PSI-BLAST
Evaluating the efficacy of a structure-derived amino acid substitution matrix in detecting protein homologs by BLAST and PSI-BLAST
... Figure 2 A comparison of the performance of SASM and BLOSUM62 in PSI-BLAST. Each data point represents results for 92 query sequences with ASTRAL-SCOP v1.65 (50% sequence identity) as target database, and ...
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Evaluation of function predictions by PFP, ESG, and PSI BLAST for moonlighting proteins
... and PSI- BLAST in predicting the functional diversity of moon- lighting ...with PSI-BLAST and ESG. Recall by PSI-BLAST greatly improved when BLOSUM45 was used instead of ...
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Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix
... in PSI-BLAST- constructed PSSM; (2) PCA (Principal Component Analysis ) is employed to decrease the dimensional of feature vectors and capture the useful information, which can decrease the effects of ...
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Phylogenetic Analysis of Globin Like Superfamily at Molecular Level
... Here, we carried out an extensive analysis to explain the phylogenetic relationships of proteins and nucleotides and comparing the phylogenetic tree with taxonomical tree. Firstly, we take the families under globin-like ...
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A novel RING finger in the C-terminal domain of the coatomer protein α-COP
... after PSI- BLAST [13] and JackHMMER [14] sequence-similarity searches (Additional file 1), reveals putative zinc-chelating residues in homologous sequences at expected structural positions of a RING-like ...
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CREST - a large and diverse superfamily of putative transmembrane hydrolases
... Transitive PSI-BLAST searches were still used since (1) they helped linking most of the groups with sta- tistical support; (2) they enabled exhaustive search for members of the CREST superfamily in the NCBI ...
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Systematic search for putative new domain families in Mycoplasma gallisepticum genome
... in PSI-BLAST search), but failed to associate with any Pfam domain in Hmmpfam ...the PSI- BLAST search and the sixth column indicates the number of PDB hits in PSI-BLAST ...the ...
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Homology modeling and functional annotation of bubaline pregnancy associated glycoprotein 2
... ProKnow metaserver integrates outputs from PSI- BLAST, PROSITE, DALI/ DASEY, DIP and RIGOR to extract similarity of the query sequence with proteins in the ProKnow database. This information is subsequently ...
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Domain enhanced lookup time accelerated BLAST
... as PSI-BLAST does? Sometimes the first BLAST search of sequence databases produces no above-the-threshold similarities, and therefore nothing to build a PSSM with, whereas RPS-BLAST gives a ...
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Immunoinformatics-Guided Designing of Peptide Vaccine against Lassa Virus with Dynamic and Immune Simulation Studies
... Two feed-forward neural networks are the basis of PSIPRED, which process the PSI-BLAST (Position-Specific Iterated-Blast) to predict a secondary structure from an amino a[r] ...
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SEQUENCE ANALYSIS OF XYLANASE USING BASIC INSILICO TOOLS
... protein BLAST algorithms like BLASTp, searches for similarity between protein query and protein database, PSI-BLAST performs position specific search iteratively, PHI-BLAST searches for a ...
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Design, Fabrication and Testing of a High Precision Air Amplifier as an Ion Focusing Device for Mass Spectrometry.
... 30 psi the annular nitrogen jet exiting from the 50 µm annular gap curves around the Coanda surface, remaining attached to the ...40 psi detaches from the Coanda surface, inhibiting the Venturi ...
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O-PSI : delegated private set intersection on outsourced datasets
... More interestingly, a number of PSI protocols have been proposed in which clients delegate computation to a server [12–16]. A protocol proposed in [14] allows clients to outsource their sets to a server by hashing ...
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An Investigation on Gas Lift Performance Curve in an Oil Producing Well
... Wellhead pressure psi, Pa Bottomhole pressure psi, Pa Reservoir pressure psi, Pa Gas injection rate MSCF/d, m3 /s Liquid production rate STB/d, m3 /s Oil production rate STB/d, m3 /s Pro[r] ...
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HPC-BLAST: Distributed BLAST for Modern HPC Clusters.
... the BLAST algorithm, the results are dis- tributed among the different HPC-BLAST ...many BLAST jobs in a batched environment and is similar to other results [14, ...
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Safety Distances for Explosive Storage Magazines and Process Buildings
... to blast effects in the high pressure range can, in certain cases, be designed for the impulse rather than the peak pressure associated with longer duration blast pressures ...
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Should policy-makers and managers trust PSI? An empirical validation study of five patient safety indicators in a national health service
... remaining PSI, this capacity held noticeably high: 23% of the hospitals were flagged above the expected in decubitus ulcer, up to 36% in catheter-related infection, 25% in the case of postoperative pulmonary ...
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Monotonicity properties of a function involving the psi function with applications
... respectively. For extensions of these functions to complex variables and for basic proper- ties see []. Recently, the gamma function and psi function ψ have been the subject of intensive research. In particular, ...
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Yeast prions form infectious amyloid inclusion bodies in bacteria
... temperatures rendered different [PSI+] phenotypes when transformed into [psi-] cells. Fibrils formed at 4°C resulted in a majority of [PSI+] cells displaying a strong (white) phenotype whereas ...
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Advanced Concepts in ab-initio Simulations of Materials (Psi-k2)
... Materials, Psi-k will each year organise about 20-30 workshop ...by Psi-k Charity, some of them also by ...joint Psi-k/CECAM Research Conference on a special high profile ...
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