pcrs protein domain identification sequence alignment and phylogenetic analyses

Báo cáo khoa học: " Identification and prevalence of Ehrlichia chaffeensis infection in Haemaphysalis longicornis ticks from Korea by PCR, sequencing and phylogenetic analysis based on 16S rRNA gene" docx

Ngày tải lên : 07/08/2014, 18:21

... Information (NCBI, USA) BLAST network service Nucleotide sequences were aligned and phylogenetic analysis was performed using the Multiple sequence alignment program, AlinX (Vector NTI Suite version ... Seung-Ok Lee et al Fig Phylogenetic tree of 16S rRNA sequences of Ehrlichia spp inferred using the sequence distance method and the neighbor joining algorithm 16S rRNA gene sequences (396 bp) from ... vegetation, from cattle and horse ranches and from different animals such as cattle, horse, dogs and rodents (data not shown) **Ticks were collected from rice fields and army training sites of...

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Báo cáo khoa học: " Sequence analysis of the S1 glycoprotein gene of infectious bronchitis viruses: identification of a novel phylogenetic group in Korea" docx

Ngày tải lên : 07/08/2014, 20:23

... other and between 45.9% (DE072 and K2-6) and 80.7% (H120 and K044-02) with nonKorean IBVs Korean IBVs had amino acid sequence similarities of between 71.5% (K545-02 and K3-3) and 99.3% (K748-01 and ... other and between 44.9% (DE072 and K2-6) and 80.3% (BEAU and K04402) with non-Korean IBVs The deduced amino acid sequences of Korean IBVs were aligned with the sequences of published Korean and ... determined and compared with the sequences of published non-Korean IBV strains (Table 2, Fig 2) Korean IBVs had nucleotide sequence identities of between 71.2% (K545-02 and K3-3) and 99.7% (K748-01 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

Ngày tải lên : 11/08/2014, 11:22

... 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 No interactions were identified with FUL-like and SEP1 (Figure ... 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 ... participated in RNA extraction and expression studies RHL and Y-YW participated in gene isolation and vector construction RPH participated in the sequence alignment and has given final approval...

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Báo cáo y học: "Transcription phase, protein characteristics of DEV UL45 and prokaryotic expression, antibody preparation of the UL45 des-transmembrane domain" potx

Ngày tải lên : 12/08/2014, 01:21

... supernatant fraction (envelope and minor amounts of tegument proteins) and a pellet (nucleocapsids and tegument proteins) Equivalent amounts of the supernatant and pellet proteins were immunoblotted ... cyclization, and the virus gene starts to transcript according to some sequence The late gene encodes about thirty viral proteins, primarily including capsid protein, tegument protein and envelope protein ... showed that UL45 protein was related with the virion and may be an envelope protein The UL45 protein may not be a tegument protein, because most tegument protein resided in the sediment and there was...

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Báo cáo y học: " Sequence and phylogenetic analysis of H7N3 avian influenza viruses isolated from poultry in Pakistan 1995-2004" pot

Ngày tải lên : 12/08/2014, 04:20

... contributions MAA, ZA, LS and NS produced and analyzed the sequence data ES was involved in experimental design, performed the phylogenetic analysis and sequence analysis DES, KN, AH and SR were involved ... for cycle sequencing and subsequently run on an AB 3730 (Applied Biosystems, Foster City, CA) GenBank accession numbers are given in Table Phylogenetic and Sequence Analysis Phylogenetic analysis ... exception was 01/Murree-95, which had a 216 aa NS1 and a 120 aa NS2 protein which grouped with the other isolates with truncated NS1 proteins The NS2 proteins of all other H7N3 isolates were a full...

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Báo cáo sinh học: "DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment" doc

Ngày tải lên : 12/08/2014, 17:20

... for multiple sequence alignment J Mol Biol 2000, 302:205-217 Grasso C, Lee C: Combining partial order alignment and progressive multiple sequence alignment increases alignment speed and scalability ... subroutine PAIRWISE _ALIGNMENT (si, sj, A) that takes two sequences si and sj and (optionally) an existing consistent set of fragments A as input and calculates an optimal alignment of si and sj under ... widely used software for multiple alignment of nucleic acid and protein sequences [1,2] that combines local and global alignment features Pairwise or multiple alignments are composed by aligning...

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Báo cáo y học: "A haplome alignment and reference sequence of the highly polymorphic Ciona savignyi genome" ppt

Ngày tải lên : 14/08/2014, 20:22

... http://genomebiology.com/2007/8/3/R41 supercontigs; removal of tandem misassemblies; pair-wise alignment of allelic hypercontigs; and selection of the reference sequence Stage 1: identification of alignment anchors connecting ... LAGAN [27] global alignment was generated for each anchored contig pair, and a modified alignment score was calculated from each such alignment The anchored contig pairs and their alignment scores ... contigs match any sequence, then they will be aligned separately; and if they not match any sequence, then we use the sequence from allele B to fill the sequence gap Removal of tandem misassemblies...

