Abstract: The hybridization of artificial immune system with
cellular automata (CA-AIS) is a novel method. In this hybrid model,
the cellular automaton within each cell deploys the artificial immune
system algorithm under optimization context in order to increase its
fitness by using its neighbor-s efforts. The hybrid model CA-AIS is
introduced to fix the standard artificial immune system-s weaknesses.
The credibility of the proposed approach is evaluated by simulations
and it shows that the proposed approach achieves better results
compared to standard artificial immune system.
Abstract: MiRNAs participate in gene regulation of translation.
Some studies have investigated the interactions between genes and
intragenic miRNAs. It is important to study the miRNA binding sites
of genes involved in carcinogenesis. RNAHybrid 2.1 and ERNAhybrid
programmes were used to compute the hybridization free
energy of miRNA binding sites. Of these 54 mRNAs, 22.6%, 37.7%,
and 39.7% of miRNA binding sites were present in the 5'UTRs,
CDSs, and 3'UTRs, respectively. The density of the binding sites for
miRNAs in the 5'UTR ranged from 1.6 to 43.2 times and from 1.8 to
8.0 times greater than in the CDS and 3'UTR, respectively. Three
types of miRNA interactions with mRNAs have been revealed: 5'-
dominant canonical, 3'-compensatory, and complementary binding
sites. MiRNAs regulate gene expression, and information on the
interactions between miRNAs and mRNAs could be useful in
molecular medicine. We recommend that newly described sites
undergo validation by experimental investigation.
Abstract: DNA microarray technology is widely used by
geneticists to diagnose or treat diseases through gene expression.
This technology is based on the hybridization of a tissue-s DNA
sequence into a substrate and the further analysis of the image
formed by the thousands of genes in the DNA as green, red or yellow
spots. The process of DNA microarray image analysis involves
finding the location of the spots and the quantification of the
expression level of these. In this paper, a tool to perform DNA
microarray image analysis is presented, including a spot addressing
method based on the image projections, the spot segmentation
through contour based segmentation and the extraction of relevant
information due to gene expression.
Abstract: Neem is a highly heterozygous and commercially
important perennial plant. Conventionally, it is propagated by seeds
which loose viability within two weeks. Strictly cross pollinating
nature of the plant causes serious barrier to the genetic improvement
by conventional methods. Alternative methods of tree improvement
such as somatic hybridization, mutagenesis and genetic
transformation require an efficient in vitro plant regeneration system.
In this regard, somatic embryogenesis particularly secondary somatic
embryogenesis may offer an effective system for large scale plant
propagation without affecting the clonal fidelity of the regenerants. It
can be used for synthetic seed production, which further bolsters
conservation of this tree species which is otherwise very difficult
The present report describes the culture conditions necessary to
induce and maintain repetitive somatic embryogenesis, for the first
time, in neem. Out of various treatments tested, the somatic embryos
were induced directly from immature zygotic embryos of neem on
MS + TDZ (0.1 μM) + ABA (4 μM), in more than 76 % cultures.
Direct secondary somatic embryogenesis occurred from primary
somatic embryos on MS + IAA (5 μM) + GA3 (5 μM) in 12.5 %
cultures. Embryogenic competence of the explant as well as of the
primary embryos was maintained for a long period by repeated
subcultures at frequent intervals. A maximum of 10 % of these
somatic embryos were converted into plantlets.
Abstract: The Neuro-Fuzzy hybridization scheme has become
of research interest in pattern classification over the past decade. The
present paper proposes a novel Modified Adaptive Fuzzy Inference
Engine (MAFIE) for pattern classification. A modified Apriori
algorithm technique is utilized to reduce a minimal set of decision
rules based on input output data sets. A TSK type fuzzy inference
system is constructed by the automatic generation of membership
functions and rules by the fuzzy c-means clustering and Apriori
algorithm technique, respectively. The generated adaptive fuzzy
inference engine is adjusted by the least-squares fit and a conjugate
gradient descent algorithm towards better performance with a
minimal set of rules. The proposed MAFIE is able to reduce the
number of rules which increases exponentially when more input
variables are involved. The performance of the proposed MAFIE is
compared with other existing applications of pattern classification
schemes using Fisher-s Iris and Wisconsin breast cancer data sets and
shown to be very competitive.
