mapping expression patterns genome wide
Cross-species comparison of genome-wide expression patterns pptx
... dissects expression patterns into those common to both species, as well as those that are exclusive to one dataset or the other Another study by Rifkin et al [14] investigated genome- wide expression ... metamorphosis Extensive evolution of developmental gene expression was observed among these Genome Biology 2004, 5:232 http://genomebiology.com/2004/5/7/232 Genome Biology 2004, Volume 5, Issue 7, Article ... A gene-coexpression network for global discovery of conserved genetic modules Science 2003, 302:249-255 10 Bergmann S, Ihmels J, Barkai N: Similarities and differences in genome- wide expression...
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Báo cáo y học: "Genome-wide identification of novel expression signatures reveal distinct patterns and prevalence of binding motifs for p53, nuclear factor-κB and other signal transcription factors in head and neck squamous cell carcinoma" docx
... wild-type p53-like expression patterns, and UMSCC cell lines with mutant p53 expression patterns Such a model was used to test the fixed effects of random factors [104,105] Each gene expression level ... magnification of 100× Genome Biology 2007, 8:R78 http://genomebiology.com/2007/8/5/R78 Genome Biology 2007, Gene Ontology annotation revealed the unique nature of clustered genes information Genome Biology ... legend on next page) Genome Biology 2007, 8:R78 http://genomebiology.com/2007/8/5/R78 Genome Biology 2007, Volume 8, Issue 5, Article R78 Yan et al R78.7 interactions information Genome Biology 2007,...
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Báo cáo y học: "Genome-wide patterns of carbon and nitrogen regulation of gene expression validate the combined carbon and nitrogen (CN)-signaling hypothesis in plants" pptx
... are the expression due to carbon (the expression in treatment minus the expression in treatment 1; see Figure 2), the expression due to nitrogen (the expression in treatment minus the expression ... calculated by adding the expression due to carbon plus the expression due to nitrogen, which is a 'virtual' treatment Genome Biology 2004, 5:R91 http://genomebiology.com/2004/5/11/R91 Genome Biology 2004, ... which was calculated by adding the expression due to carbon to the expression due to nitrogen The expression due to carbon, the expression due to nitrogen, the expression due to CN and the C+N...
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Báo cáo khoa học: Genome-wide analysis of clustering patterns and flanking characteristics for plant microRNA genes doc
... plant miRNAs In our study, we performed computational approaches, based on genome- wide analyses, to examine the clustering patterns of plant miRNAs In addition, we analyzed regions, up to kb upstream ... clustering patterns of miRNA genes in four plant genomes Many previous studies have shown that miRNA genes tend to be present as clusters within a region of several kilobases in animal genomes [17–20] ... co-transcribed as polycistronic units [24,43,44] Therefore, we performed genome- wide analysis to examine the clustering patterns of the miRNAs in four species of plant The pairwise distance analysis...
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Báo cáo y học: "Genome-wide analysis of mRNA decay patterns during early Drosophila development" pdf
... controlled mRNA decay processes Thomsen et al Genome Biology 2010, 11:R93 http://genomebiology.com/2010/11/9/R93 Page of 27 Figure Genome- wide expression profiles in early Drosophila embryos ... with genome- wide microarray technology to study the regulation of global mRNA decay patterns during early fly development Our analysis led us to (i) determine the diversity in mRNA decay patterns ... a comprehensive quantitative PCR experiment monitoring the expression of 24 genes chosen to represent the wide spectrum of expression patterns seen in our dataset (Supplementary Figure 2a in Additional...
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Báo cáo y học: "Genome-wide assessment of imprinted expression in human cells." potx
... individuals with intellectual disability Morcos et al Genome Biology 2011, 12:R25 http://genomebiology.com/2011/12/3/R25 This is the first genome- wide survey of imprinting using human primary cells ... heritable allelic expression since such loci were relatively underrepresented among loci showing allelic expression changes upon demethylation Conclusions In our comprehensive genome- wide search for ... DNA in order to phase the parental allelic expression data) These parental samples were phenotypically normal donors of Caucasian origin The genome- wide mapping of AE in primary fibroblasts will...
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báo cáo khoa học: " Identification of rhizome-specific genes by genome-wide differential expression Analysis in Oryza longistaminata" doc
... the genome- wide gene expression patterns Our results provide insights into the genes and molecular mechanisms underlying the rhizomatousness in O longistaminata Results Global changes of gene expression ... The two tip tissues (RT and ST) had similar genome expression patterns, and so did the two internode tissues (RI and SI) The greatest difference in expression pattern was observed between the ... plot of the first principal components of the genome- wide gene expression profile of five tissues in O longistaminata revealed by the microarray expression analysis PC1 is principal component...