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Identification and characterization of protein kinase CK2 as a novel interacting protein of neuronal CDK5 kinase and its functional role in microtubule dynamics

Ngày tải lên : 16/09/2015, 17:10

... techniques 58 IV 2.2.15 Statistical analysis and presentation of data 58 Results and Discussion 60 3.1 Isolation of p35-associated proteins and identification of protein kinase CK2 as an inhibitor of ... evidence indicates that protein- protein interactions represent a major mechanism for the regulation of specific protein kinases (Pawson and Nash, 2000) The identification of several proteins that interact ... A/Cdk2 and cyclin B/Cdk1 complexes (Sherr and Roberts, 1999; Pines, 1995) Generally, members of Cdk family share greater than 40% sequence identity and have a cyclin-binding and -activating domain...

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Báo cáo y học: "Identification of clinical and simple laboratory variables predicting responsible gastrointestinal lesions in patients with iron deficiency anemia"

Ngày tải lên : 25/10/2012, 11:18

... endoscopic and radiographic Asymptomatic colonic and gastric carcinoma may present with IDA and exclusion of these conditions is of prime concern The upper endoscopic evaluation should include random ... cancer and small intestinal cancer [19-20] The standard procedure for investigating the source of IDA among men and postmenopausal women is to rule out gastrointestinal tract pathology and a nutritional ... 0.01), and lower mean corpuscular volume (p < 0.002) The standard diagnostic procedure for men and postmenopausal women with iron deficiency is to investigate gastrointestinal tract (upper and lower)...

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Tài liệu Báo cáo khoa học: The conformational stability of the Streptomyces coelicolor histidine-phosphocarrier protein Characterization of cold denaturation and urea–protein interactions doc

Ngày tải lên : 19/02/2014, 12:20

... the PTS), the rst protein in the cascade of proteins forming the PTS, to HPr, the histidine-phosphocarrier protein HPr is the smallest protein in the protein cascade of the PTS and it is thought ... His-tagged protein and that where the tag had been removed [32] Recombinant protein was expressed and puried as described elsewhere [32] Protein was more than 99% pure as judged by SDS protein- denaturing ... Hoff analysis and those determined by uorescence and DSC (see before) Determination of the ThÂ and TsÂ The values of the temperatures where the enthalpy and entropy are zero, ThÂ and TsÂ, respectively,...

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Tài liệu Báo cáo khoa học: Biochemical characterization of Bacillus subtilis type II isopentenyl diphosphate isomerase, and phylogenetic distribution of isoprenoid biosynthesis pathways doc

Ngày tải lên : 19/02/2014, 13:20

... vinelandii and P luminescens and to Idi-1 protein of the Bacteroid C hutchinsonii (expect values 3e-22, 5e-19 and 8e-20, respectively) Phylogenetic pattern of Idi proteins Paralogs of Idi-2 proteins ... for functionality of Idi-2 protein (A) Amino acid sequence comparison of Idi-2 proteins Sequences included in this analysis were B subtilis Idi-2 protein and Idi-2 proteins from major human pathogens ... (1996) SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny Comput Applic Biosci 12, 543–548 39 Dayhoﬀ, M.O (1979) Atlas of Protein Sequence and Structure Vol5...

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Tài liệu Báo cáo khoa học: Nop53p, an essential nucleolar protein that interacts with Nop17p and Nip7p, is required for pre-rRNA processing in Saccharomyces cerevisiae pdf

Ngày tải lên : 20/02/2014, 01:20

... Fig Multiple sequence alignment of Nop53p The full sequence of Nop53p and its putative eukaryotic orthologs were aligned Numbers correspond to amino acid position in each protein Proteins access ... glutathione-Sepharose beads and incubated at °C for h The glutathione-Sepharose beads were precipitated and washed again with NaCl ⁄ Pi and bound proteins were eluted and resolved on SDS ⁄ PAGE and transferred ... ﬁnding of these two proteins in the pre60S complex The two-hybrid system was also used to test the interaction between Nop53p and the exosome subunits and between Nop53p and snoRNP proteins of box...

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Tài liệu Báo cáo khoa học: "An Unsupervised Model for Joint Phrase Alignment and Extraction" ppt

Ngày tải lên : 20/02/2014, 04:20

... f1 and e2 , f2 from Phier , and concatenate them into a single phrase pair e1 e2 , f1 f2 635 Figure 1: A word alignment (a), and its derivations according to FLAT (b), and HIER (c) Solid and ... perform weight tuning and testing on speciﬁed development and test sets We compare the accuracy of our proposed method of joint phrase alignment and extraction using the FLAT, HIER and HLEN models, ... For GIZA ++, we use the standard training regimen up to Model 4, and combine alignments with grow-diag-final -and For the proposed models, we train for 100 iterations, and use the ﬁnal sample acquired...

