractile element shortening (Vce) from the formula: dp/dt divided by 32 DP. Vce 10 was measured directly and Vmax was derived by linear manual extrapolation of the pressure-velocity plot to 0 mm Hg. Vmax values derived from linear manual extrapolation were compared with values obtained by computer least squares fitting of the Vce and developed pressure data points to single and double exponential equations. The Vce and developed pressure data points fit the single exponential equation better than the double exponential equation but the use of either equation resulted in slightly higher values for Vmax than obtained with linear manual extrapolation. The effect of heart rate on myocardial contractility was eliminated by making comparisons at both a basal and atrial paced rate of 100. Utilizing all methods, 24 patients were identified to have ventricular dysfunction. The contractile indices were significantly less sensitive than any other parameter (P smaller than 0.05) and identified seven patients while the left ventricular end-diastolic pressure, ejection fraction, and presence of asynergy identified 15, 15, and 12 patients, respectively. The use of a common atrial paced rate of 100 did not increase the sensitivity of the contractile indices. Since there was only partial overlapping between parameters in the identification of left ventricular dysfunction, the combination of different parameters was more sensitive than any single parameter alone. It is concluded that several methods are required to identify all patients with left ventricular dysfunction and that the contractile indices are the least sensitive indicator of left ventricular dysfunction.

Blood Pressure Determination↗

Safety assessment of biotechnology-derived pharmaceuticals: ICH and beyond.

Many scientific discussions, especially in the past 8 yr, have focused on definition of criteria for the optimal assessment of the preclinical toxicity of pharmaceuticals. With the current overlap of responsibility among centers within the Food and Drug Administration (FDA), uniformity of testing standards, when appropriate, would be desirable. These discussions have extended beyond the boundaries of the FDA and have culminated in the acceptance of formalized, internationally recognized guidances. The work of the International Committee on Harmonisation (ICH) and the initiatives developed by the FDA are important because they (a) represent a consensus scientific opinion, (b) promote consistency, (c) improve the quality of the studies performed, (d) assist the public sector in determining what may be generally acceptable to prepare product development plans, and (e) provide guidance for the sponsors in the design of preclinical toxicity studies. Disadvantages associated with such initiatives include (a) the establishment of a historical database that is difficult to relinquish, (b) the promotion of a check-the-box approach, i.e., a tendancy to perform only the minimum evaluation required by the guidelines, (c) the creation of a disincentive for industry to develop and validate new models, and (d) the creation of state-of-the-art guidances that may not allow for appropriate evaluation of novel therapies. The introduction of biotechnology-derived pharmaceuticals for clinical use has often required the application of unique approaches to assessing their safety in preclinical studies. There is much diversity among these products, which include the gene and cellular therapies, monoclonal antibodies, human-derived recombinant regulatory proteins, blood products, and vaccines. For many of the biological therapies, there will be unique product issues that may require specific modifications to protocol design and may raise additional safety concerns (e.g., immunogenicity). Guidances concerning the design of preclinical studies for such therapies are generally based on the clinical indication. Risk versus benefit decisions are made with an understanding of the nature of the patient population, the severity of disease, and the availability of alternative therapies. Key components of protocol design for preclinical studies addressing the risks of these agents include (a) a safe starting dose in humans, (b) identification of potential target organs, (c) identification of clinical parameters that should be monitored in humans, and (d) identification of at-risk populations. One of the distinct aspects of the safety evaluation of biotechnology-derived pharmaceuticals is the use of relevant and often nontraditional species and the use of animal models of disease in preclinical safety evaluation. Extensive contributions were made by the Center for Biologics Evaluation and Research to the ICH document on the safety of biotherapeutics, which is intended to provide worldwide guidance for a framework approach to the design and review of preclinical programs. Rational, scientifically sound study design and early identification of the potential safety concerns that may be anticipated in the clinical trial can result in preclinical data that facilitate use of these novel therapies for use in humans without duplication of effort or the unnecessary use of animals.

