biological sequence analysis and characterization
Báo cáo khoa học: Tracking interactions that stabilize the dimer structure of starch phosphorylase from Corynebacterium callunae Roles of Arg234 and Arg242 revealed by sequence analysis and site-directed mutagenesis doc
... Cloning and sequencing of the StP gene Using the PCR primers p1 and p2, a 710-bp fragment was amplified from chromosomal C callunae DNA, blunt-end cloned into pUC 18, and sequenced The sequence ... StP is 41% identical to rmGP and 42% identical to EcMalP Figure maps structural and functional elements of rmGP [4] and EcMalP [3] onto the linear sequence of StP and thus measures the extent ... variation in the related enzymes from bacteria, fungi and plants Expression of the wild-type and mutagenized StP genes in E coli, and purification and characterization of recombinant enzymes Following...
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báo cáo khoa học: " Targeted isolation, sequence assembly and characterization of two white spruce (Picea glauca) BAC clones for terpenoid synthase and cytochrome P450 genes involved in conifer defence reveal insights into a conifer genome" pdf
... 384-well plates and gDNA inserts were Sanger-sequenced from both ends Sequences were scanned and masked for vector sequences and contaminating bacterial sequences, eliminating 21.4% (PGB02) and 27.9% ... automated and manual sequence assemblies resulted in two contigs for PGB02 with a combined sequence length of 172,056 bp and 15.6× sequence coverage, and into a single contigs for PGB04 with a sequence ... for the PGB04 library Sequences were scanned and masked for vector sequences and contaminating bacterial sequences, eliminating 21.4% (PGB02) and 27.9% (PGB04) of the total sequences Using PHRAP,...
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Biological network analysis and comparison
... Biological network analysis and comparison 1.3.4 Network analysis and comparison toolsets 1.4 Thesis organization Sharp Bounds and ... abound in physical, biological and social sciences Quantifying a network’s topological structure facilitates network exploration and analysis, and network comparison, clustering and classification ... interactions and cell type-specific interactions in human TF regulatory networks, in terms of deep topological and functional analysis 1.3.4 Network analysis and comparison toolsets Multiple softwares and...
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A combined statistical and in silico framework for analysis and characterization of microbial and mammalian metabolic networks
... statistical analysis 60 4.3.4 In silico metabolic flux analysis 63 4.3.5 Sensitivity analysis of amino acid and glucose consumption 71 4.3.6 Analysis of the metabolite consumption and ... reconstruction and analysis of genome-scale mouse model The existing model was used as template and the network was expanded by compiling the information (genome, biochemical and mouse physiological ... perspective from which to consider, analyze, and ultimately understand the living world, whereas physics and chemistry come handy in probing the behavior of molecules and their activity inside living cells...
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Báo cáo khoa học: Comprehensive sequence analysis of horseshoe crab cuticular proteins and their involvement in transglutaminase-dependent cross-linking potx
... N-terminal sequences of all basic Y proteins (basic Y6 through Y9), and repeats of the di- and tri-peptide sequences QQ and QQQ were observed in the amino terminal sequences of basic QH proteins and ... G13 variants, G19 and G19 h all contained an R & R consensus sequence, and they exhibited significant sequence similarity (G19 and G13, 58% identity; G19 h and G13, 48%; G19 and G19 h, 64%) A ... content of Asp (14%) and Glu (10–14%) N-Terminal amino acid sequence analysis of HMM chitin-binding proteins Eleven of 37 spots observed on 2D SDS ⁄ PAGE were resistant to sequence analysis by Edman...
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Báo cáo khoa học: Molecular cloning and characterization of the crustacean hyperglycemic hormone cDNA from Litopenaeus schmitti Functional analysis by double-stranded RNA interference technique pot
... compilation ª 2006 FEBS J M Lugo et al Functional analysis of CHH by RNAi A B Fig CHH sequence analysis comparison (A) Sequence analysis comparison by CLUSTALW analysis among CHH cDNA reported for Marsupenaeus ... chloroform and once with chloroform, and RNA was precipitated with 2-propanol and dissolved in RNase-free water Single-stranded RNAs were allowed to anneal by mixing equal amounts of each strand, heating ... procedures A DNA band at the expected size was amplified from the eyestalk and stomach, and another weak one from muscle (Fig 2B) In vivo CHH gene suppression using double-stranded RNA To investigate...
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Báo cáo Y học: Synthesis, conformational analysis and biological activity of cyclic analogs of the octadecaneuropeptide ODN Design of a potent endozepine antagonist pot
... determination (file parallhdg.pro and topallhdg.pro) was used, and an initial structure was built by randomly generating F and C angles In the calculations starting from random structure, we used higher ... Ha-Leu5 and NH-Leu7, Ha-Leu6 and NH-Lys8, in combination with the coupling constants and slow H/D exchange of NH-Leu4, NH-Lys8, suggested a first turn centered on the Gly3 and Leu4 residues, and a ... agonists and antagonists of ODN We have determined the secondary structure of the cyclic OP analogs by two-dimensional 1H-NMR and molecular dynamic simulation, and we have investigated the biological...
