Abstract: MicroRNAs (miRNAs), a class of approximately 22 nucleotide long non coding RNAs which play critical role in different biological processes. The mature microRNA is usually 19–27 nucleotides long and is derived from a bigger precursor that folds into a flawed stem-loop structure. Mature micro RNAs are involved in many cellular processes that encompass development, proliferation, stress response, apoptosis, and fat metabolism by gene regulation. Resent finding reveals that certain viruses encode their own miRNA that processed by cellular RNAi machinery. In recent research indicate that cellular microRNA can target the genetic material of invading viruses. Cellular microRNA can be used in the virus life cycle; either to up regulate or down regulate viral gene expression Computational tools use in miRNA target prediction has been changing drastically in recent years. Many of the methods have been made available on the web and can be used by experimental researcher and scientist without expert knowledge of bioinformatics. With the development and ease of use of genomic technologies and computational tools in the field of microRNA biology has superior tremendously over the previous decade. This review attempts to give an overview over the genome wide approaches that have allow for the discovery of new miRNAs and development of new miRNA target prediction tools and databases.
Abstract: Drought stress is a critical environmental factor that adversely affects crop productivity and quality. Because of their immobile nature, plants have evolved mechanisms to sense and respond to drought stress. We identified a novel locus of Arabidopsis, designated DRA1 (drought responsive ankyrin1), whose disruption leads to increased drought-stress tolerance. DRA1 encodes a transmembrane protein with an ankyrin-repeat motif that has been implicated in diverse cellular processes such as signal transduction. RT-PCR analysis revealed that there were at least two splicing variants of DRA1 transcripts in wild-type plants. In response to drought stress, the levels of DRA1 transcripts retaining second and third introns were increased, whereas these introns were removed under unstressed conditions. These results suggest that DRA1 protein may negatively regulate plant drought tolerance and that the expression of DRA1is regulated in response to drought stress by alternative splicing.
Abstract: Performance of Orthogonal Frequency Division Multiplexing (OFDM) system can be improved by adding channel coding (error correction code) to detect and correct errors that occur during data transmission. One can use the convolution code. This paper present performance of OFDM using Space Time Block Codes (STBC) diversity technique use QAM modulation with code rate ½. The evaluation is done by analyzing the value of Bit Error Rate (BER) vs. Energy per Bit to Noise Power Spectral Density Ratio (Eb/No). This scheme is conducted 256 subcarrier transmits Rayleigh multipath channel in OFDM system. To achieve a BER of 10-3 is required 10dB SNR in SISO-OFDM scheme. For 2x2 MIMO-OFDM scheme requires 10 dB to achieve a BER of 10-3. For 4x4 MIMO-OFDM scheme requires 5 dB while adding convolution in a 4x4 MIMO-OFDM can improve performance up to 0 dB to achieve the same BER. This proves the existence of saving power by 3 dB of 4x4 MIMO-OFDM system without coding, power saving 7dB of 2x2 MIMO-OFDM and significant power savings from SISO-OFDM system
Abstract: When using modern Code Division Multiple Access (CDMA) in mobile communications, the user must be able to vary the transmission rate of users to allocate bandwidth efficiently. In this work, Orthogonal Variable Spreading Factor (OVSF) codes are used with the same principles applied in a low-rate superorthogonal turbo code due to their variable-length properties. The introduced system is the Variable Rate Superorthogonal Turbo Code (VRSTC) where puncturing is not performed on the encoder’s final output but rather before selecting the output to achieve higher rates. Due to bandwidth expansion, the codes outperform an ordinary turbo code in the AWGN channel. Simulations results show decreased performance compared to those obtained with the employment of Walsh-Hadamard codes. However, with OVSF codes, the VRSTC system keeps the orthogonality of codewords whilst producing variable rate codes contrary to Walsh-Hadamard codes where puncturing is usually performed on the final output.
Abstract: Drought stress is a critical environmental factor that adversely affects crop productivity and quality. Because of their immobile nature, plants have evolved mechanisms to sense and respond to drought stress. We identified a novel locus of Arabidopsis, designated DRA1 (drought responsive ankyrin1), whose disruption leads to increased drought-stress tolerance. DRA1 encodes a transmembrane protein with an ankyrin-repeat motif that has been implicated in diverse cellular processes such as signal transduction. RT-PCR analysis revealed that there were at least two splicing variants of DRA1 transcripts in wild-type plants. In response to drought stress, the levels of DRA1 transcripts retaining second and third introns were increased, whereas these introns were removed under unstressed conditions. These results suggest that DRA1 protein may negatively regulate plant drought tolerance and that the expression of DRA1is regulated in response to drought stress by alternative splicing.