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báo cáo khoa học: " Measuring cis-acting regulatory variants genome-wide: new insights into expression genetics and disease susceptibility" pdf
... involved in gene expression eQTL mapping and expression arrays give information about cis- and trans-acting variants, and this can be compared with information from cis-eQTL mapping and AE measurements ... TJ, Rodesch MJ, Clayton DG, Todd JA, van Heel DA, Plagnol V: Genomewide analysis of allelic expression imbalance in human Sadee: Genome Medicine 2009, 1:116 116.4 primary cells by high throughput ... RNAs should be considered, as many hits from genome- wide association studies are in intergenic regions Because of the tissue selectivity of gene expression, the third step is that AE must be...
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Báo cáo y học: "Threshold-free high-power methods for the ontological analysis of genome-wide gene-expression studies." pptx
... between the threshold-free methods (commented under Results) Genome Biology 2007, 8:R74 http://genomebiology.com/2007/8/5/R74 (a) Genome Biology 2007, Method relationships (Spearman metric) (b) ... this work contributes to the repertoire of useful methods aiding the interpretation of genome- wide gene expression studies Materials and methods Threshold-free category-detection methods Let ... =i =1 N Genome Biology 2007, 8:R74 yi −1 − ), ( N − / 2)/(i − / 4) − 1 i − 1/2 N − i + 1/2 ((i − )ln( ) + ( N − i + )ln( )) Nyi N (1 − yi ) http://genomebiology.com/2007/8/5/R74 (a) Genome Biology...
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Báo cáo y học: "Common gene expression strategies revealed by genome-wide analysis in yeast" ppt
... of variability between clusters Genome Biology 2007, 8:R222 http://genomebiology.com/2007/8/10/R222 Genome Biology 2007, Figure (see legend on previous page) Genome Biology 2007, 8:R222 Volume ... However, no correlation Genome Biology 2007, 8:R222 http://genomebiology.com/2007/8/10/R222 Genome Biology 2007, 1.55 Fold-change García-Martínez et al R222.11 for their expression We have introduced ... identifying sets of genes with similar expression patterns The two main approaches correspond to grouping or classifying genes according to their expression patterns and to represent them in a reduced...
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Báo cáo y học: "Genome-wide expression profiling and bioinformatics analysis of diurnally regulated genes in the mouse prefrontal cortex" pps
... regulated gene expression - the gene expression levels change daily according to the time of a day Genome- wide microarray analysis has been used to identify genes with cyclic expression patterns at ... a genome- wide survey of genes with diurnally regulated expression patterns in the mouse prefrontal cortex, a brain region that has not been extensively studied before In contrast to previous genome- wide ... temporal categories of gene expression patterns The expression levels at four ZT points over a 24 hour cycle allowed us to investigate groups of genes with similar expression patterns, so-called temporal...
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Báo cáo y học: "Novel insights into the relationships between dendritic cell subsets in human and mouse revealed by genome-wide expression profiling" ppt
... analysis and display of genome- wide expression patterns Proc Natl Acad Sci USA 1998, 95:14863-14868 Alter O, Brown PO, Botstein D: Singular value decomposition for genome- wide expression data processing ... (3) FRS Authors' webpage NA X X X Affymetrix Human Genome U133 Plus 2.0 data Genome Biology 2008, 9:R17 X http://genomebiology.com/2008/9/1/R17 Genome Biology 2008, Volume 9, Issue 1, Article R17 ... processing and presentation are Genome Biology 2008, 9:R17 http://genomebiology.com/2008/9/1/R17 Genome Biology 2008, Volume 9, Issue 1, Article R17 Robbins et al R17.5 Table Expression of control genes...
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Báo cáo sinh học: "Genome-wide mapping of Quantitative Trait Loci for fatness, fat cell characteristics and fat metabolism in three porcine F2 crosses" pptx
... Results and Discussion Genome- wide distribution of QTL Within each cross, we identified QTL which explain more than about 4.3% of the error variance (VF2) with a P < 0.05 genome- wide significance ... locus mapping in pigs PigNews Inform 2002, 23:39N-54N Geldermann H, Müller E, Moser G, Reiner G, Bartenschlager H, Cepica S, Stratil A, Kuryl J, Moran C, Davoli R: Genome- wide linkage and QTL mapping ... However, since we tested three populations and 40 traits in 120 genome scans, about six false positive QTL may occur at a genome- wide 5% significance The numbers of QTL detected per trait were...