Abstract: The charnockitic and associated granitic rocks of Akure area were studied for their field and petrographic relationship's. The outcrops locations were plotted in Surfer 8. The granitic rock exhibits a porphyritic texture and outcrops in the north-eastern side of the study area while the charnockitics outcrop in the central/western part. An essentially dark coloured and fine grained intrusive exhibiting xenoliths and xenocrysts (plagioclase phenocrysts) of the granite outcrops between the granitic and charnockitic rocks. Mineralogically, the central rock combines the content of the other two indicating that it is most likely a product of their hybridization. The charnockitic magma is believed to have intruded and assimilated the granite substantially thereby contaminating itself and consequently emplacing the hybrid. The presented model of emplacement elucidates the hybridization proposal. Conclusively, the charnockitics are believed to be (a) younger than the granite, (b) of Pan-African age and (c) of igneous origin.
Abstract: The Far From Most Strings Problem (FFMSP) is to obtain a string which is far from as many as possible of a given set of strings. All the input and the output strings are of the same length, and two strings are said to be far if their hamming distance is greater than or equal to a given positive integer. FFMSP belongs to the class of sequences consensus problems which have applications in molecular biology. The problem is NP-hard; it does not admit a constant-ratio approximation either, unless P = NP. Therefore, in addition to exact and approximate algorithms, (meta)heuristic algorithms have been proposed for the problem in recent years. On the other hand, in the recent years, hybrid algorithms have been proposed and successfully used for many hard problems in a variety of domains. In this paper, a new metaheuristic algorithm, called Constructive Beam and Local Search (CBLS), is investigated for the problem, which is a hybridization of constructive beam search and local search algorithms. More specifically, the proposed algorithm consists of two phases, the first phase is to obtain several candidate solutions via the constructive beam search and the second phase is to apply local search to the candidate solutions obtained by the first phase. The best solution found is returned as the final solution to the problem. The proposed algorithm is also similar to memetic algorithms in the sense that both use local search to further improve individual solutions. The CBLS algorithm is compared with the most recent published algorithm for the problem, GRASP, with significantly positive results; the improvement is by order of magnitudes in most cases.
Abstract: The paper presents a new hybridization methodology involving Neural, Fuzzy and Rough Computing. A Rough Sets based approximation technique has been proposed based on a certain Neuro – Fuzzy architecture. A New Rough Neuron composition consisting of a combination of a Lower Bound neuron and a Boundary neuron has also been described. The conventional convergence of error in back propagation has been given away for a new framework based on 'Output Excitation Factor' and an inverse input transfer function. The paper also presents a brief comparison of performances, of the existing Rough Neural Networks and ANFIS architecture against the proposed methodology. It can be observed that the rough approximation based neuro-fuzzy architecture is superior to its counterparts.
Abstract: Phylogenies ; The evolutionary histories of groups of
species are one of the most widely used tools throughout the life
sciences, as well as objects of research with in systematic,
evolutionary biology. In every phylogenetic analysis reconstruction
produces trees. These trees represent the evolutionary histories of
many groups of organisms, bacteria due to horizontal gene transfer
and plants due to process of hybridization. The process of gene
transfer in bacteria and hybridization in plants lead to reticulate
networks, therefore, the methods of constructing trees fail in
constructing reticulate networks. In this paper a model has been
employed to reconstruct phylogenetic network in honey bee. This
network represents reticulate evolution in honey bee. The maximum
parsimony approach has been used to obtain this reticulate network.
Abstract: Due to heightened concerns over environmental and economic issues the growing important of air pollution, and the importance of conserving fossil fuel resources in the world, the automotive industry is now forced to produce more fuel efficient, low emission vehicles and new drive system technologies. One of the most promising technologies to receive attention is the hybrid electric vehicle (HEV), which consists of two or more energy sources that supply energy to electric traction motors that in turn drive the wheels. This paper presents the various structures of HEV systems, the basic theoretical knowledge for describing their operation and the general behaviour of the HEV in acceleration, cruise and deceleration phases. The conventional design and sizing of a series HEV is studied. A conventional bus and its series configuration are defined and evaluated using the ADVISOR. In this section the simulation of a standard driving cycle and prediction of its fuel consumption and emissions of the HEV are discussed. Finally the bus performance is investigated to establish whether it can satisfy the performance, fuel consumption and emissions requested. The validity of the simulation has been established by the close conformity between the fuel consumption of the conventional bus reported by the manufacturer to what has achieved from the simulation.