Animals↗

Effect of feedback to clinical staff of information on clinical biochemistry requesting patterns.

Attempting to reduce the number of unnecessary tests requested, we initiated a program providing continuous feedback to clinicians concerning their requesting patterns of clinical biochemistry laboratory tests. At four-week intervals each medical specialist received data showing the number and costs of tests requested by all members of his team, the number of patients who had tests, and various related information. Comparative summaries, in frequency-histogram format, of the number of specimens submitted and the costs involved allowed each medical specialist to rate his own performance against that of his peers. The program appeared to have no effect on laboratory use, although reliable information concerning workload patterns was accrued. The degree of education of medical students in clinical biochemistry did not appear to influence the use they made of the laboratory after qualification. The specimens per bed-day ratio is suggested as a useful parameter in the identification of inappropriate laboratory use and as a standard parameter for comparing laboratory use in different hospitals.

Australia↗

An identification technique for evaluating body segment parameters in the upper extremity from manipulator-hand contact forces and arm kinematics.

OBJECTIVE: To show that it is possible to determine segment masses and segment centers of mass by measuring manipulator-hand contact forces and joint angles during upper extremity movement. BACKGROUND: The method serves as a quick subject specific body segment parameter evaluation technique. Clinically we see this method as an alternative upper extremity body segment parameter evaluation study especially useful in rehabilitation treatment activities. METHODS: The experiment is based on coupling the human arm with a robotic manipulator which is then used for imposing a specified sagittal plane trajectory. Joint angles and forces in the contact point serve as input to the identification procedure. For verification purposes the proposed identification procedure was first performed on a mechanical arm. Afterwards a low velocity trajectory was imposed into all joints of the human upper extremity, with very small angular deviations. Within this small angular region the arm was assumed to be represented as a linear system. FINDINGS: The outcome of the identification procedure is an estimate of masses and center of mass coordinates for the lower arm and palm segments, their products for the upper arm and the passive moments around the measured angle of all joints in the sagittal plane. The results obtained for three particular human arms are eventually compared to the average population based literature. CONCLUSION: From the clinical point of view the study can become useful for biomechanical evaluation and for evaluating biomechanical properties of lower extremities or other body segments. This method may also provide a foundation to measuring body segment moments of inertia and joint viscoelastic parameters.

Adult↗

An empirical parameter selection method for endocardial border identification algorithms.

Identification of the cardiac borders is a basic goal in the analysis of echocardiographic images. For this reason there has been a great deal of interest in automatic border identification methods. Numerous studies have been published, describing a wide variety of proposed methods. In spite of the large number of published studies, however, the relative merits of the various methods remain unclear. Furthermore, the optimal configuration of each method is in most cases unknown. One of the reasons for this is the lack of a well-defined, rigorous method for evaluating and comparing alternative algorithms and/or configurations. In this article we describe a systematic, empirical procedure for evaluating border identification algorithms. The method is based on a strict metrical measure of border error, and a set of test images which reflect the heterogeneity of typical clinical images. The methodology can be used to compare alternative analysis methods, or to determine the optimal configuration for any particular analysis method. We then apply this methodology to the problem of determining parameter values for several of the most commonly used analysis methods.

Algorithms↗

Intra- and inter-speaker variations of formant pattern for lateral syllables in Standard Chinese.

Speech variation of speakers is a crucial issue for speaker recognition and identification, especially for forensic practice. Greater intra-speaker variation is one main reason for incorrect speaker identification in real forensic situations. Understanding the stability of acoustic parameters and their variation in speech is therefore significant for the evaluation of effective parameters for speaker identification. In this paper, all vowels in Standard Chinese including five monophthongs, eight diphthongs and four triphthongs were combined with lateral /l/. Finally, 15 lateral syllables with different tones for 10 speakers were selected and acoustically analyzed. Central frequencies of the first four formants for each syllable were measured for quantitative comparison of intra- and inter-speaker variation in order to provide a general idea of speaker variation in Standard Chinese, and finally serving for forensic application. Results show that the overall intra-speaker variation is less than the inter-speaker variation in great extent under laboratory condition though occasionally they are contrary. This supports the basis for forensic speaker identification, that is, intra-speaker variation should be less than inter-speaker variation in many acoustic features, and further validates the probability and reliability of forensic speaker identification.

