It has not been obvious how to map a genomic sequence into the numbers to elucidate its periodicities by digital signal processing (DSP) in accord with the underlying biology [1]. The well known DNA spectra and their ...
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ISBN:
(纸本)9781424441211
It has not been obvious how to map a genomic sequence into the numbers to elucidate its periodicities by digital signal processing (DSP) in accord with the underlying biology [1]. The well known DNA spectra and their extensions appear the A-T-C-G - base-wise by Fourier (FT), wavelet (WT) or related transforms of the indicatory functions (IF-s) of these bases. The IF assumes either 1 -in the presence or 0 in the absence of the indicated base in sequence. The IF's spectra can be next combined in a different way including the optimal one to provide the net spectrum [2]. In this contribution, it is attempted, and not limited to;showing that single channel numeric DNA also turns out to be sufficient for biologically meaningful results by DSP with accompanying merits. Plausibility is possible considering any RNA message as a single-channel coded waveform;by the triplets of the codon bases which code for 20 different amino acids. This in turn enables a clear justification for the coding rhythm in terms of the codon usage frequency (CUF) and the gene series autocorrelation. The latter simply assesses a self-similarity of the message. Along with appending well established communication insight to biological perspectives, the answer to how the genetic code is becoming specific, inducing the self-similarity of the coded sequences under the three-base-shift case is addressed. Supporting the focus, there are some findings in vertebrates' genes data elucidated by the EMD of Huang-Hilbert transform (H-HT) [3];these are long-term spectra relevant to the coding, the content of dicodons and the structural properties of coded proteins [4]. Also a new finding in the coding rhythm - the one which is attributed to the coding DNA, is included. This is the net coding rhythms in Homo sapiens, Homo sapiens house-keeping and vertebrates' genes comparison by histograms of adaptively tracked amplitudes case. It is intriguing how spectral features of genomic sequences correspond to related physi
Neuron-specific enolase(NSE) is the key molecular marker for diffuse neuroendocrine system (DNES) cells,its expression in the pregnant corpus luteum(CL) of dairy goats was studied by the immunofluorescence method and ...
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Neuron-specific enolase(NSE) is the key molecular marker for diffuse neuroendocrine system (DNES) cells,its expression in the pregnant corpus luteum(CL) of dairy goats was studied by the immunofluorescence method and the ultra structural characteristics of luteal cells were detected by the electron microscopy to identify the existence of DNES cells in the pregnant CL of dairy ***,the coding sequence of dairy goats NSE gene was cloned and its biological information was *** revealed that NSE immunopositive cells exhibited widespread cytoplasmic staining throughout the whole pregnant *** addition,these cells showed typical characteristics of DNES cells in the electron *** results suggested that many DNES cells exist in the pregnant CL of dairy goats. Meanwhile,we identified the coding sequence of dairy goats NSE(GenBank accession ***887466).Its nucleotide sequence homology was found to be 97.9%,89.3%,90%and 92.6%,respectively,compared with that of Bos taurus,Rattus norvegicus,Mus musculus and Homo sapiens,while the amino acid sequence homology was 99.1%,97%,97.2%and 98.2%*** results first showed that the functional amino acids coded by the NSE gene were highly conserved in Caprine,Bos taurus,Rattus norvegicus,Mus musculus and Homo *** was implied that the gene NSE in dairy goats had close homology to that of NSE of other *** findings demonstrated the possible existence of DNES cells in pregnant CL,providing new clue for further understanding of interactions between the neuroendocrine and reproductive *** of gene sequence of dairy goats NSE will enable us to synthesize interference RNA for further study on the role of NSE on the formation,function and apotosis of pregnant CL in dairy goats.
In this paper, we propose two blind decoding approaches for multi-input single-output (MISO) communication systems. We first introduce a nonlinear precoding scheme that allows viewing the received signal as a Volterra...
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In this paper, we propose two blind decoding approaches for multi-input single-output (MISO) communication systems. We first introduce a nonlinear precoding scheme that allows viewing the received signal as a Volterra-like model with the following properties: the input solely depends on the coding sequence, assumed to be known to the receiver, while the kernel is a multiway array depending on informative data and on the channel parameters. We show that such a kernel admits a PARAFAC tensor model. After estimating the kernel by using the coding sequence, the data symbols are then recovered. For this purpose, two methods are proposed. The first one directly computes the PARAFAC loading factors by means of an alternating least squares method. The second one solves the problem by means of a joint diagonalization of matrices constructed with the slices of the tensor. The performance of the proposed methods is evaluated by means of simulations.
The article describes the application leaner frequency modulated (LFM) signals in identification systems with surface acoustical wave (SAW) tags. There was investigated effectiveness of identification SAW tags. For cr...
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ISBN:
(数字)9781728149448
ISBN:
(纸本)9781728149455
The article describes the application leaner frequency modulated (LFM) signals in identification systems with surface acoustical wave (SAW) tags. There was investigated effectiveness of identification SAW tags. For create impulse response of tag had used frequency-shift- key (FSK) sequence. For analysis of identification tags correlation method was used. There was appreciated body of tags with prescribed cross-correlation level.
A binary code sequence attained by modification of a Golay code is proposed. This code has sidelobes which are out of phase with the main lobe, a property which facilitates their removal. Unknown delay-dependent phase...
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ISBN:
(纸本)9781424412754;1424412757;1424412765
A binary code sequence attained by modification of a Golay code is proposed. This code has sidelobes which are out of phase with the main lobe, a property which facilitates their removal. Unknown delay-dependent phase terms preclude the multiplexing of a Golay pair in frequency. However the modified Golay code is found to have an autocorrelation whose square is complementary with that of the code's original Golay partner. This enables complementary behavior to be achieved when the modified code is multiplexed at equal offsets both above and below the partner. Applications include sidelobe removal in radar returns.
In the post‐genomic era, more and more research projects involve the generation of molecular sequence data. How should these newly obtained DNA/protein sequences be analyzed, and how should they be prepared for submi...
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作者：
Kazuki NakamaeHidemasa BonoLaboratory of BioDX
PtBio Co-Creation Research Center Genome Editing Innovation Center Hiroshima University 3-10-23 Kagamiyama Higashi-Hiroshima 739-0046 Japan Laboratory of Genome Informatics
Graduate School of Integrated Sciences for Life Hiroshima University 3-10-23 Kagamiyama Higashi-Hiroshima 739-0046 Japan
Bioinformatics has become an indispensable technology in molecular biology for genome editing. In this review, we outline various bioinformatic techniques necessary for genome editing research. We first review state-o...
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Bioinformatics has become an indispensable technology in molecular biology for genome editing. In this review, we outline various bioinformatic techniques necessary for genome editing research. We first review state-of-the-art computational tools developed for genome editing studies. We then introduce a bio-digital transformation (BioDX) approach, which fully utilizes existing databases for biological innovation, and uses publicly available bibliographic full-text data and transcriptome data to survey genome editing target genes in model organism species, where substantial genomic information and annotation are readily available. We also discuss genome editing attempts in species with almost no genomic information. The transcriptome data, sequenced genomes, and functional annotations for these species are described, with a primary focus on the bioinformatic tools used for these analyses. Finally, we conclude on the need to maintain a database of genome editing resources for future development of genome editing research. Our review shows that the integration and maintenance of useful resources remains a challenge for bioinformatics research in genome editing, and that it is crucial for the research community to work together to create and maintain such databases in the future.
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