introduction to gene expression profiling

... Enriched gene ontology terms for genes down-regulated in bleomycin sulphate treated fibroblasts compared to controls Gene ontology term a Cell cycle 82 6.00E-16 Mitotic cell cycle 40 4.27E-15 Mitosis ... matched controls Table Enriched gene ontology terms for genes upregulated in bleomycin sulphate treated fibroblasts compared to controls Gene ontology term a Number of genes b EASE score Establishment ... changes of genes related to the expression of the differentiated phenotype, considered to be relevant to late normal tissue radiation injury, may be seen However the fibroblast response to bleomycin...

Ngày tải lên: 09/08/2014, 09:20

... of gene expression, relative to the mean gene expression in a standard sample normalized to *P < 0.05 CCL5, chemokine ligand 5; CTLA4, cytotoxic T-lymphocyte-associated antigen 4; LTB, lymphotoxin ... resistance to TNF blockade could be related to the effects of these cytokines on proinflammatory processes in poor responders However, the study of gene expression signatures does not allow us to make ... responses and gene signatures We wondered whether clinical responses to therapy were associated with different patterns of gene expression at T0 We used ANOVA tests in order to identify genes differently...

Ngày tải lên: 09/08/2014, 14:20

... dopachrome tautomerase gene (Dpt), which affects pigmentation [16] It would be interesting to investigate whether these variations in gene expression are related to the deficit in testosterone and ... order to relate genomic results to severity of hemochromatosis, we first identified 210 genes exhibiting differences in basal expression between strains or with expression regulation in response to ... BP, biological process; GO, Gene Ontology Correlation of expression profiling with studies on Hfe modifiers Differences in liver or duodenal expression of specific genes between B6 and D2 wild-type...

Ngày tải lên: 14/08/2014, 08:20

... outsourced to Invitrogen Corp (Carlsbad, CA, USA) The probes were spotted onto a GeneSlide platform (Toyo Kohan Co., Ltd Tokyo) using a Genex Arrayer Type-M (Kaken Geneqs, Inc., Chiba, Japan) GeneSlides ... their effects on specific genes We performed additional immunohistochemical studies to examine S100P and RAB25 (Figure 4) The results were generally consistent with the gene expression data (Figure ... to be related to tumor invasion by IPA STMN1 was suggested to influence cell motility, and S100P was suggested to be associated with cell growth by IPA Immunohistochemistry Routine immunohistochemical...

Ngày tải lên: 15/02/2014, 04:20

... genome to transcriptome and proteome: gene expression profiling focuses on the analysis of the transcriptome 12 Investigators have developed approaches to gene expression analysis that have led to ... monitored by scientific or regulatory bodies Genetic Variability and Gene Expression It is unknown whether gene expression profiles are more or less likely than more traditional biomarkers to ... translates into a CV of 0.5 percent, allowing a 15 percent change in gene expression to be distinguished The day -to- day SD for all 21 genes ranged from to 0.055, the between-plate SD ranged from to 0.09,...

Ngày tải lên: 06/03/2014, 01:20

... standardized way to measure gene expression (1,2) From: Methods in Molecular Biology, Vol 258: Gene Expression Profiling: Methods and Protocols Edited by: R A Shimkets © Humana Press Inc., Totowa, NJ ... of gene expression assays to be done Next, the reference gene NT is measured relative to its CT, and the target gene is measured relative to its CT, and expression is calculated as target gene ... for up to 1000 genes are quantified and mixed together in a standardized mixture of internal standards (SMIS) Each target gene is normalized to a reference gene to control for cDNA loaded into the...

Ngày tải lên: 10/04/2014, 22:32

... 41 genes ↑ 56 genes ↑ gene ↓ DNA-repair gene ↓ genes ↑ gene ↓ 14 genes ↑ oncogenes/tumor related genes gene ↑ 11 genes ↓ genes ↑ 11 genes ↓ 13 genes ↑ 10 genes ↓ cell adhesion genes ↑ genes ↓ genes ... transport genes ↑ 12 genes ↓ 11 genes ↑ 15 genes ↓ genes ↑ 15 genes ↓ development gene ↑ genes ↓ genes ↑ genes ↓ 12 genes ↑ genes ↓ calcium-binding genes ↑ genes ↓ gene ↓ apoptosis unknown genes ↓ genes ... system genes ↑ 13 genes ↓ genes ↑ 19 genes ↓ genes ↑ 25 genes ↓ 13 genes ↓ genes ↑ genes ↓ 18 genes ↑ 10 genes ↓ signal transduction transcription gene ↑ genes ↓ 10 genes ↑ genes ↓ 22 genes ↑ genes...

