Abstract: Kidney cancer is the most lethal urological cancer
accounting for 3% of adult malignancies. VHL, a tumor-suppressor
gene, is best known to be associated with renal cell carcinoma
(RCC). The VHL functions as negative regulator of hypoxia inducible
factors. Recent sequencing efforts have identified several novel
frequent mutations of histone modifying and chromatin remodeling
genes in ccRCC (clear cell RCC) including PBRM1 and SETD2. The
PBRM1 gene encodes the BAF180 protein, which involved in
transcriptional activation and repression of selected genes. SETD2
encodes a histone methyltransferase, which may play a role in
suppressing tumor development. In this study, RNAs of 30 paired
tumor and normal samples that were grouped according to the types
of kidney cancer and clinical characteristics of patients, including
gender and average age were examined by RT-PCR, SSCP and
sequencing techniques. VHL, PBRM1 and SETD2 expressions were
relatively down-regulated. However, statistically no significance was
found (Wilcoxon signed rank test, p>0.05). Interestingly, no mutation
was observed on the contrary of previous studies. Understanding the
molecular mechanisms involved in the pathogenesis of RCC has
aided the development of molecular-targeted drugs for kidney cancer.
Further analysis is required to identify the responsible genes rather
than VHL, PBRM1 and SETD2 in kidney cancer.
Abstract: The development of Drugs Delivery System (DDS)
has been widely investigated in the last decades. In this paper, first a
general overview of traditional and modern wound dressing is
presented. This is followed by a review of what scientists have done
in the medical environment, focusing on the possibility to develop a
new alternative for DDS through transdermal pathway, aiming to
treat melanoma skin cancer.
Abstract: Mammography has been one of the most reliable
methods for early detection of breast cancer. There are different
lesions which are breast cancer characteristic such as
microcalcifications, masses, architectural distortions and bilateral
asymmetry. One of the major challenges of analysing digital
mammogram is how to extract efficient features from it for accurate
cancer classification. In this paper we proposed a hybrid feature
extraction method to detect and classify all four signs of breast
cancer. The proposed method is based on multiscale surrounding
region dependence method, Gabor filters, multi fractal analysis,
directional and morphological analysis. The extracted features are
input to self adaptive resource allocation network (SRAN) classifier
for classification. The validity of our approach is extensively
demonstrated using the two benchmark data sets Mammographic
Image Analysis Society (MIAS) and Digital Database for Screening
Mammograph (DDSM) and the results have been proved to be
progressive.
Abstract: The exposure to outdoor air pollution causes lung
cancer and increases the risk of bladder cancer. Because air pollution
in urban areas is mainly caused by transportation, it is necessary to
evaluate pollutant exhaust emissions from vehicles during their realworld
use. Nevertheless their evaluation and reduction is a key
problem, especially in the cities, that account for more than 50% of
world population.
A particular attention was given to the slope variability along the
streets during each journey performed by the instrumented vehicle.
In this paper we dealt with the problem of describing a
quantitatively approach for the reconstruction of GPS coordinates and
altitude, in the context of correlation study between driving cycles /
emission / geographical location, during an experimental campaign
realized with some instrumented cars.
Finally the slope analysis can be correlated to the emission and
consumption values in a specific road position, and it could be
evaluated its influence on their behaviour.
Abstract: ICAM-2 (intercellular adhesion molecule 2) or CD102 (Cluster of Differentiation 102) is type I transmembrane glycoproteins, composing 2-9 immunoglobulin-like C2-type domains. ICAM-2 plays the particular role in immune response and cell surveillance. It is concerned in innate and specific immunity, cell survival signal, apoptosis, and anticancer. EST clone of ICAM-2, from P. gigas blood cell EST libraries, showed high identity to human ICAM-2 (92%) with conserve region of ICAM N-terminal domain and part of Ig superfamily. Gene and protein of ICAM-2 has been founded in mammals. This is the first report of ICAM-2 in fish
Abstract: In this work, we have used arrays of micromechanical piezoresistive cantilever with different geometries to detect carcinoembryonic antigen (CEA), which is known as an important biomarker associated with various cancers such as colorectal, lung, breast, pancreatic, and bladder cancer. The sensing principle is based on the surface stress changes induced by antigen–antibody interaction on the microcantilevers surfaces. Different concentrations of CEA in a human serum albumin (HSA) solution were detected as a function of deflection of the beams. According to the experiments, it was revealed that microcantilevers have surface stress sensitivities in the order of 8 (mJ/m). This matter allows them to detect CEA concentrations as low as 3 ng/mL or 18 pM. This indicates the fact that the self-sensing microcantilevers approach is beneficial for pathological tests.