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Báo cáo khoa học: Analysis and biological relevance of advanced glycation end-products of DNA in eukaryotic cells ppt
... deoxyribose and CO2, followed by the transitions 338 fi 106 m ⁄ z, and 338 fi 149 m ⁄ z (Fig 1B) Furthermore, some of the biological samples were spiked with synthesized CEdGA,B standard to verify ... recognize a palindromic DNA sequence and cut the DNA endonucleolytically within this sequence To determine whether CEdG-modified plasmid DNA is differentially recognized and digested by restriction ... at about 15 and 19 min, were collected, lyophilized, and purified a second time with 100% water as eluent MS and NMR data identified the two products as the diastereomers of CEdG CEdGA and CEdGB...
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Báo cáo hóa học: " Research Article Optimized Punctured ZCZ Sequence-Pair Set: Design, Analysis, and Application to Radar System" doc
... perfect sequences, such as two valued Golomb sequences, Ipatov ternary sequences, Frank sequences, Chu sequences, and modulatable sequences However, it should be noted that for both binary and non-binary ... autocorrelation sidelobe of a sequence- pair and crosscorrelation value of any two sequence- pairs in ZCZPS Definition Assume (X, Y) to be a sequence- pair set of K sequence- pairs and each sequence- pair is of ... Walsh sequence in Hadamard matrix The number of sequencepairs in optimized punctured ZCZPS rests on the order of the Hadamard matrix The sequence x(p) in sequence set X and the corresponding sequence...
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Báo cáo hóa học: " Research Article Binocular Image Sequence Analysis: Integration of Stereo Disparity and Optic Flow for Improved Obstacle Detection and Tracking" pptx
... investigated and utilized in model-based algorithms and extended gradient-based algorithms Sudhir et al [13] and Clifford and Nasrabadi [14] used Markov random fields to combine the stereo and motion ... technique Horizontal and vertical coordinates (x, y) can be measured because horizontal and vertical displacements Δx and Δy between the imagescan be measured by the motion analysis, and the initial ... system, two images (left and right) sequences can be simultaneously acquired This enables acquisition of a pair of motion fields by analyzing the left and right image sequences Since true motion...
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elements and their compounds in the environment occurence analysis and biological relevance
... Bulk Analysis of the Elements 34 Compound-pecific Analysis 35 Single Particle Analysis and Surface Characterization of Airborne Particles 35 Source Analysis 36 Deposition of Acids, Elements, and ... Availability, and Proper Usage ISBN: 3-527-30162-3 200, 322 pp Elements and Their Compounds in the Environment Occurrence, Analysis and Biological Relevance 2nd, completely revised and enlarged ... Substances and Basic (Base) Cations 54 Deposition of Sea-alt Particles and Chloride Deposition 55 Deposition and Forest Ecosystems 55 Site and Stand Dependence 55 Elevation 55 Soils 55 Forest stands...
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Báo cáo khoa học: " Sequence Analysis of Canine LINE-1 Elements and p53 Gene in Canine Transmissible Venereal Tumor" doc
... canine LINE-1 and was followed by a 5bp deletion; DNA sequences of the TVT-LINE showed a 98 % and 63 % homology to canine LINE-1 and human LINE-1 sequences, respectively Sequence Analysis of Canine ... 931: 5′ -CGCAAAA GAAGAAGCC ACTA-3 and caREV) for the exon and 10 The PCR products were purified at the 0.7% agarose gel and cloned into TA cloning vector and then sequenced We confirmed the point ... R and Edgell, M.H LINEs pp.593-617 In: mobile DNA (Berg , D.E and Howe, M.M eds.) Am S oc Microbiol, Washington, DC, 1989 Jelink, W R and Schmid, C W Repetitive Sequences in eukaryotic DNA and...
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Signal sequence analysis of expressed sequence tags from the nematode Nippostrongylus brasiliensis and the evolution of secreted proteins in parasites potx
... molecular biological analysis of N brasiliensis genes and gene products is at a very early stage Secreted and intracellular globins have been characterized [25], and genes for both secretory [26,27] and ... Raw sequence trace data were processed to screen out vector and linking sequence, to remove low-quality sequence, and to trim poly(dA) tails using an in-house software solution The resulting sequences ... these, three showed database homologies from 3' sequence and were reclassified as conserved, and two showed no poly(A) tail and were excluded from further analysis as presumed internal fragments The...
