methods for identifying drug targets from gene sequences

... measures for the four methods All methods had high sensitivity and NPV Sensitivity ranged between 92.3% for the Ramsey method to 97.4% for the Mayfield method NPVs for all methods were greater than 98% ... measures of agreement for different methods in this study may not be generalizable to non-VA databases to the extent that the practices for coding foot ulcers are different from system to system ... accuracy of four existing methods compared to medical records We showed that the five methods we examined in this study performed very well in sensitivity Holzer and Mayfield methods identified a...

Ngày tải lên: 10/08/2014, 21:24

... of the thesis A survey on computational methods for identifying conserved protein complexes between species: in this survey, computational methods for identifying conserved protein complexes ... class Phylogenetic tree-based methods have the first stage similar to graph based methods, in which homolog groups are identified For each of these homolog groups, a gene tree are built from multiple ... conserved 12 Chapter – Computational methods for identifying conserved protein complexes In general, there are two approaches for solving the conserved protein complexes from PPI networks, one compares...

Ngày tải lên: 01/10/2015, 17:27

... of the thesis A survey on computational methods for identifying conserved protein complexes between species: in this survey, computational methods for identifying conserved protein complexes ... class Phylogenetic tree-based methods have the first stage similar to graph based methods, in which homolog groups are identified For each of these homolog groups, a gene tree are built from multiple ... conserved 12 Chapter – Computational methods for identifying conserved protein complexes In general, there are two approaches for solving the conserved protein complexes from PPI networks, one compares...

Ngày tải lên: 03/10/2015, 21:56

... of the thesis A survey on computational methods for identifying conserved protein complexes between species: in this survey, computational methods for identifying conserved protein complexes ... class Phylogenetic tree-based methods have the first stage similar to graph based methods, in which homolog groups are identified For each of these homolog groups, a gene tree are built from multiple ... conserved 12 Chapter – Computational methods for identifying conserved protein complexes In general, there are two approaches for solving the conserved protein complexes from PPI networks, one compares...

Ngày tải lên: 04/10/2015, 07:57

... several genes having major effects on commercial traits have been identified The dwarf gene in poultry (Merat & Ricard, 1974), the halothane sensitivity gene in pigs (Ollivier, 1980), the Booroola gene ... (Hanset, 1982) Their general principle is that the within family distribution of the trait depends on the parents’ genotypes, and therefore varies from one family to another These methods involve ... of simplification and validity Four methods are compared on simulated data ’ METHODS The four methods considered type of test statistics rely upon the same information structure and the same Experimental...

Ngày tải lên: 14/08/2014, 20:20

... gene sequences can be isolated easily from novel SAGE tags Development of these methods has FEBS Journal 276 (2009) 2657–2668 ª 2009 The Authors Journal compilation ª 2009 FEBS 2661 Methods for ... anneal randomly along the poly(A) sequences found in mRNA templates during the process of cDNA synthesis Generation of longer cDNA fragments from SAGE tags for gene identification (GLGI) To avoid ... 2009 FEBS W.-J Xu et al Methods for 3¢ end amplification from SAGE tags A B Fig Schematic for GLGI (A) In this process, first-strand cDNA synthesized by oligo(dT) is used for PCR In the first cycle,...

Ngày tải lên: 07/03/2014, 00:20

... solely on the salvage pathway for synthesis of DNA precursors Thus, Uu-TK is a gateway for the biosynthesis of dTTP, suggesting that Uu-TK is a good target for drug development Recently the 3D ... lacks the capacity to synthesize DNA precursors de novo The most promising route for further drug development for Uu-TK from this study seems to be to explore further substitutions at the position ... (Table 2) IC50 values for hTK1, using 0.2 lm [3H]dT as substrate, were also determined with the above analogues (Table 2) A lower dT concentration was used for hTK1 to compensate for the lower Km...

Ngày tải lên: 30/03/2014, 11:20

... an effort to develop an effective extraction method for bioflocculants from the microbial cell surface Materials and Methods Activated sludge samples Activated sludge samples were collected from ... method for activated sludge However, cell disruption is not effective for the isolation of bioflocculants Thus, NaOH extraction was the most effective method for the extraction of bioflocculants from ... 1980) have been reported regarding the screening for flocculants from natural activated sludge, which is a complex microbial system A strong flocculant from natural activated sludge might economically...

Ngày tải lên: 05/09/2013, 09:08

... Spline Methods for Extracting Interest Rate Curves from Coupon Bond Prices Section 1: Introduction Spline methods have long been used to extract discount, yield, and forward rate curves from prices ... techniques for using this model to obtain estimates of interest rate curves Section 3: Curve Extraction and Cubic Splines All of our extraction methods use cubic splines as the functional form for either ... the VRP method performs slightly better than McCulloch across all maturities It performs much better than Fisher for securities with less than a year to maturity, slightly better for securities...

Ngày tải lên: 22/03/2014, 17:20

... two shortest peptides, extending from P3 to P4¢ and from P3 to P3¢, respectively The analogs NC-p1 and p1-p6 extended from P5 to P5¢, while p6pol-PR extended from P5 to P6¢ because lysine was ... the lower resolutions for protein olutions to 22.4 A ˚ main chain atoms, and 10.6–29.9 A2 for protein side chain and inhibitor atoms Alternate conformations were modeled for the side chain atoms ... square deviation for all Ca atoms ranging ˚ from 0.09 to 0.26 A compared with the PR–p2-NC complex (Fig 3) The least variation was observed for the complexes with p2-NC The deviations for residues...

