analysis of differentially expressed genes

... tissues Out of the 2,067 total differentially expressed genes identified, 127 genes were found to be differentially expressed in both tissues, 115 of which were consistently differentially expressed, ... and 1,678 genes were down-regulated Since it is known that fewer genes are expressed in male gametes of plants [10], it is not surprising to see much few differentially expressed (DE) genes were ... genes in anthers and 1,864 genes in ovules were identified as being differentially expressed in the semigametic genotype 57-4 relative to Pima S-1 Although the list of common differentially expressed...

Ngày tải lên: 11/08/2014, 11:21

... gills [3] Furthermore, several genes associated with the regulation of cell homeostasis were differentially expressed in our study Some genes were differentially expressed in both tissues, showing ... underexpressed at days 3, and 24 and day 7, respectively Discussion Of 322 genes identified in this study, 191 partial sequences had not been identified previously in C gigas Of the 131 known genes, ... between these two tissues A number of genes that were highly expressed in gills showed a biphasic expression pattern, consisting of a strong 6396 14 G Days of exposure Tissue Ras family GTP-binding...

Ngày tải lên: 18/02/2014, 16:20

... identify differentially expressed genes Effect of gene-specific knockdown on the accumulation of BaMV To investigate the roles of the differentially expressed genes identified by cDNA-AFLP analysis ... http://www.biomedcentral.com/1471-2229/10/286 Sequence analysis of differentially expressed cDNA fragments Sequence analysis of the major cDNA species listed in Table revealed that twenty-two of the 90-cDNA fragments shared ... study, we used eight pairs of primers in the cDNA-AFLP analysis, to isolate 90 differentially expressed genes in BaMV-inoculated plants However, one of the major drawbacks of this technique is that...

Ngày tải lên: 11/08/2014, 11:21

... expressed genes in order of significance by applying each procedure to a large number of subsets of arrays of a given size These genes were then compared with the 'master' list of differentially expressed ... list of 100 genes from the 2v2 GEO method contains just over 10 genes from the top 50 genes interactions To compare the effectiveness of the methods, we determined lists of differentially expressed ... number of patients are randomly selected from each group and a variety of methods were used to determine a list of differentially expressed genes We are mainly interested in very small sizes of one...

Ngày tải lên: 14/08/2014, 14:21

... regulated genes involved in the molecular response induced by herbicides in C gigas As a first step, we identified the down and up-regulated genes after one month of exposure to a cocktail of globally ... regulation of specific herbicideregulated gene expression Results Identification of herbicide-regulated genes Two forward and reverse SSH libraries were made from pooled digestive glands and gills of C ... herbicide-regulated genes The time-dependent expression of 13 genes that were up-regulated by exposure to herbicide and five that 391 Oyster response to pesticide exposure A Tanguy et al Table Up-regulated genes...

Ngày tải lên: 30/03/2014, 15:20

... 12,000 genes, and although there is a significant decrease in the numbers of Table The number of groups of genes, and total numbers of genes in groups, that are identified at various levels of significance ... genes, the net number of genes in groups (that is, the genes in groups in the ordered dataset minus genes in groups from the random dataset) increases linearly At a window size of about ten genes, ... much larger regions of the human genome show a strong clustering of highly expressed genes [6], which is caused by http://jbiol.com/content/1/1/5 clustering of genes that are expressed in nearly...

Ngày tải lên: 06/08/2014, 18:20

... two isoforms of carbonic anhydrase (CA); while CCL expressed with an EST redundancy of 0.93%, the two isoforms of CA expressed with a combined EST redundancy of 1.40% (Table 3) The genes of the ... overexpression of as many as 167 unigenes while suggested involvement of a large number of genes in the salt tolerance process, contig EST redundancy of 81.8% indicated the possibility of discovery of more ... analysis of representative ESTs To validate further that the EST population of the forward SSH cDNA library really represented the population of the genes that overexpressed or additionally expressed...

Ngày tải lên: 12/08/2014, 03:20

... While there was no general over-representation of asthma genes among differentially expressed genes, some asthma genes were consistently differentially expressed in multiple developing lung transcriptomes, ... asthma genes as a group was not differentially expressed more than non-asthma genes during early lung development, some genes were consistently Statistical analysis Differential gene expression analysis ... mouse strains Gene ontology (GO) enrichment analysis using DAVID of the human list of differentially expressed genes returned 879 significant GO terms, of which terms pertain directly to the lung...

Ngày tải lên: 12/08/2014, 13:22

... actually be differentially expressed The analysis of many datasets is however practically difficult because of wide range of knowledge it would require, and this related to the next task Effect of different ... for detecting differentially expressed genes using Affymetrix expression arrays BMC Genomics 2007, 8:96 Opgen-Rhein R, Strimmer K: Accurate ranking of differentially expressed genes by a distribution-free ... testing for differentially expressed genes in microarray experiments BMC Bioinformatics 2006, 7:538 Zhang : An improved nonparametric approach for detecting differentially expressed genes with...

Ngày tải lên: 12/08/2014, 17:20

... content of target genes Based on the different comparisons, we chose the PPRE classifier as most suited for the follow-up analysis of PPAR target genes In silico analysis of known PPAR target genes ... strength of 75 ± 15% of that of the consensus PPRE; sequences in class II are bound with a strength of 45 ± 15% of that of the consensus PPRE; and sequences in class III are bound with a strength of ... binding sites, of which one is located in an evolutionarily conserved area of intron Figure (see of selected primary PPAR target genes In silico analysisfollowing page) In silico analysis of selected...

