blast search
Identification, isolation, and cloning of the full-length sequence of a gene encoding trypsin inhibitor-like protein (TIL) secreted by the intestinal parasitic nematode Strongyloides ratti
... The full-length Sra-til gene, which encodes an interest- ing ESP candidate, secreted from pF of S. ratti, was iden- tified, isolated, cloned and then sequenced. Both nucleotide and amino acid sequences were subjected to ...
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Domain enhanced lookup time accelerated BLAST
... the search strategy (better in the most important sense, ...first BLAST search of sequence databases produces no above-the-threshold similarities, and therefore nothing to build a PSSM with, whereas ...
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Identification of the ovine keratin-associated protein 26-1 gene and its association with variation in wool traits
... A BLAST search of the Ovine Genome Assembly v4.0 using a human KRTAP26-1 coding sequence (AM941740.1) revealed a region on sheep chromosome 1 containing a similar sequence to the tes[r] ...
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Molecular Characterization Confirms the Presence of a Divergent Strain of Canine Coronavirus (UWSMN 1) in Australia
... A BLAST search (http://www.ncbi.nlm.nih.gov) and subsequent DNA parsimony analysis of the sequenced re- gion of the Pol gene from UWSMN-1 showed that this strain is most closely related to group I ...
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Bacterial-Identification-Lab-Worksheet-Student
... Write in the letter of the samples you choose, the scientific name of the bacterium (after doing a BLAST search), and a brief description of each. Sample Letter Bacteria Scientific Nam[r] ...
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Re-annotation of the CAZy genes of Trichoderma reesei and transcription in the presence of lignocellulosic substrates
... a blast search; (e), functional subgroups within the protein cluster determined according to phylogenetic analysis; (f), heat map branch (A-R) the gene was assigned to according to the expression profile of ...
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Characterization of the Drosophila melanogaster alkali metal/proton exchanger (NHE) gene family
... Identification of Drosophila NHEs by cyberscreening A low-stringency BLAST search of the Berkeley Drosophila genome database using the human NHE1 protein sequence revealed three putative[r] ...
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MHCBN 4 0: A database of MHC/TAP binding peptides and T cell epitopes
... Findings: MHCBN is a comprehensive database comprising over 25,857 peptide sequences (1053 TAP binding peptides), whose binding affinity with either MHC or TAP molecules has been assayed experimentally. It is a manually ...
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CABRA: Cluster and Annotate Blast Results Algorithm
... Although a similar approach as the one used by CABRA was being used by other tools like BlastGraph [11] and BLASTGrabber [12], the implementation in an easy-to- use web tool simplifies its execution and usage by ...
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Comparative Analysis of Structure and Sequences of Oryza sativa Superoxide Dismutase
... From the investigation results of local BLAST search of Oryza sativa Mn SODs have an average of 63.5% similarity to one another. This is in conformity with the findings of Bowler et al., [2]. According to ...
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CANGS DB: a stand alone web based database tool for processing, managing and analyzing 454 data in biodiversity studies
... 1 Blast analysis tool Figure 4: it performs a BLAST search of any user provided query sequences against data stored in the CANGS DB MySQL database.. This analysis provides the user with [r] ...
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Systematic search for putative new domain families in Mycoplasma gallisepticum genome
... PSI-BLAST search), but failed to associate with any Pfam domain in Hmmpfam ...PSI- BLAST search and the sixth column indicates the number of PDB hits in PSI-BLAST ...
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Central nervous system transcriptome of Biomphalaria alexandrina, an intermediate host for schistosomiasis
... reciprocal BLAST search against the compre- hensive NCBI Non-Redundant (NR) BLAST ...the BLAST results against the NR database (Additional file ...reciprocal BLAST search against ...
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Identification of Bacteria from Soil of Cameron Highlands
... Bacteria are a large group of unicellular microorganisms. Bacteria are ubiquitous in every habitat on Earth for example in soils, radioactive waste, water and as well as in organic matter and the live bodies of plants ...
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Div BLAST : diversification of sequence search results
... as BLAST, seek sequences most similar to a query from a database of ...sequence search tools for this ...diverse search and browsing in sequence databases that produce non-redundant results optimized ...
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Structural, phylogenetic and docking studies of D-amino acid oxidase activator (DAOA), a candidate schizophrenia gene
... The retrieved amino acid sequence of DAOA was subjected to a protein-protein BLAST (BLASTp) search against the Protein Data Bank (PDB) to identify a suitable template structure for comparative modeling. ...
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Identification of diverse full length endogenous betaretroviruses in megabats and microbats
... ized with a duplex specific nuclease (DSN) using a modification of the protocol described in the Evrogen Trimmer cDNA normalization kit (Cat # NK001). After the second limited PCR amplification (12 cycles) with the M2 ...
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Genetic organization, size, and complete sequence of early region 3 genes of human adenovirus type 41.
... The BLAST com- puter program search for homology to other human Ad E3 proteins revealed that the sequence of this protein was unique (compared with sequences of Ad2, Ad3, Ad4, and Ad5 pro- teins) and again ...
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Discovery of Novel Conotoxin Candidates Using Machine Learning
... learning, we demonstrate that using Blast to search candidate sequences from different Conus species 279. against each other provides better performance for conotoxin superfamilies that[r] ...
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Age and fecal microbial strain specific differences in patients with spondyloarthritis
... Diego, CA, USA) at a concentration of 12 pM; read lengths were approximately 250-bp paired-end reads. Initial steps of the analysis were performed with the Divisive Amplicon Denoising Algorithm (DADA2) [24, 25]. Unlike ...
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