Abstract: Building conservation work generally involves complex and non-standard work different from new building construction processes. In preparing tenders for building conservation projects, therefore, the quantity surveyor must carefully consider the specificity of non-standard items and demarcate the scope of unique conservation work. While the quantity surveyor must appreciate the full range of works to prepare a good tender document, he typically manages many unfamiliar elements, including practical construction methods, restoration techniques and work sequences. Only by fulfilling the demanding requirements of building conservation work can the quantity surveyor enhance his professionalism an area of growing cultural value and economic importance. By discussing several issues crucial to tender preparations for building conservation projects in Malaysia, this paper seeks a deeper understanding of how quantity surveying can better standardize tender preparation work and more successfully manage building conservation processes.
Abstract: We have developed an energy based approach for identifying the binding sites and important residues for binding in protein-protein complexes. We found that the residues and residuepairs with charged and aromatic side chains are important for binding. These residues influence to form cation-¤Ç, electrostatic and aromatic interactions. Our observation has been verified with the experimental binding specificity of protein-protein complexes and found good agreement with experiments. The analysis on surrounding hydrophobicity reveals that the binding residues are less hydrophobic than non-binding sites, which suggests that the hydrophobic core are important for folding and stability whereas the surface seeking residues play a critical role in binding. Further, the propensity of residues in the binding sites of receptors and ligands, number of medium and long-range contacts, and influence of neighboring residues will be discussed.
Abstract: Snake bite cases in Malaysia most often involve the
species Naja-naja and Calloselasma rhodostoma. In keeping with the
need for a rapid snake venom detection kit in a clinical setting, plate
and dot-ELISA test for the venoms of Naja-naja sumatrana,
Calloselasma rhodostoma and the cobra venom fraction V antigen
was developed. Polyclonal antibodies were raised and further used to
prepare the reagents for the dot-ELISA test kit which was tested in
mice, rabbit and virtual human models. The newly developed dot-
ELISA kit was able to detect a minimum venom concentration of
244ng/ml with cross reactivity of one antibody type. The dot-ELISA
system was sensitive and specific for all three snake venom types in
all tested animal models. The lowest minimum venom concentration
detectable was in the rabbit model, 244ng/ml of the cobra venom
fraction V antigen. The highest minimum venom concentration was
in mice, 1953ng/ml against a multitude of venoms. The developed
dot-ELISA system for the detection of three snake venom types was
successful with a sensitivity of 95.8% and specificity of 97.9%.
Abstract: To identify an endothelial cell-specific promoter suitable for vascular-specific targeting, we tested five promoters in vitro--Tie2SE, Tie2LE, ICAM2, Flt-1 and vWF--for promoter activity and specificity in endothelial cells, smooth muscle cells and non-vascular resident cells as well as tissues. These promoters, except for vWF, exhibited good endothelial activity and specificity in vitro. In a syngenic heart transplantation model, the ICAM2 promoter was variably functional in coronary endothelial cells of donor hearts. Thus, the ICAM2, Flt-1, Tie2SE and Tie2LE promoters hold promise for endothelial-specific targeting, but in vitro expression may not predict in vivo expression.
Abstract: Automatic segmentation of skin lesions is the first step
towards development of a computer-aided diagnosis of melanoma.
Although numerous segmentation methods have been developed,
few studies have focused on determining the most discriminative
and effective color space for melanoma application. This paper
proposes a novel automatic segmentation algorithm using color space
analysis and clustering-based histogram thresholding, which is able to
determine the optimal color channel for segmentation of skin lesions.
To demonstrate the validity of the algorithm, it is tested on a set of 30
high resolution dermoscopy images and a comprehensive evaluation
of the results is provided, where borders manually drawn by four
dermatologists, are compared to automated borders detected by the
proposed algorithm. The evaluation is carried out by applying three
previously used metrics of accuracy, sensitivity, and specificity and
a new metric of similarity. Through ROC analysis and ranking the
metrics, it is shown that the best results are obtained with the X and
XoYoR color channels which results in an accuracy of approximately
97%. The proposed method is also compared with two state-ofthe-
art skin lesion segmentation methods, which demonstrates the
effectiveness and superiority of the proposed segmentation method.
Abstract: It is sometimes difficult to differentiate between
innocent murmurs and pathological murmurs during auscultation. In
these difficult cases, an intelligent stethoscope with decision support
abilities would be of great value. In this study, using a dog model,
phonocardiographic recordings were obtained from 27 boxer dogs
with various degrees of aortic stenosis (AS) severity. As a reference
for severity assessment, continuous wave Doppler was used. The data
were analyzed with recurrence quantification analysis (RQA) with
the aim to find features able to distinguish innocent murmurs from
murmurs caused by AS. Four out of eight investigated RQA features
showed significant differences between innocent murmurs and
pathological murmurs. Using a plain linear discriminant analysis
classifier, the best pair of features (recurrence rate and entropy)
resulted in a sensitivity of 90% and a specificity of 88%. In
conclusion, RQA provide valid features which can be used for
differentiation between innocent murmurs and murmurs caused by
AS.
