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2008 IEEE Antennas and Propagation Society International Symposium (APSURSI 2008), vol.8

作者： Ana Vazquez Alejos Muhammed Dawood Habeeb Ur Rahman Mohammed Manuel G. Sanchez Russell P. Jedlicka Inigo Cuinas Department Teoria do Sinal e Comunicacions University of Vigo Vigo Spain EMAG and Wireless Engineering Group Klipsch ECE NM USA

ISBN: (纸本)9781424420414

At present, widely-used Ground Penetration Radar (GPR) systems either use very short pulses or linear frequency modulated waveforms, and are based on either mono- or bi-static configurations. These systems suffer from having stronger sidelobes, thereby masking weaker returns from subtle changes and making it difficult to detect these changes. To overcome the problem of stronger sidelobes, various coding techniques have been proposed with varying degrees of success. The problem of embedded weaker returns in the stronger returns can be minimized to a great extent with the help of complementary Golay sequences. The performance of Golay sequences in terms of reduced sidelobe levels is considered better than that of pseudorandom binary sequences (PRBS), Barker or other maximal length sequences. A GPR system operating at 500 MHz with a bandwidth of 250 MHz is designed and developed at the New Mexico State University (NMSU). We have tested the performance of Golay and PRBS sequences using 4096 and 8192 length sequences, respectively. Our tests on roof-top of Thomas and Brown indicate that Golay sequence has lower sidelobe level than PRBS sequences. Different ranges of the targets where the experiment was performed were successfully determined. In this paper, we present some of our results.

关键词： sidelobe side lobe level coding sequence low sidelobe radar Short pulses ground penetrating radar New Mexico

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Amplification of Orthologous Genes Using Degenerate Primers

Amplification of Orthologous Genes Using Degenerate Primers

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作者： Samya Chakravorty Jim O. Vigoreaux

This chapter describes the use of degenerate primers for PCR amplification of orthologous DNA from related species. While several methods for designing degenerate primers have been described, an important consideration is to base the design on a short region of highly conserved amino acids. Here, we present the use of a degenerate primer design strategy called Consensus-degenerate hybrid oligonucleotide primer (CODEHOP). This strategy is very useful when there is low conservation in the multiple alignments of sequences across species. We demonstrate the use of CODEHOP to amplify the entire coding region of the flightin gene from multiple Drosophila species. less

关键词： Agarose Gel Electrophoresis Reverse Transcription PCR PCR RNA Extraction ClustalW Multiple sequence Alignment Drosophila Drosophila melanogaster Drosophila mojavensis Drosophila repleta Drosophila funebris Drosophila hydei Saccharomyces cerevisiae Zea mays Triticum aestivum Evolutionary genetics Muscle Degenerate primers Phylogeny CODEHOP coding sequence Flightin

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Insight into DNA periodicity by a single-channel sequence data approach

Insight into DNA periodicity by a single-channel sequence da...

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Annual International Conference of the IEEE Engineering in Medicine and Biology Society

作者： Mariusz Zoltowski CM UMK

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

关键词： Digital signal processing Insight single-channel coding sequence Desmoplakin Gene Rhythms Periodicity Genetic Code Homo sapiens spectral feature histograms DNA self-similarity

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Cloning and expression of neuron-specific enolase in the corpus luteum of dairy goats

Cloning and expression of neuron-specific enolase in the cor...

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中国畜牧兽医学会动物解剖学及组织胚胎学分会第十七次学术研讨会

作者： MENG Xia CHEN Shu-lin MO Hong-fei LI Fei-hu TANG Cai-yan ZHANG Wen-hua WANG Zhong-hui Zhao Shan-ting College of Veterinary Medicine Northwest A ＆ F University

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.

关键词： neuron-specific enolase corpus luteum diffuse neuroendocrine system immunofluorescence staining molecular cloning coding sequence

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BLIND RECEIVERS FOR MISO COMMUNICATION SYSTEMS USING A NONLINEAR PRECODER

BLIND RECEIVERS FOR MISO COMMUNICATION SYSTEMS USING A NONLI...