Ngày tải lên: 14/08/2014, 08:20

... patterns of expression variation, we can isolate a specific group of genes with similar expression patterns for more refined functional analysis For example, analysis of periodically expressed genes ... mouse orthologs for these genes in our list of diurnal genes in the mouse, and found 19 wakefulness-related genes, sleep-related gene and 16 differentially expressed genes at am and pm in our ... sleep/wakefulness regulation, we examined the overlap of genes in each cluster and the entire set of 1,536 sleep-related genes (combined list of mouse orthologs of genes reported in [24-26,29]) and found that...

Ngày tải lên: 14/08/2014, 08:20

... specificity of the comparison with the database Two conditions showed the same set of up regulated genes One condition found with both the randomly selected set of genes and the LPE specific set of genes ... a non-specific induction of a large spectrum of genes by an antifungal compound of unknown mechanism of action [9] The second condition corresponds to 17 out of the 22 genes that are induced by ... false discovery rate, we first 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...

Ngày tải lên: 14/08/2014, 14:21

... highly significant genes (p

Ngày tải lên: 14/08/2014, 14:21

... hybridized provided that the majority of genes are not differentially expressed [5] What is not clear is how large the proportion of differentially expressed genes can be before lowess becomes unsuitable ... differentially expressed genes when the default number of iterations is equal to (b) For 10 robustifying iterations the normalization is reliable for approximately 25% of genes differentially expressed ... boutique array designed specifically to profile differentially expressed genes during the late stages of B-lymphocyte differentiation On these arrays 109 genes of interest have each been spotted four...

Ngày tải lên: 14/08/2014, 17:22

... list of genes is divided into four groups: genes differentially expressed in both experiments, genes differentially expressed in only one of the two experiments, and genes differentially expressed ... we divided the n genes into four groups: genes differentially expressed in both experiments, genes differentially expressed only in the first experiment, genes differentially expressed only in ... list of genes that are differentially expressed in both species and is consequently a powerful procedure for finding common pathways of interest The size of the differentially expressed genes...

Ngày tải lên: 14/08/2014, 20:22

... 0.6 0.8 Recall Use of differentially and constantly expressed genes to rediscover disease genes Figure Use of differentially and constantly expressed genes to rediscover disease genes The DER was ... diseaseassociated genes by combining GAD [25] and HGMD [26], resulting in a list of 3,221 genes with disease-associated variants We compared our list of differentially expressed genes with the list of genes ... count of GEO datasets in which a gene was differentially expressed divided by the count of GEO datasets in which it was measured For any cutoff x, differentially expressed genes were defined as genes...

Ngày tải lên: 14/08/2014, 21:20

... compensation of these two classes of receptor genes is suggested by both absence of phenotype in single loss -of- functions mutant of Arabidopsis and also from the antisense suppression studies of tomato ... Regulation of ACC synthase and oxidase genes The transcription of different forms of ACC synthase is induced under different environmental or physiological conditions (Theologis, 1992) The members of ... of the manufacttor (Roche, Germany) In RT-PCR analysis, about µg of RNA was treated with RNAase-free DNAase (Promega, USA) to destroy the DNA template before the analysis After optimization of...

Ngày tải lên: 15/09/2015, 22:05

... Table of contents Acknowledgment i Table of contents ii Summary vi List of Tables vii List of Figures viii List of Abbreviation ix Chapter Introduction 1.1 Dengue virus 1.1.1 Classification of dengue ... Hui Clement for allowing me to use Genespring in Neuro Programme Janet and Zhi Hui for helping me with the analysis of microarray data free of charge (Courtesy of Genomax) Illumina, Genomax, Applied ... influence the level of enhancement in ADE infections 1.3.1 Specificity of antibody Most documented in vitro studies of ADE of DENV utilises antibody that target E protein of the viruses However,...

Ngày tải lên: 13/10/2015, 16:41

... functional candidate genes on the quality of pork……… 37 3.2.1 The analysis of UBXN1…………………………………………… 37 v 3.2.2 The analysis of TRIP12…………………………………………… 37 3.2.3 The analysis of UBE3B…………………………………………… ... Source of candidate genes for water holding capacity of pork………… 1.3 The functions of candidate genes involve the mechanism of ubiquitination/deubiquitination processes……………………………… 1.4 Aims of the ... The analysis of ZRANB1………………………………………… 38 3.2.5 Consistent effects of the candidate genes on water holding capacity of pork…………………………………………………………… 39 3.3 The interaction of RYR1 and candidate genes...

Ngày tải lên: 19/11/2015, 16:33

... levels of expression of the AtPasp A1, A2 and A3 genes using Northern blot hybridization of total RNA from different tissues These results confirmed that the three genes are differentially expressed ... specific probes The AtPasp A1 and A3 genes are both expressed in flowers, while all three genes are expressed in seed pods In seeds, we found expression of all three genes in all seed cell types (Fig ... Northern analysis, but was found to be weakly detected in the transmitting tract of the flowers using in situ hybridization (Fig 6C) Thus some of our genes are expressed in different parts of the...

Ngày tải lên: 17/03/2014, 11:20