Abstract: This paper explain about prototype of a business directory for micro-scale businesses, small and medium enterprises (SMEs), the third phase of the research. The third phase is the phase of software development based on the model of SME business directory that had been developed, to create prototype software SME business directory. In the fourth phase, namely the implementation, these units have been developed are tested to obtain input from potential users. The fifth phase is the testing phase to determine the strengths and weaknesses of software has been developed. The result of this phase is the software in the form of on-line (web based) and multimedia-based. Business Directory, if implemented will facilitate and optimize the access of SMEs to ease supplier access to marketing. Business Directory will be equipped with the power of geocoding, so each location can be easily viewed SMEs on the map. The map will be constructed by using the functionality of a web-based Google Maps API. The information presented in the form of multimedia that can be more interesting and interactive. Methodology used to achieve the goal: observation, interviews, modeling and classifying business directory for SMEs.
Abstract: Error correcting codes are used for detection and correction of errors in digital communication system. Error correcting coding is based on appending of redundancy to the information message according to a prescribed algorithm. Reed Solomon codes are part of channel coding and withstand the effect of noise, interference and fading. Galois field arithmetic is used for encoding and decoding reed Solomon codes. Galois field multipliers and linear feedback shift registers are used for encoding the information data block. The design of Reed Solomon encoder is complex because of use of LFSR and Galois field arithmetic. The purpose of this paper is to design and implement Reed Solomon (255, 239) encoder with optimized and lesser number of Galois Field multipliers. Symmetric generator polynomial is used to reduce the number of GF multipliers. To increase the capability toward error correction, convolution interleaving will be used with RS encoder. The Design will be implemented on Xilinx FPGA Spartan II.
Abstract: Now a days video data embedding approach is a very challenging and interesting task towards keeping real time video data secure. We can implement and use this technique with high-level applications. As the rate-distortion of any image is not confirmed, because the gain provided by accurate image frame segmentation are balanced by the inefficiency of coding objects of arbitrary shape, with a lot factors like losses that depend on both the coding scheme and the object structure. By using rate controller in association with the encoder one can dynamically adjust the target bitrate. This paper discusses about to keep secure videos by mixing signature data with negligible distortion in the original video, and to keep steganographic video as closely as possible to the quality of the original video. In this discussion we propose the method for embedding the signature data into separate video frames by the use of block Discrete Cosine Transform. These frames are then encoded by real time encoding H.264 scheme concepts. After processing, at receiver end recovery of original video and the signature data is proposed.
Abstract: Digital libraries become more and more necessary in
order to support users with powerful and easy-to-use tools for
searching, browsing and retrieving media information. The starting
point for these tasks is the segmentation of video content into shots.
To segment MPEG video streams into shots, a fully automatic
procedure to detect both abrupt and gradual transitions (dissolve and
fade-groups) with minimal decoding in real time is developed in this
study. Each was explored through two phases: macro-block type's
analysis in B-frames, and on-demand intensity information analysis.
The experimental results show remarkable performance in
detecting gradual transitions of some kinds of input data and
comparable results of the rest of the examined video streams. Almost
all abrupt transitions could be detected with very few false positive
alarms.
Abstract: We explore entanglement in composite quantum systems
and how its peculiar properties are exploited in quantum
information and communication protocols by means of Diagrams
of States, a novel method to graphically represent and analyze how
quantum information is elaborated during computations performed
by quantum circuits.
We present quantum diagrams of states for Bell states generation,
measurements and projections, for dense coding and quantum teleportation,
for probabilistic quantum machines designed to perform
approximate quantum cloning and universal NOT and, finally, for
quantum privacy amplification based on entanglement purification.
Diagrams of states prove to be a useful approach to analyze quantum
computations, by offering an intuitive graphic representation of the
processing of quantum information. They also help in conceiving
novel quantum computations, from describing the desired information
processing to deriving the final implementation by quantum gate
arrays.
Abstract: In this paper we introduce an effective ECG compression algorithm based on two dimensional multiwavelet transform. Multiwavelets offer simultaneous orthogonality, symmetry and short support, which is not possible with scalar two-channel wavelet systems. These features are known to be important in signal processing. Thus multiwavelet offers the possibility of superior performance for image processing applications. The SPIHT algorithm has achieved notable success in still image coding. We suggested applying SPIHT algorithm to 2-D multiwavelet transform of2-D arranged ECG signals. Experiments on selected records of ECG from MIT-BIH arrhythmia database revealed that the proposed algorithm is significantly more efficient in comparison with previously proposed ECG compression schemes.