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European Signal Processing Conference

作者： Alain Y. Kibangou GIPSA-Lab/Control Systems Department/University Joseph Fourier/CNRS

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.

关键词： Receivers Seeds COMMUNICATION SYSTEMS coding sequence Kernel multiple-input single-output Load factors Tensor

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Application LFM Signals in Identification Systems with SAW Tags

Application LFM Signals in Identification Systems with SAW T...

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Wave Electronics and its Application in Information and Telecommunication Systems (WECONF)

作者： A. R. Zhezherin I.D. Fedorov Saint Petersburg University of Aerospace Instrumentation Saint Petersburg Russia

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.

关键词： SAW tag leaner frequency modulated (LFM) signal auto correlation function (ACF) cross correlation function (CCF) frequency-shift key (FSK) signal impulse response of tag code sequence TAGGING coding sequence LFM Surface acoustic waves IDENTIFICATION SYSTEMS IMPULSE RESPONSE

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A Novel Polyphase Code for Sidelobe Suppression

A Novel Polyphase Code for Sidelobe Suppression

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2007 International Waveform Diversity & Design Conference

作者： Stephen Searle Stephen Howard Department of Electrical and Electronic Engineering University of Melbourne Australia Defence Science and Technology Organisation Edinburgh SA Australia

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.

关键词： Golay codes sidelobe Codes Radar reflection MULTIPLEXOR sidelobe reduction MULTI-PHASE Complementary Autocorrelation Plazas Square main lobe coding sequence

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Submitting a sequence to GenBank

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Current Protocols Essential Laboratory Techniques 2009年第1期1卷 11.2.1-11.2.20页

作者： Wei‐Jen Chang Thomas W. Coppola Hamilton College Clinton New York

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 submission to sequence databases? In this unit, we provide guidelines and a flow chart to help first‐time users process new sequence data using third‐party freeware programs and give a step‐by‐step demonstration on the preparation of a sequence file for submission to GenBank using the Sequin program. Curr. Protoc. Essential Lab. Tech. 1:11.2.1‐11.2.20. © 2009 by John Wiley & Sons, Inc.

关键词： Sequin BankIt bioinformatics BLAST BioEdit Jalview coding sequence

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Genome editing and bioinformatics

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Gene and Genome Editing 2022年 3-4卷

作者： Kazuki Nakamae Hidemasa Bono Laboratory 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-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.

关键词： Bioinformatics Genome editing Genome sequencing Bibliome Transcriptome Database BioDX bio-digital transformation NGS next-generation sequencing NIH National Institutes of Health NLM National Library of Medicine CLI Command Line Interface BE Base Editor PE Prime Editor sgRNA single guide RNA pegRNA prime editing guide RNA CDS coding sequence RBPs RNA Binding Proteins lncRNAs long non-coding RNAs TALE transcription activator-like effector ZF Zinc finger TALEN TALE nuclease ZFN ZF nuclease RVDs repeat-variable di-residues ZFDs zinc finger deaminases DSB double-strand break HTS high-throughput DNA sequencing CCS circular consensus sequencing ONTs Oxford Nanopore Technologies PacBio Pacific Bioscience TIDE Tracking the Indels by DEcomposition ICE Inference of CRISPR Edits DECODR Deconvolution of Complex DNA Repair Cas CRISPR-associated protein ORCS Open Repository of CRISPR Screens SNVs single nucleotide variants PMC PubMedCentral GUI graphical user interface API Application Programming Interface GEO Gene Expression Omnibus EBI European Bioinformatics Institute DDBJ DNA Data Bank of Japan GEA Genomic Expression Archive AOE All of gene expression TEs transposable elements FANTOM functional annotation of mouse MGI mouse genome informatics nr non-redundant EU-SAGE European Sustainable Agriculture through Genome Editing

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