Adult↗

Simultaneous identification of mutations by dual-parameter multiplex hybridization in peptide nucleic acid-containing virtual arrays.

The physical entrapment of peptide nucleic acids (PNA) in electrophoresis media provides a system for performing real-time hybridization. DNA strands fully complementary to the target PNA are retarded compared to single-nucleotide mismatched strands. A second parameter, that of amplicon length, has been introduced to perform multiplex analyses on several mutations simultaneously. Size fractionation creates a virtual array of PCR products that can hybridize to one of a set of mutation-specific PNAs present within the matrix. Each targeted mutation can be identified by the size of its corresponding amplicon. Its genotype is characterized by its interaction with a specific PNA that gives a visually resolved distinction between wildtype and mutant allele. In contrast to conventional hybridization, heterozygotes are readily distinguished from homozygotes. Using a capillary electrophoresis-based DNA sequencer, this approach has been used to automate the identification of the H63D, S65C, and C282Y mutations in the hereditary hemochromatosis gene.

Base Sequence↗

Both ligand- and cell-specific parameters control ligand agonism in a kinetic model of g protein-coupled receptor signaling.

G protein-coupled receptors (GPCRs) exist in multiple dynamic states (e.g., ligand-bound, inactive, G protein-coupled) that influence G protein activation and ultimately response generation. In quantitative models of GPCR signaling that incorporate these varied states, parameter values are often uncharacterized or varied over large ranges, making identification of important parameters and signaling outcomes difficult to intuit. Here we identify the ligand- and cell-specific parameters that are important determinants of cell-response behavior in a dynamic model of GPCR signaling using parameter variation and sensitivity analysis. The character of response (i.e., positive/neutral/inverse agonism) is, not surprisingly, significantly influenced by a ligand's ability to bias the receptor into an active conformation. We also find that several cell-specific parameters, including the ratio of active to inactive receptor species, the rate constant for G protein activation, and expression levels of receptors and G proteins also dramatically influence agonism. Expressing either receptor or G protein in numbers several fold above or below endogenous levels may result in system behavior inconsistent with that measured in endogenous systems. Finally, small variations in cell-specific parameters identified by sensitivity analysis as significant determinants of response behavior are found to change ligand-induced responses from positive to negative, a phenomenon termed protean agonism. Our findings offer an explanation for protean agonism reported in beta2--adrenergic and alpha2A-adrenergic receptor systems.

Algorithms↗

Lexical recognition in sign language: effects of phonetic structure and morphology.

Two experiments are reported which investigate lexical recognition in American Sign Language (ASL). Exp. 1 examined identification of monomorphemic signs and investigated how the manipulation of phonological parameters affected sign identification. Over-all sign identification was much faster than what has been found for spoken language. The phonetic structure of sign (the simultaneous availability of Handshape and Location information) and the phonotactics of the ASL lexicon are argued to account for this difference. Exp. 2 compared the time course of recognition for monomorphemic and morphologically complex signs. ASL morphology is largely nonconcatenative which raises particularly interesting questions for word recognition. We found that morphologically complex signs had longer identification times than matched monomorphemic signs. Also, although roots and affixes are often articulated simultaneously in ASL, they were not identified simultaneously. Base forms of morphologically complex signs were identified initially followed by recognition of the morphological inflection. Finally, subjects with deaf parents (Native signers) were able to isolate signs faster than subjects with hearing parents (Late signers). This result suggests that early language experience can influence the initial stages of lexical access and sign identification.

Adult↗