Abstract: Multi-residue analysis method for penicillins was
developed and validated in bovine muscle, chicken, milk, and flatfish.
Detection was based on liquid chromatography tandem mass
spectrometry (LC/MS/MS). The developed method was validated for
specificity, precision, recovery, and linearity. The analytes were
extracted with 80% acetonitrile and clean-up by a single
reversed-phase solid-phase extraction step. Six penicillins presented
recoveries higher than 76% with the exception of Amoxicillin
(59.7%). Relative standard deviations (RSDs) were not more than
10%. LOQs values ranged from 0.1 and to 4.5 ug/kg. The method was
applied to 128 real samples. Benzylpenicillin was detected in 15
samples and Cloxacillin was detected in 7 samples. Oxacillin was
detected in 2 samples. But the detected levels were under the MRL
levels for penicillins in samples.
Abstract: ECG analysis method was developed using ROC
analysis of PVC detecting algorithm. ECG signal of MIT-BIH
arrhythmia database was analyzed by MATLAB. First of all, the
baseline was removed by median filter to preprocess the ECG signal.
R peaks were detected for ECG analysis method, and normal VCG
was extracted for VCG analysis method. Four PVC detecting
algorithm was analyzed by ROC curve, which parameters are
maximum amplitude of QRS complex, width of QRS complex, r-r
interval and geometric mean of VCG. To set cut-off value of
parameters, ROC curve was estimated by true-positive rate
(sensitivity) and false-positive rate. sensitivity and false negative rate
(specificity) of ROC curve calculated, and ECG was analyzed using
cut-off value which was estimated from ROC curve. As a result, PVC
detecting algorithm of VCG geometric mean have high availability,
and PVC could be detected more accurately with amplitude and width
of QRS complex.
Abstract: We have previously introduced an ultrasonic imaging
approach that combines harmonic-sensitive pulse sequences with a
post-beamforming quadratic kernel derived from a second-order
Volterra filter (SOVF). This approach is designed to produce images
with high sensitivity to nonlinear oscillations from microbubble
ultrasound contrast agents (UCA) while maintaining high levels of
noise rejection. In this paper, a two-step algorithm for computing the
coefficients of the quadratic kernel leading to reduction of tissue
component introduced by motion, maximizing the noise rejection and
increases the specificity while optimizing the sensitivity to the UCA
is presented. In the first step, quadratic kernels from individual
singular modes of the PI data matrix are compared in terms of their
ability of maximize the contrast to tissue ratio (CTR). In the second
step, quadratic kernels resulting in the highest CTR values are
convolved. The imaging results indicate that a signal processing
approach to this clinical challenge is feasible.
Abstract: The linear methods of heart rate variability analysis
such as non-parametric (e.g. fast Fourier transform analysis) and
parametric methods (e.g. autoregressive modeling) has become an
established non-invasive tool for marking the cardiac health, but their
sensitivity and specificity were found to be lower than expected with
positive predictive value
Abstract: Image processing for capsule endoscopy requires large
memory and it takes hours for diagnosis since operation time is
normally more than 8 hours. A real-time analysis algorithm of capsule
images can be clinically very useful. It can differentiate abnormal
tissue from health structure and provide with correlation information
among the images. Bleeding is our interest in this regard and we
propose a method of detecting frames with potential bleeding in
real-time. Our detection algorithm is based on statistical analysis and
the shapes of bleeding spots. We tested our algorithm with 30 cases of
capsule endoscopy in the digestive track. Results were excellent where
a sensitivity of 99% and a specificity of 97% were achieved in
detecting the image frames with bleeding spots.
Abstract: Sleep spindles are the most interesting hallmark of
stage 2 sleep EEG. Their accurate identification in a
polysomnographic signal is essential for sleep professionals to help
them mark Stage 2 sleep. Sleep Spindles are also promising objective
indicators for neurodegenerative disorders. Visual spindle scoring
however is a tedious workload. In this paper three different
approaches are used for the automatic detection of sleep spindles:
Short Time Fourier Transform, Wavelet Transform and Wave
Morphology for Spindle Detection. In order to improve the results, a
combination of the three detectors is presented and comparison with
human expert scorers is performed. The best performance is obtained
with a combination of the three algorithms which resulted in a
sensitivity and specificity of 94% when compared to human expert
scorers.