Abstract: In this paper, the feasibility study of using a hybrid
system of ground heat exchangers (GHE) and direct evaporative
cooling system in arid weather condition has been performed. The
model is applied for Yazd and Kerman, two cities with arid weather
condition in Iran. The system composed of three sections: Ground-
Coupled-Circuit (GCC), Direct Evaporative Cooler (DEC) and
Cooling Coil Unite (CCU). The GCC provides the necessary precooling
for DEC. The GCC includes four vertical GHE which are
designed in series configuration. Simulation results show that
hybridization of GCC and DEC could provide comfort condition
whereas DEC alone did not. Based on the results the cooling
effectiveness of a hybrid system is more than unity. Thus, this novel
hybrid system could decrease the air temperature below the ambient
wet-bulb temperature. This environmentally clean and energy
efficient system can be considered as an alternative to the mechanical
vapor compression systems.
Abstract: We demonstrate a nonfaradaic electrochemical impedance spectroscopy measurement of biochemically modified gold plated electrodes using a two-electrode system. The absence of any redox indicator in the impedance measurements provide more precise and accurate characterization of the measured bioanalyte at molecular resolution. An equivalent electrical circuit of the electrodeelectrolyte interface was deduced from the observed impedance data of saline solution at low and high concentrations. The detection of biomolecular interactions was fundamentally correlated to electrical double-layer variation at modified interface. The investigations were done using 20mer deoxyribonucleic acid (DNA) strands without any label. Surface modification was performed by creating mixed monolayer of the thiol-modified single-stranded DNA and a spacer thiol (mercaptohexanol) by a two-step self-assembly method. The results clearly distinguish between the noncomplementary and complementary hybridization of DNA, at low frequency region below several hundreds Hertz.
Abstract: Hybridization refers to the crossing breeding of two
plants. Coefficient of Parentage (COP) is used by the plant breeders
to determine the genetic diversity across various varieties so as to
incorporate the useful characters of the two varieties to develop a
new crop variety with particular useful characters. Genetic Diversity
is the prerequisite for any cultivar development program. Genetic
Diversity depends upon the pedigree information of the varieties
based on particular levels. Pedigree refers to the parents of a
particular variety at various levels. This paper discusses the searching
and analyses of different possible pairs of varieties selected on the
basis of morphological characters, Climatic conditions and Nutrients
so as to obtain the most optimal pair that can produce the required
crossbreed variety. An algorithm was developed to determine the
coefficient of parentage (COP) between the selected wheat varieties.
Dummy values were used wherever actual data was not available.
Abstract: This study proposes a multi-response surface
optimization problem (MRSOP) for determining the proper choices
of a process parameter design (PPD) decision problem in a noisy
environment of a grease position process in an electronic industry.
The proposed models attempts to maximize dual process responses
on the mean of parts between failure on left and right processes. The
conventional modified simplex method and its hybridization of the
stochastic operator from the hunting search algorithm are applied to
determine the proper levels of controllable design parameters
affecting the quality performances. A numerical example
demonstrates the feasibility of applying the proposed model to the
PPD problem via two iterative methods. Its advantages are also
discussed. Numerical results demonstrate that the hybridization is
superior to the use of the conventional method. In this study, the
mean of parts between failure on left and right lines improve by
39.51%, approximately. All experimental data presented in this
research have been normalized to disguise actual performance
measures as raw data are considered to be confidential.