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Báo cáo y học: "Genome-wide gene expression in response to" pps
... but also in Genome Biology 2005, 6:R94 http://genomebiology.com/2005/6/11/R94 Genome Biology 2005, other processes while the fly larva grows and readies for pupation information Genome Biology ... in transcription profile, and whether the genes Genome Biology 2005, 6:R94 http://genomebiology.com/2005/6/11/R94 Genome Biology 2005, information Genome Biology 2005, 6:R94 interactions Figure ... themes within lists of genes with EASE Genome Biol 2003, 4:R70 Conlon EM, Liu XS, Lieb JD, Liu JS: Integrating regulatory motif discovery and genome- wide expression analysis Proc Natl Acad Sci...
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Báo cáo y học: "Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis" potx
... Coruzzi GM: Genome- wide investigation of light and carbon signaling interactions in Arabidopsis Genome Biol 2004, 5:R10 Palenchar PM, Kouranov A, Lejay LV, Coruzzi GM: Genome- wide patterns of ... clustering of the gene expression patterns reveals different modes of regulation Three representative gene expression patterns in response to the CN treatments are shown The mean expression ± 95% confidence ... Lejay L, Coruzzi G: Genome- wide patterns of carbon and nitrogen regulation of gene expression validate the combined carbon and nitrogen (CN)-signaling hypothesis in plants Genome Biol 2004, 5:R91...
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Báo cáo y học: " A computational approach for genome-wide mapping of splicing factor binding site" pdf
... relative to a large set of random sequences from the genome More so, the UGRWGVH motif Genome Biology 2009, 10:R30 http://genomebiology.com/2009/10/3/R30 Genome Biology 2009, (a) Volume 10, Issue 3, ... Westfall-Young procedure Genome Biology 2009, 10:R30 http://genomebiology.com/2009/10/3/R30 Genome Biology 2009, intronic regions flanking tissue-specific CEs derived from an expression compendium ... file 1) For every core binding site the resulting scores were Genome Biology 2009, 10:R30 http://genomebiology.com/2009/10/3/R30 Genome Biology 2009, Akerman et al R30.5 arise from the lack of...
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TDT for human QTL mapping and genome wide association study
... 4.2 Genome- wide TDT procedure using logistic model and feature selection techniques 61 4.2.1 4.2.2 LASSO and glmpath 64 4.2.3 Genome- wide mapping ... TDT in QTL mapping 43 3.3 TDT for QTL mapping by ERS 48 3.4 The power of TDT with ERS 50 CONTENTS v TDT in Genome- wide Association ... has not been applied to genome- wide association study yet In this thesis, we provide an efficient logistic model and an algorithm to search the causal genes in the genome- wide scope This algorithm...
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Tài liệu Báo cáo khoa học: Modulation of oat arginine decarboxylase gene expression and genome organization in transgenic Trypanosoma cruzi epimastigotes docx
... concomitant changes occurring in the parasite genome organization Results and Discussion Expression of the oat ADC gene in T cruzi In order to study the expression of the foreign ADC gene in T cruzi ... pRIBOTEX or a related expression vector, pTREX [18,19] On the contrary, in the present work we found a late plasmid integration into the T cruzi genome and a concomitant stable gene expression, despite ... caused by the absence of the corresponding genes in the parasite genome Bioinformatic analyses based on available data from the T cruzi genome project, and hybridization assays with specific probes...
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Tài liệu Báo cáo khoa học: Molecular characterization, phylogenetic relationships, and developmental expression patterns of prion genes in zebrafish (Danio rerio) doc
... ª 2004 FEBS E Cotto et al Expression of prion genes in the developing zebrafish Fig Comparison between prp2 and prp3 developmental expression patterns in zebrafish The expression of prp2 (A,C) and ... fish intestine Comparison of zebrafish prp1, prp2, and prp3 developmental expression patterns The developmental expression patterns of prp1 and prp2 coding for long zebrafish PrPs were compared with ... zebrafish by whole-mount in situ hybridization and compared with the expression of prp3 The observed differential developmental expression patterns of these three genes should help clarify the functional...
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A genome wide association study of pulmonary tuberculosis susceptibility in Indonesians doc
... GWAS in Indonesian cohort For the initial genome- wide scan, 125 cases and 134 controls were genotyped for 116,204 SNPs with the Affymetrix 100 K Human mapping SNP set, according to the manufacturer’s ... Evaluating coverage of genome- wide association studies Nat Genet 2006, 38(6):659-662 40 Nicolae DL, Wen X, Voight BF, Cox NJ: Coverage and characteristics of the Affymetrix GeneChip Human Mapping 100 K ... stringent Bonferroni corrected alpha of P = 5.25 × 10-7 (0.05/95,207) is required to declare genome wide significance in this study Stage 3: testing TB association in Russian cohort Among the...
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