Abstract: This paper presents a new Quality-Controlled, wavelet based, compression method for electrocardiogram (ECG) signals. Initially, an ECG signal is decomposed using the wavelet transform. Then, the resulting coefficients are iteratively thresholded to guarantee that a predefined goal percent root mean square difference (GPRD) is matched within tolerable boundaries. The quantization strategy of extracted non-zero wavelet coefficients (NZWC), according to the combination of RLE, HUFFMAN and arithmetic encoding of the NZWC and a resulting look up table, allow the accomplishment of high compression ratios with good quality reconstructed signals.
Abstract: Software Reusability is primary attribute of software
quality. There are metrics for identifying the quality of reusable
components but the function that makes use of these metrics to find
reusability of software components is still not clear. These metrics if
identified in the design phase or even in the coding phase can help us
to reduce the rework by improving quality of reuse of the component
and hence improve the productivity due to probabilistic increase in
the reuse level. In this paper, we have devised the framework of
metrics that uses McCabe-s Cyclometric Complexity Measure for
Complexity measurement, Regularity Metric, Halstead Software
Science Indicator for Volume indication, Reuse Frequency metric
and Coupling Metric values of the software component as input
attributes and calculated reusability of the software component. Here,
comparative analysis of the fuzzy, Neuro-fuzzy and Fuzzy-GA
approaches is performed to evaluate the reusability of software
components and Fuzzy-GA results outperform the other used
approaches. The developed reusability model has produced high
precision results as expected by the human experts.
Abstract: Mostly transforms are used for speech data
compressions which are lossy algorithms. Such algorithms are
tolerable for speech data compression since the loss in quality is not
perceived by the human ear. However the vector quantization (VQ)
has a potential to give more data compression maintaining the same
quality. In this paper we propose speech data compression algorithm
using vector quantization technique. We have used VQ algorithms
LBG, KPE and FCG. The results table shows computational
complexity of these three algorithms. Here we have introduced a new
performance parameter Average Fractional Change in Speech
Sample (AFCSS). Our FCG algorithm gives far better performance
considering mean absolute error, AFCSS and complexity as
compared to others.
Abstract: Mammalian genomes contain large number of
retroelements (SINEs, LINEs and LTRs) which could affect
expression of protein coding genes through associated transcription
factor binding sites (TFBS). Activity of the retroelement-associated
TFBS in many genes is confirmed experimentally but their global
functional impact remains unclear. Human SINEs (Alu repeats) and
mouse SINEs (B1 and B2 repeats) are known to be clustered in GCrich
gene rich genome segments consistent with the view that they
can contribute to regulation of gene expression. We have shown
earlier that Alu are involved in formation of cis-regulatory modules
(clusters of TFBS) in human promoters, and other authors reported
that Alu located near promoter CpG islands have an increased
frequency of CpG dinucleotides suggesting that these Alu are
undermethylated. Human Alu and mouse B1/B2 elements have an
internal bipartite promoter for RNA polymerase III containing
conserved sequence motif called B-box which can bind basal
transcription complex TFIIIC. It has been recently shown that TFIIIC
binding to B-box leads to formation of a boundary which limits
spread of repressive chromatin modifications in S. pombe. SINEassociated
B-boxes may have similar function but conservation of
TFIIIC binding sites in SINEs located near mammalian promoters
has not been studied earlier. Here we analysed abundance and
distribution of retroelements (SINEs, LINEs and LTRs) in annotated
sequences of the Database of mammalian transcription start sites
(DBTSS). Fractions of SINEs in human and mouse promoters are
slightly lower than in all genome but >40% of human and mouse
promoters contain Alu or B1/B2 elements within -1000 to +200 bp
interval relative to transcription start site (TSS). Most of these SINEs
is associated with distal segments of promoters (-1000 to -200 bp
relative to TSS) indicating that their insertion at distances >200 bp
upstream of TSS is tolerated during evolution. Distribution of SINEs
in promoters correlates negatively with the distribution of CpG
sequences. Using analysis of abundance of 12-mer motifs from the
B1 and Alu consensus sequences in genome and DBTSS it has been
confirmed that some subsegments of Alu and B1 elements are poorly
conserved which depends in part on the presence of CpG
dinucleotides. One of these CpG-containing subsegments in B1
elements overlaps with SINE-associated B-box and it shows better
conservation in DBTSS compared to genomic sequences. It has been
also studied conservation in DBTSS and genome of the B-box
containing segments of old (AluJ, AluS) and young (AluY) Alu
repeats and found that CpG sequence of the B-box of old Alu is
better conserved in DBTSS than in genome. This indicates that Bbox-
associated CpGs in promoters are better protected from
methylation and mutation than B-box-associated CpGs in genomic
SINEs. These results are consistent with the view that potential
TFIIIC binding motifs in SINEs associated with human and mouse
promoters may be functionally important. These motifs may protect
promoters from repressive histone modifications which spread from
adjacent sequences. This can potentially explain well known
clustering of SINEs in GC-rich gene rich genome compartments and
existence of unmethylated CpG islands.