Abstract: For the improvement of the ability in detecting
small calcifications using Ultrasonography (US) we propose a
novel indicator of calcifications in an ultrasound B-mode image
without decrease in frame rate. Since the waveform of an
ultrasound pulse changes at a calcification position, the
decorrelation of adjacent scan lines occurs behind a
calcification. Therefore, we employ the decorrelation of
adjacent scan lines as an indicator of a calcification. The
proposed indicator depicted wires 0.05 mm in diameter at 2 cm
depth with a sensitivity of 86.7% and a specificity of 100%,
which were hardly detected in ultrasound B-mode images. This
study shows the potential of the proposed indicator to
approximate the detectable calcification size using an US
device to that of an X-ray imager, implying the possibility that
an US device will become a convenient, safe, and principal
clinical tool for the screening of breast cancer.
Abstract: Purpose of this work is the development of an
automatic classification system which could be useful for radiologists
in the investigation of breast cancer. The software has been designed
in the framework of the MAGIC-5 collaboration.
In the 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 on morphological lesion differences.
Some classifiers as a Feed Forward Neural Network, a K-Nearest
Neighbours and a Support Vector Machine are used to distinguish the
pathological records from the healthy ones.
The results obtained in terms of sensitivity (percentage of
pathological ROIs correctly classified) and specificity (percentage of
non-pathological ROIs correctly classified) will be presented through
the Receive Operating Characteristic curve (ROC). In particular the
best performances are 88% ± 1 of area under ROC curve obtained
with the Feed Forward Neural Network.
Abstract: Purpose: To explore the use of Curvelet transform to
extract texture features of pulmonary nodules in CT image and support
vector machine to establish prediction model of small solitary
pulmonary nodules in order to promote the ratio of detection and
diagnosis of early-stage lung cancer. Methods: 2461 benign or
malignant small solitary pulmonary nodules in CT image from 129
patients were collected. Fourteen Curvelet transform textural features
were as parameters to establish support vector machine prediction
model. Results: Compared with other methods, using 252 texture
features as parameters to establish prediction model is more proper.
And the classification consistency, sensitivity and specificity for the
model are 81.5%, 93.8% and 38.0% respectively. Conclusion: Based
on texture features extracted from Curvelet transform, support vector
machine prediction model is sensitive to lung cancer, which can
promote the rate of diagnosis for early-stage lung cancer to some
extent.
Abstract: The tracking allows to detect the tumor affections of cervical cancer, it is particularly complex and consuming time, because it consists in seeking some abnormal cells among a cluster of normal cells. In this paper, we present our proposed computer system for helping the doctors in tracking the cervical cancer. Knowing that the diagnosis of the malignancy is based in the set of atypical morphological details of all cells, herein, we present an unsupervised genetic algorithm for the separation of cell components since the diagnosis is doing by analysis of the core and the cytoplasm. We give also the various algorithms used for computing the morphological characteristics of cells (Ratio core/cytoplasm, cellular deformity, ...) necessary for the recognition of illness.
Abstract: Clusters of microcalcifications in mammograms are an
important sign of breast cancer. This paper presents a complete
Computer Aided Detection (CAD) scheme for automatic detection of
clustered microcalcifications in digital mammograms. The proposed
system, MammoScan μCaD, consists of three main steps. Firstly
all potential microcalcifications are detected using a a method for
feature extraction, VarMet, and adaptive thresholding. This will also
give a number of false detections. The goal of the second step,
Classifier level 1, is to remove everything but microcalcifications.
The last step, Classifier level 2, uses learned dictionaries and sparse
representations as a texture classification technique to distinguish
single, benign microcalcifications from clustered microcalcifications,
in addition to remove some remaining false detections. The system
is trained and tested on true digital data from Stavanger University
Hospital, and the results are evaluated by radiologists. The overall
results are promising, with a sensitivity > 90 % and a low false
detection rate (approx 1 unwanted pr. image, or 0.3 false pr. image).