Abstract: In molecular biology, microarray technology is widely and successfully utilized to efficiently measure gene activity. If working with less studied organisms, methods to design custom-made microarray probes are available. One design criterion is to select probes with minimal melting temperature variances thus ensuring similar hybridization properties. If the microarray application focuses on the investigation of metabolic pathways, it is not necessary to cover the whole genome. It is more efficient to cover each metabolic pathway with a limited number of genes. Firstly, an approach is presented which minimizes the overall melting temperature variance of selected probes for all genes of interest. Secondly, the approach is extended to include the additional constraints of covering all pathways with a limited number of genes while minimizing the overall variance. The new optimization problem is solved by a bottom-up programming approach which reduces the complexity to make it computationally feasible. The new method is exemplary applied for the selection of microarray probes in order to cover all fungal secondary metabolite gene clusters for Aspergillus terreus.
Abstract: This paper presents a method of model selection and
identification of Hammerstein systems by hybridization of the genetic
algorithm (GA) and particle swarm optimization (PSO). An unknown
nonlinear static part to be estimated is approximately represented
by an automatic choosing function (ACF) model. The weighting
parameters of the ACF and the system parameters of the linear
dynamic part are estimated by the linear least-squares method. On
the other hand, the adjusting parameters of the ACF model structure
are properly selected by the hybrid algorithm of the GA and PSO,
where the Akaike information criterion is utilized as the evaluation
value function. Simulation results are shown to demonstrate the
effectiveness of the proposed hybrid algorithm.
Abstract: A time-domain numerical model within the
framework of transmission line modeling (TLM) is developed to
simulate electromagnetic pulse propagation inside multiple
microcavities forming photonic crystal (PhC) structures. The model
developed is quite general and is capable of simulating complex
electromagnetic problems accurately. The field quantities can be
mapped onto a passive electrical circuit equivalent what ensures that
TLM is provably stable and conservative at a local level.
Furthermore, the circuit representation allows a high level of
hybridization of TLM with other techniques and lumped circuit
models of components and devices. A photonic crystal structure
formed by rods (or blocks) of high-permittivity dieletric material
embedded in a low-dielectric background medium is simulated as an
example. The model developed gives vital spatio-temporal
information about the signal, and also gives spectral information over
a wide frequency range in a single run. The model has wide
applications in microwave communication systems, optical
waveguides and electromagnetic materials simulations.
Abstract: Most of fuzzy clustering algorithms have some
discrepancies, e.g. they are not able to detect clusters with convex
shapes, the number of the clusters should be a priori known, they
suffer from numerical problems, like sensitiveness to the
initialization, etc. This paper studies the synergistic combination of
the hierarchical and graph theoretic minimal spanning tree based
clustering algorithm with the partitional Gath-Geva fuzzy clustering
algorithm. The aim of this hybridization is to increase the robustness
and consistency of the clustering results and to decrease the number
of the heuristically defined parameters of these algorithms to
decrease the influence of the user on the clustering results. For the
analysis of the resulted fuzzy clusters a new fuzzy similarity measure
based tool has been presented. The calculated similarities of the
clusters can be used for the hierarchical clustering of the resulted
fuzzy clusters, which information is useful for cluster merging and
for the visualization of the clustering results. As the examples used
for the illustration of the operation of the new algorithm will show,
the proposed algorithm can detect clusters from data with arbitrary
shape and does not suffer from the numerical problems of the
classical Gath-Geva fuzzy clustering algorithm.
Abstract: Using DNA microarrays the comparative analysis of a
gene expression profiles is carried out in a liver and kidneys of pigs.
The hypothesis of a cross hybridization of one probe with different
cDNA sites of the same gene or different genes is checked up, and it
is shown, that cross hybridization can be a source of essential errors
at revealing of a key genes in organ-specific transcriptome. It is
reveald that distinctions in profiles of a gene expression are well coordinated
with function, morphology, biochemistry and histology of
these organs.
Abstract: In this paper, a new Genetic Algorithm (GA) based
methodology is proposed to optimize the Degree of Hybridization
(DOH) in a passenger parallel hybrid car. At first step, target
parameters for the vehicle are decided and then using ADvanced
VehIcle SimulatOR (ADVISOR) software, the variation pattern of
these target parameters, across the different DOHs, is extracted. At
the next step, a suitable cost function is defined and is optimized
using GA. In this paper, also a new technique has been proposed for
deciding the number of battery modules for each DOH, which leads
to a great improvement in the vehicle performance. The proposed
methodology is so simple, fast and at the same time, so efficient.