Abstract: In this paper we present a study of the impact of connection schemes on the performance of iterative decoding of Generalized Parallel Concatenated block (GPCB) constructed from one step majority logic decodable (OSMLD) codes and we propose a new connection scheme for decoding them. All iterative decoding connection schemes use a soft-input soft-output threshold decoding algorithm as a component decoder. Numerical result for GPCB codes transmitted over Additive White Gaussian Noise (AWGN) channel are provided. It will show that the proposed scheme is better than Hagenauer-s scheme and Lucas-s scheme [1] and slightly better than the Pyndiah-s scheme.
Abstract: This paper proposes the use of metrics in design space exploration that highlight where in the structure of the model and at what point in the behaviour, prevention is needed against transient faults. Previous approaches to tackle transient faults focused on recovery after detection. Almost no research has been directed towards preventive measures. But in real-time systems, hard deadlines are performance requirements that absolutely must be met and a missed deadline constitutes an erroneous action and a possible system failure. This paper proposes the use of metrics to assess the system design to flag where transient faults may have significant impact. These tools then allow the design to be changed to minimize that impact, and they also flag where particular design techniques – such as coding of communications or memories – need to be applied in later stages of design.
Abstract: A new sythetic gene coding for a Human
Elastin-Like Polypeptide was constructed and expressed. The
recombinant product was tested as coating agent to realize a
surface suitable for cell growth. Coatings showed peculiar
features and different human cell lines were seeded and
cultured. All cell lines tested showed to adhere and proliferate
on this substrate that has been shown also to exert a specific
effect on cells, depending on cell type.
Abstract: Integrins are a large family of multidomain α/β cell
signaling receptors. Some integrins contain an additional inserted I
domain, whose earliest expression appears to be with the chordates,
since they are observed in the urochordates Ciona intestinalis (vase
tunicate) and Halocynthia roretzi (sea pineapple), but not in integrins
of earlier diverging species. The domain-s presence is viewed as a
hallmark of integrins of higher metazoans, however in vertebrates,
there are clearly three structurally-different classes: integrins without
I domains, and two groups of integrins with I domains but separable
by the presence or absence of an additional αC helix. For example,
the αI domains in collagen-binding integrins from Osteichthyes
(bony fish) and all higher vertebrates contain the specific αC helix,
whereas the αI domains in non-collagen binding integrins from
vertebrates and the αI domains from earlier diverging urochordate
integrins, i.e. tunicates, do not. Unfortunately, within the early
chordates, there is an evolutionary gap due to extinctions between the
tunicates and cartilaginous fish. This, coupled with a knowledge gap
due to the lack of complete genomic data from surviving species,
means that the origin of collagen-binding αC-containing αI domains
remains unknown. Here, we analyzed two available genomes from
Callorhinchus milii (ghost shark/elephant shark; Chondrichthyes –
cartilaginous fish) and Petromyzon marinus (sea lamprey;
Agnathostomata), and several available Expression Sequence Tags
from two Chondrichthyes species: Raja erinacea (little skate) and
Squalus acanthias (dogfish shark); and Eptatretus burgeri (inshore
hagfish; Agnathostomata), which evolutionary reside between the
urochordates and osteichthyes. In P. marinus, we observed several
fragments coding for the αC-containing αI domain, allowing us to
shed more light on the evolution of the collagen-binding integrins.
Abstract: Evapotranspiration (ET) is a major component of the hydrologic cycle and its accurate estimation is essential for hydrological studies. In past, various estimation methods have been developed for different climatological data, and the accuracy of these methods varies with climatic conditions. Reference crop evapotranspiration (ET0) is a key variable in procedures established for estimating evapotranspiration rates of agricultural crops. Values of ET0 are used with crop coefficients for many aspects of irrigation and water resources planning and management. Numerous methods are used for estimating ET0. As per internationally accepted procedures outlined in the United Nations Food and Agriculture Organization-s Irrigation and Drainage Paper No. 56(FAO-56), use of Penman-Monteith equation is recommended for computing ET0 from ground based climatological observations. In the present study, seven methods have been selected for performance evaluation. User friendly software has been developed using programming language visual basic. The visual basic has ability to create graphical environment using less coding. For given data availability the developed software estimates reference evapotranspiration for any given area and period for which data is available. The accuracy of the software has been checked by the examples given in FAO-56.The developed software is a user friendly tool for estimating ET0 under different data availability and climatic conditions.