Abstract: The study of proteomics reached unexpected levels of
interest, as a direct consequence of its discovered influence over some
complex biological phenomena, such as problematic diseases like
cancer. This paper presents the latest authors- achievements regarding
the analysis of the networks of proteins (interactome networks), by
computing more efficiently the betweenness centrality measure. The
paper introduces the concept of betweenness centrality, and then
describes how betweenness computation can help the interactome net-
work analysis. Current sequential implementations for the between-
ness computation do not perform satisfactory in terms of execution
times. The paper-s main contribution is centered towards introducing
a speedup technique for the betweenness computation, based on
modified shortest path algorithms for sparse graphs. Three optimized
generic algorithms for betweenness computation are described and
implemented, and their performance tested against real biological
data, which is part of the IntAct dataset.
Abstract: Breast skin-line estimation and breast segmentation is an important pre-process in mammogram image processing and computer-aided diagnosis of breast cancer. Limiting the area to be processed into a specific target region in an image would increase the accuracy and efficiency of processing algorithms. In this paper we are presenting a new algorithm for estimating skin-line and breast segmentation using fast marching algorithm. Fast marching is a partial-differential equation based numerical technique to track evolution of interfaces. We have introduced some modifications to the traditional fast marching method, specifically to improve the accuracy of skin-line estimation and breast tissue segmentation. Proposed modifications ensure that the evolving front stops near the desired boundary. We have evaluated the performance of the algorithm by using 100 mammogram images taken from mini-MIAS database. The results obtained from the experimental evaluation indicate that this algorithm explains 98.6% of the ground truth breast region and accuracy of the segmentation is 99.1%. Also this algorithm is capable of partially-extracting nipple when it is available in the profile.
Abstract: The study of proteomics reached unexpected levels of
interest, as a direct consequence of its discovered influence over
some complex biological phenomena, such as problematic diseases
like cancer. This paper presents a new technique that allows for an
accurate analysis of the human interactome network. It is basically
a two-step analysis process that involves, at first, the detection of
each protein-s absolute importance through the betweenness centrality
computation. Then, the second step determines the functionallyrelated
communities of proteins. For this purpose, we use a community
detection technique that is based on the edge betweenness
calculation. The new technique was thoroughly tested on real biological
data and the results prove some interesting properties of those proteins that are involved in the carcinogenesis process. Apart from its
experimental usefulness, the novel technique is also computationally
effective in terms of execution times. Based on the analysis- results, some topological features of cancer mutated proteins are presented
and a possible optimization solution for cancer drugs design is suggested.
Abstract: As the Computed Tomography(CT) requires normally
hundreds of projections to reconstruct the image, patients are exposed
to more X-ray energy, which may cause side effects such as cancer.
Even when the variability of the particles in the object is very less,
Computed Tomography requires many projections for good quality
reconstruction. In this paper, less variability of the particles in an
object has been exploited to obtain good quality reconstruction.
Though the reconstructed image and the original image have same
projections, in general, they need not be the same. In addition
to projections, if a priori information about the image is known,
it is possible to obtain good quality reconstructed image. In this
paper, it has been shown by experimental results why conventional
algorithms fail to reconstruct from a few projections, and an efficient
polynomial time algorithm has been given to reconstruct a bi-level
image from its projections along row and column, and a known sub
image of unknown image with smoothness constraints by reducing the
reconstruction problem to integral max flow problem. This paper also
discusses the necessary and sufficient conditions for uniqueness and
extension of 2D-bi-level image reconstruction to 3D-bi-level image
reconstruction.
Abstract: The small interfering RNA (siRNA) alters the
regulatory role of mRNA during gene expression by translational
inhibition. Recent studies show that upregulation of mRNA because
serious diseases like cancer. So designing effective siRNA with good
knockdown effects plays an important role in gene silencing. Various
siRNA design tools had been developed earlier. In this work, we are
trying to analyze the existing good scoring second generation siRNA
predicting tools and to optimize the efficiency of siRNA prediction
by designing a computational model using Artificial Neural Network
and whole stacking energy (%G), which may help in gene silencing
and drug design in cancer therapy. Our model is trained and tested
against a large data set of siRNA sequences. Validation of our results
is done by finding correlation coefficient of experimental versus
observed inhibition efficacy of siRNA. We achieved a correlation
coefficient of 0.727 in our previous computational model and we
could improve the correlation coefficient up to 0.753 when the
threshold of whole tacking energy is greater than or equal to -32.5
kcal/mol.