Ngày tải lên: 30/03/2014, 20:20

... and second sequences are from a railway station in Brisbane, the third is from the CANDELA dataset and the last is from the CAVIAR dataset In the first sequence, several commuters wait for a train, ... a stationary foreground object visible for an exceedingly long period when compared to the background occluded by it For example, in a 1000-frame sequence, a car might be parked for the first ... (i, j) + end if end for each end for Stage 2: Partial Background Initialisation (1) B ← ∅ (2) for each set R(i, j) if (size(R(i, j)) = 1) then B(i, j) ← r1 (i, j) end if end for each Stage 3: Estimation...

Ngày tải lên: 21/06/2014, 08:20

... parameters βc or βc Before we leave this section, h,n v,n we make two additional remarks Remark As before, (15) is valid for ri + ≤ s∗ (1) ≤ L − rs n and li +1 ≤ s∗ (2) ≤ M − ls For centroid positions ... the number of particles from 8000 to 5000, the APF tracker still outperforms the RS tracker, showing similar RMS error performance with a slightly lower divergence rate For both filters, in the ... constant with sn for most possible locations of targets i and j on the image grid, except when either one of the two targets or both are close to the image borders Finally, for i = j, the energy...

Ngày tải lên: 22/06/2014, 19:20

... ISfinder Contributions from the community obtained from direct identification of ISs from individual transposition events (for example, insertional mutation of cloned genes) is important in improving ... context (that is, flanking genes) for each annotated Page of IS, allowing identification of IS-induced gene disruption and rearrangements For example, the DRs flanking an IS are generated by insertion ... nucleotide file It performs automatic IS-associated ORF identification using IS-associated transposase and transpositionrelated (for example, regulatory) gene models (provided by ISfinder) for ‘.fasta’...

Ngày tải lên: 09/08/2014, 22:24

... require substantial SEP staff effort to properly conduct follow-up; such effort was not realistic given the already over-extended time effort of SEP staff Therefore, for this evaluation, we settled ... that provide services to drug users and yet have not chosen to furnish syringes for their clients Therefore, the SKOOP project has been educating many agencies including drug treatment providers, ... prescription drug laws In most states, and until recently in New York, it was illegal for someone with a prescription medicine to administer it to someone for whom it was not prescribed This, for example,...

Ngày tải lên: 11/08/2014, 18:20

... proposed based on the 5' kb of segment sequences [5] Additionally, results from phylogenetic analyses performed separately for each gene segment showed different phylogenetic relationships, with several ... amplification conditions were cycle at 50°C for 30 min, one cycle at 95°C for 15 min, 40 cycles at 94°C for 30 s, 60°C for 60 s and 72°C for 90 s and cycle at 72°C for 10 before soaking at 4°C The PCR products ... file 1] Phylogenetic analysis of combined ISAV F and HE glycoprotein genes is a better approximation of genetic relatedness between ISAV isolates Phylogenetic analysis for segment (F gene) of the...

Ngày tải lên: 12/08/2014, 04:21

... (cumulative) distribution functions for the gene- specific differential expression scores x1, ,xN for an N -gene category and the scores x'1, ,x'M for an M -gene reference gene population, respectively ... removes the need for discrete methods Regarding the remaining methods, ZK is slightly Genome Biology 2007, 8:R74 information The total time required for analyzing the 25 studies (all methods and ontologies) ... 0.1 −5 Gene score 0.8 Nilsson et al R74.3 Population genes Modulated genes Category genes 0.6 0.4 reviews Density distribution 0.3 Volume 8, Issue 5, Article R74 comment 0.4 (b) Population genes...

Ngày tải lên: 14/08/2014, 07:21

... LPE borrows strength from neighboring genes to estimate the variances and is therefore more appropriate for small sample sizes whenever gene variances are similar for similar gene intensity levels ... counted the number of expressedgenes based on SAM for transformed data Then we selected the same number of expressedgenes from other tests based on their p-values For the T-cell immune responses ... of 5%, 2677 genes were selected by SAM At the same time, we selected the first 2677 most significant genes from t-test, LPE based on the p-values The identified genes from different methods are...

Ngày tải lên: 14/08/2014, 14:21

... Because chemotherapy regimens for patients with ALL are different from regimens for patients with AML, distinguishing between leukemia subtypes (ALL or AML) is critical for personalized treatment ... ALL and 25 patients with AML The gene expression levels were measured by Affymetrix high-density oligonucleotide arrays containing 6,817 human genes Before performing normalization, the data were ... and base-10 logarithmic transformation The data were then summarized by 72 mRNA samples and 3,571 genes [3] Table shows performance of classification algorithms for the leukemia data, based on...

Ngày tải lên: 14/08/2014, 17:22

... check for any problems For all ADRs, the drugs collected were curated using above procedures In the end, 255 ST+ drugs and 239 ST- drugs, 103 TdP+ drugs and 157 TdP- drugs were retained For study ... 3.1 Performances of best base models from external 5-fold cross validation for SJS/TEN study 46 Table 3.2 Performances of best base models from external 5-fold cross validation for ... Base and ensemble model performances for SJS/TEN study 83 6.3.2 Base and ensemble model performances for TdP study 84 iii 6.3.3 Base and ensemble model performances for serious psychiatric...

Ngày tải lên: 10/09/2015, 09:02