Abstract: Bone growth factors, such as Bone Morphogenic
Protein-2 (BMP-2) have been approved by the FDA to replace grafting for some surgical interventions, but the high dose requirement limits its use in patients. Noggin, an extracellular protein, blocks the effect of BMP-2 by binding to BMP. Preventing
the BMP-2/noggin interaction will help increase the free
concentration of BMP-2 and therefore should enhance its efficacy to
induce bone formation. The work presented here involves
computational design of novel small molecule inhibitory agents of BMP-2/noggin interaction, based on our current understanding of
BMP-2, and its known putative ligands (receptors and antagonists). A
successful acquisition of such an inhibitory agent of BMP-2/noggin interaction would allow clinicians to reduce the dose required of
BMP-2 protein in clinical applications to promote osteogenesis. The
available crystal structures of the BMPs, its receptors, and the binding partner noggin were analyzed to identify the critical residues
involved in their interaction. In presenting this study, LUDI de novo design method was utilized to perform virtual screening of a large
number of compounds from a commercially available library against the binding sites of noggin to identify the lead chemical compounds
that could potentially block BMP-noggin interaction with a high specificity.
Abstract: Automatic detection of bleeding is of practical
importance since capsule endoscopy produces an extremely large
number of images. Algorithm development of bleeding detection in
the digestive tract is difficult due to different contrasts among the
images, food dregs, secretion and others. In this study, were assigned
weighting factors derived from the independent features of the
contrast and brightness between bleeding and normality. Spectral
analysis based on weighting factors was fast and accurate. Results
were a sensitivity of 87% and a specificity of 90% when the accuracy
was determined for each pixel out of 42 endoscope images.
Abstract: Purpose of this work is to develop an automatic classification system that could be useful for radiologists in the breast cancer investigation. The software has been designed in the framework of the MAGIC-5 collaboration. In an automatic classification system the suspicious regions with high probability to include a lesion are extracted from the image as regions of interest (ROIs). Each ROI is characterized by some features based generally on morphological lesion differences. A study in the space features representation is made and some classifiers are tested to distinguish the pathological regions from the healthy ones. The results provided in terms of sensitivity and specificity will be presented through the ROC (Receiver Operating Characteristic) curves. In particular the best performances are obtained with the Neural Networks in comparison with the K-Nearest Neighbours and the Support Vector Machine: The Radial Basis Function supply the best results with 0.89 ± 0.01 of area under ROC curve but similar results are obtained with the Probabilistic Neural Network and a Multi Layer Perceptron.
Abstract: Instead of traditional (nominal) classification we investigate
the subject of ordinal classification or ranking. An enhanced
method based on an ensemble of Support Vector Machines (SVM-s)
is proposed. Each binary classifier is trained with specific weights
for each object in the training data set. Experiments on benchmark
datasets and synthetic data indicate that the performance of our
approach is comparable to state of the art kernel methods for
ordinal regression. The ensemble method, which is straightforward
to implement, provides a very good sensitivity-specificity trade-off
for the highest and lowest rank.
Abstract: Heart failure is the most common reason of death
nowadays, but if the medical help is given directly, the patient-s life
may be saved in many cases. Numerous heart diseases can be
detected by means of analyzing electrocardiograms (ECG). Artificial
Neural Networks (ANN) are computer-based expert systems that
have proved to be useful in pattern recognition tasks. ANN can be
used in different phases of the decision-making process, from
classification to diagnostic procedures. This work concentrates on a
review followed by a novel method.
The purpose of the review is to assess the evidence of healthcare
benefits involving the application of artificial neural networks to the
clinical functions of diagnosis, prognosis and survival analysis, in
ECG signals. The developed method is based on a compound neural
network (CNN), to classify ECGs as normal or carrying an
AtrioVentricular heart Block (AVB). This method uses three
different feed forward multilayer neural networks. A single output
unit encodes the probability of AVB occurrences. A value between 0
and 0.1 is the desired output for a normal ECG; a value between 0.1
and 1 would infer an occurrence of an AVB. The results show that
this compound network has a good performance in detecting AVBs,
with a sensitivity of 90.7% and a specificity of 86.05%. The accuracy
value is 87.9%.
Abstract: Aptamers are useful tools in microorganism
researches, diagnoses, and treatment. Aptamers are specific target
molecules formed by oligonucleic acid molecules, and are not
decomposed by alcohol. Aptamers used to detect Mycobacterium
tuberculosis (MTB) have been proved to have specific affinity to the
outer membrane proteins of MTB. This article presents a biosensor
chip set with aptamers for early detection of MTB with high specificity
and sensitivity, even in very low concentration. Meanwhile, we have
already made a modified hydrophobic facial mask module with
internal rendering hydrophobic for effectively collecting M.
tuberculosis.