Abstract: The purpose of my research proposal is to
demonstrate that there is a relationship between EEG and
endometrial cancer.
The above relationship is based on an Aristotelian Syllogism;
since it is known that the 14-3-3 protein is related to the electrical
activity of the brain via control of the flow of Na+ and K+ ions and
since it is also known that many types of cancer are associated with
14-3-3 protein, it is possible that there is a relationship between EEG
and cancer. This research will be carried out by well-defined
diagnostic indicators, obtained via the EEG, using signal processing
procedures and pattern recognition tools such as neural networks in
order to recognize the endometrial cancer type. The current research
shall compare the findings from EEG and hysteroscopy performed on
women of a wide age range. Moreover, this practice could be
expanded to other types of cancer. The implementation of this
methodology will be completed with the creation of an ontology.
This ontology shall define the concepts existing in this research-s
domain and the relationships between them. It will represent the
types of relationships between hysteroscopy and EEG findings.
Abstract: Microarray data profiles gene expression on a whole
genome scale, therefore, it provides a good way to study associations
between gene expression and occurrence or progression of cancer.
More and more researchers realized that microarray data is helpful
to predict cancer sample. However, the high dimension of gene
expressions is much larger than the sample size, which makes this
task very difficult. Therefore, how to identify the significant genes
causing cancer becomes emergency and also a hot and hard research
topic. Many feature selection algorithms have been proposed in
the past focusing on improving cancer predictive accuracy at the
expense of ignoring the correlations between the features. In this
work, a novel framework (named by SGS) is presented for stable gene
selection and efficient cancer prediction . The proposed framework
first performs clustering algorithm to find the gene groups where
genes in each group have higher correlation coefficient, and then
selects the significant genes in each group with Bayesian Lasso and
important gene groups with group Lasso, and finally builds prediction
model based on the shrinkage gene space with efficient classification
algorithm (such as, SVM, 1NN, Regression and etc.). Experiment
results on real world data show that the proposed framework often
outperforms the existing feature selection and prediction methods,
say SAM, IG and Lasso-type prediction model.
Abstract: Fruits and vegetables are the essentials of a healthy
diet, mainly because of their antioxidant properties contributing to
disease blockage especially for some certain types of cancer. Being a
favourite fruit, citrus are produced for economic and commercial
purposes worldwide. Particularly, lemon fruit (Citrus limon L.), has
an important place in export products of Turkey. Lemon has a great
importance on human nutrition with regard to being a source of
nutrients, flavonoids, vitamin C and minerals. It is used for food
flavouring and pickling and also processed for lemonade. By
processing citrus into fruit juices, consumption may increase and also
become easier. Like many fruits and vegetables lemons are cheap and
abundant during harvesting period, while they are quite expensive in
other seasons. Lemon juice and concentrate production allows
consumers to get benefits from lemon fruit in any time of the year.
Lemonade is getting in to the focus of consumers’ attention
preferring non-carbonated drinks. The demand of healthy, convenient
functional foods affects consumer trends through innovative
products. For this reason, lemonade could be enriched with different
natural herb extracts such as ginger (Zingiber officinale), linden (Tilia
cordata), and mint (Mentha piperita).
Abstract: Nuclear matrix protein 22 (NMP22) is a FDA approved
biomarker for bladder cancer. The objective of this study is to develop
a simple NMP22 immumosensor (NMP22-IMS) for accurate
measurement of NMP22. The NMP22-IMS was constructed with
NMP22 antibody immobilized on screen-printed carbon electrodes.
The construction procedures and antibody immobilization are simple.
Results showed that the NMP22-IMS has an excellent (r2³0.95)
response range (20 – 100 ng/mL). In conclusion, a simple and reliable
NMP22-IMS was developed, capable of precisely determining urine
NMP22 level.