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báo cáo khoa học: " Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing" ppsx
... YY and DQ carried out the microarray analysis and small RNA sequencing, participated in the long npcRNA identification, and draft the manuscript MX and ZH carried out ChIP analysis, NS, CX and ... sense and antisense sequences for TalnRNA9 and TalnRNA12 before or 12 hrs after Bgt inoculation in S genotype and R genotype (a) Expression patterns of sense sequences revealed by microarray analysis ... strand expression patterns in both JD8 and JD8-Pm30 (Figure 10) In addition, three long npcRNAs, TapmlnRNA11, TapmlnRNA41 and TapmlnRNA42 also had several group small sequences matching them, and...
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báo cáo khoa học: " Identification and characterization of flowering genes in kiwifruit: sequence conservation and role in kiwifruit flower development" ppt
... erika.varkonyi-gasic@plantandfood.co.nz The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand growth and ... hybrid analysis was performed It established interactions between B class proteins AP3-1 and PI, as well as FUL and SEP4; weaker interactions were detected between AG and SEP4 and SEP3 and SEP4 ... breeding and aid our understanding of flowering control in kiwifruit and woody perennial species in general Molecular and genetic regulation of flower development has been subject to detailed analysis...
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Báo cáo y học: " Molecular characterization, structural analysis and determination of host range of a novel bacteriophage LSB-1" docx
... sequencing and analysis The coliphage genome was sequenced by the shotgun method Genomic DNA was sheared by sonication, cloned into pUC18 and sequenced with an ABI 3700 automated DNA sequencer, ... analysis and drafted the manuscript XM and LC participated in its design and coordination and helped to draft the manuscript GH and ZR participated in its design and experimental work LZ participated ... nodes helices and b strands with intermittent unstructured intervening regions The arrangement is characteristic of crystallized hydrolase Domain B is composed of a helix and b strands with intermittent...
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Báo cáo y học: "Sequence analysis of the Epstein-Barr virus (EBV) BRLF1 gene in nasopharyngeal and gastric carcinomas" docx
... studies and drafted the manuscript YW and YC participated parts of the studies and writing YZJ was responsible for the collection of specimens used in this study ZFS and BL provided consultation and ... donors Results Sequence variation of BRLF1 gene The sequence of BRLF1 gene coding 605 AAs was successfully amplified in 34 EBVaGCs, 57 NPCs, and Page of 28 TWs, respectively All the sequences were ... the number of the identical sequences from EBVaGC, NPC and TW, respectively Only sequences different from B95-8 are indicated The small letters denote the nucleotide, and the amino acids are denoted...
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báo cáo khoa học: " Recovery and characterization of a Citrus clementina Hort. ex Tan. ''''Clemenules'''' haploid plant selected to establish the reference whole Citrus genome sequence" pot
... 15 and TAA 15 (Figure 4) SSR analysis of plants obtained All haploid, diploid and aneuploid plants established in the greenhouse, together with diploid 'Clemenules' clementine and 'Fortune' mandarin ... parent and 'Fortune'mandarin was selected as male parent due to its high pollen fertility and compatibility with the clementine group Flowers of 'Fortune' mandarin was collected in preanthesis and ... cytometry and DNA extractions, JP cultured plants in the greenhouse, PO carried out genetic analysis, writing, organization and discussion of the manuscript and LN conceived of the study, and participated...
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Báo cáo y học: "Comparative whole genome sequence analysis of wild-type and cidofovir-resistant monkeypoxvirus" doc
... comparative genome sequence analysis, SNP identification and characterization, protein modeling and drafted the manuscript MAI performed genome sequencing JH developed and isolated CDV-R and WT viruses ... indel identification and whole genome sequence comparisons of CDV-R and WT Zaire 79-005 The genome of the seed stock used in the analysis (WT Zaire 79-005) was sequenced and compared with the ... heterodimerization and MT activity (Figure 10A and 10B, in red and yellow) [53,56] The basic H122 residue flanks two neutral residues, 120N and 121N, that affect important polar interactions between D1 and...
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Báo cáo khoa học: " Complete genomic sequence analysis of infectious bronchitis virus Ark DPI strain and its evolution by recombination" pot
... Three independent clones were sequenced for each amplicon to exclude errors that can occur from RT and PCR reactions The assembly of contiguous sequences and multiple sequence alignments were performed ... Figure sequence with other IBV of complete Ark DPI genome Phylogenetic tree analysisstrains Phylogenetic tree analysis of complete Ark DPI genome sequence with other IBV strains Phylogenetic tree analysis ... strains and from IBV live vaccines So frequent monitoring is highly essential to track the emergence of new variants and is mandatory to develop efficient vaccination strategies to control and prevent...
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