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Tài liệu Báo cáo khoa học: "Toward finer-grained sentiment identification in product reviews through linguistic and ontological analyses" ppt

Ngày tải lên : 20/02/2014, 09:20

... ‘thickness’ Hu and Liu (2004) identified attributes of IT products based on frequent noun phrases and Popescu and Etzioni (2005) utilized PMI values between product class (hotels and scanners) and some ... quality element classification (Huiskonen and Pirttila, 1998), the conceptual granularities, and such syntactic and lexical clues as conjunction items and adverbs They may play significant roles ... significant differences between ‘likeness’ and ‘contrary’ (p = 015), and between ‘likeness’ and ‘contrary with contrastive markers’ (p = 025) The ‘contrary’ and ‘contrary with contrastive markers’...

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Tài liệu Báo cáo khoa học: "Automatic Identification of Pro and Con Reasons in Online Reviews" ppt

Ngày tải lên : 20/02/2014, 12:20

... Table The identification task separates pro and candidate sentences (CR and PR in Table 1) from sentences irrelevant to either of them (NR) The classification task then classifies candidates ... Cardie, C., Riloff, E., and Patwardhan, S 2005 Identifying Sources of Opinions with Conditional Random Fields and Extraction Patterns Proceedings of HLT/EMNLP-05 Esuli, Andrea and Fabrizio Sebastiani ... experiments, for the domains of mp3 players and restaurant reviews We divided data into 80% for training, 10% for development, and 10% for test for our experiments 5.1 Experiments on Dataset Identification...

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Tài liệu Báo cáo khoa học: "Finding Synonyms Using Automatic Word Alignment and Measures of Distributional Similarity" pdf

Ngày tải lên : 20/02/2014, 12:20

... sparseness and worse accuracy in word alignment The results in table also show the difference in performance between the multilingual alignmentmethod and the syntax-based method The monolingual alignment- based ... and sentence splitting Additional linguistic processing such as lemmatisation and multi-word unit detection might help to improve the alignment but this is not part of the present study The alignment ... asymmetric and several heuristics exist to combine directional word alignments to improve alignment accuracy We believe, that precision is more crucial than recall in our approach and, therefore,...

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Tài liệu Báo cáo khoa học: Effect of sequence polymorphism and drug resistance on two HIV-1 Gag processing sites pdf

Ngày tải lên : 21/02/2014, 03:20

... PR, and the respective S4 and S3 binding sites could accept a variety of residues [33,34,46] When compared to peptides having the same natural sequence background (peptides and 1, and 2, and ... peptides representing NC/p1 cleavage site sequences by wild-type and mutant HIV-1 proteinases Oligopeptides including both natural sequence polymorphisms and resistant mutations of the NC/p1 cleavage ... Stock solutions and dilutions were made in distilled water and the peptide concentrations were determined by amino-acid analysis Construction and puriﬁcation of HIV-1 PR mutants Fig Sequence around...

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Báo cáo khoa học: A new phospholipase A2 isolated from the sea anemone Urticina crassicornis – its primary structure and phylogenetic classiﬁcation pptx

Ngày tải lên : 06/03/2014, 11:20

... primers annealing at the beginning and end of the cDNA and sequenced Sequence analysis and homology modeling DNA and amino acid sequences were processed, analyzed and aligned with the vector nti ... acid protein Taking into account the N-terminal sequence obtained by Edman degradation of the wildtype protein and sequence data of related secretory PLA2s, we concluded that the mature protein ... recombinant fusion protein was successfully cleaved by factor Xa digestion, and the recombinant UcPLA2 was puriﬁed to homogeneity Sequence analysis and protein structure modeling The cDNA sequence of...

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Báo cáo khoa học: Structure of the atrial natriuretic peptide receptor extracellular domain in the unbound and hormone-bound states by single-particle electron microscopy ppt

Ngày tải lên : 07/03/2014, 03:20

... an extracellular ANPbinding domain (ECD), a transmembrane domain, and an intracellular domain consisting of an ATP-binding regulatory domain and a GCase catalytic domain [8] ANP binding to the ... membrane-distal subdomain (Fig 1B) and a tt dimer associated with the membrane-proximal subdomain (Fig 1C) The buried surface areas in the hh and tt ˚ contacts in crystals are estimated to be 1100 A2 and ˚ ... structures of apoECD (Protein Data Bank code: 1DP4) and ANP–ECD (Protein Data Bank code: 1T34) each contain tt dimer and hh dimer pairs Density maps were created from the hh and tt dimer pairs at...

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Báo cáo khoa học: "cdec: A Decoder, Alignment, and Learning Framework for Finite-State and Context-Free Translation Models" potx

Ngày tải lên : 07/03/2014, 22:20

... should be substituted Alignment forests and alignment Alignment is the process of determining if and how a translation model generates a source, target string pair To compute an alignment under a ... generic addition and multiplication operation, ⊕ and ⊗, and their identities and Multiplication and addition must be associative Multiplication must distribute over addition, and v ⊗ The design ... computation over the alignment hypergraph (refer to Figures and 2) The conditional log likelihood is the difference in the log partition of the translation and alignment hypergraph, and is computed...

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