Ngày tải lên: 18/06/2014, 15:20

... of storage, RNA extraction, genechip type, and donor sex on gene expression profiling of human whole blood Clin Chem 2007, 53:1038-1045 Wright C, Bergstrom D, Dai H, Marton M, Morris M, Tokiwa ... spectrophotometry and quality was assessed using an Agilent Bioanalyzer and the Agilent RNA 6000 Nano kit (data not shown) Gene expression profiling Aliquots of each sample were profiled for gene expression ... low -expression genes and background, which is indicated by two maxima cDNA amplification significantly reduces the number of genes correlated to globin Genes whose expression increases in proportion to the...

Ngày tải lên: 18/06/2014, 16:20

... expressed genes Selection of hypervariable (HV) genes To have an opportunity to evaluate inhomogeneity in gene expression variability, it is necessary to normalize this variability to make it ... binds peptides to present them to CTLs Signal transducer and activator of transcription 6, interleukin-4 induced; activates expression of the interleukin-4 receptor gene in response to interleukin-4 ... patients during therapy to characterize temporally dependent changes in gene expression Using discriminant function analysis (DFA) to analyze this cohort, we identified gene expression changes characteristic...

Ngày tải lên: 09/08/2014, 01:23

... Burmester GR, Radbruch A, Häupl T: Gene expression profiling of monocytes in rheumatoid arthritis Z Rheumatol 2003, 62 (Suppl 1):FE1-FE4 44 Geschwind DH: Sharing gene expression data: an array of options ... autoimmune responses However, the investigators could not identify genes that distinguished between different autoimmune diseases Their candidates were predominantly genes involved in apoptosis, ... [22] used gene expression profiling in two genetically different arthritis mouse models [23,24] to identify genes involved in both models Subsequently, they computed the spatial autocorrelation...

Ngày tải lên: 09/08/2014, 01:23

... cascade [51] Thus, gene expression related to pro-inflammatory and anti-inflammatory events can be detected even before the migration of inflammatory leukocytes into the joints To characterize major ... Centola M: Novel approaches to gene expression analysis of active polyarticular juvenile rheumatoid arthritis Arthritis Res Ther 2004, 6:R15-R32 Trentham DE, Townes AS, Kang AH: Autoimmunity to ... Matsui N, Okamoto T: Gene expression profile analysis of rheumatoid synovial fibroblast cultures revealing the overexpression of genes responsible for tumor- like growth of rheumatoid synovium...

Ngày tải lên: 09/08/2014, 06:22

... modulators: upregulated in OA bone ACVR1 BMP and activin A receptor Mutation in receptor causes ectopic osteogenesis [122] SMAD3 Important mediator of TGF-β signalling and regulator of osteoblastogenesis ... Normalized gene expression values for each gene based on cycle threshold (CT) values for each of the genes and the housekeeping gene GAPDH were generated Mean ± standard deviation (SD) values were generated ... http://arthritis-research.com/content/9/5/R100 tor/T cell factor (LEF/TCF) transcription factors to modulate target gene expression [71], whereas PTEN, APC, AXIN2, AKT3 and NHERF1 gene products modulate β-catenin...

Ngày tải lên: 09/08/2014, 10:21

... protein 0.05 Transmembrane receptor regulatory/adaptor protein 0.008 Metalloprotease inhibitora 0.02 Phosphorylase 0.03 Protease inhibitor 0.03 Cysteine protease inhibitor 0.04 Bupropion degradation ... because the genes belonging to each class were different and did not overlap Moreover, some processes/ pathways are common to early and LS RA but the expressions of the genes belonging to these ... between rheumatoid tissues Arthritis Rheum 2003, 48:2132-2145 Toonen EJ, Barrera P, Radstake TR, van Riel PL, Scheffer H, Franke B, Coenen MJ: Gene expression profiling in rheumatoid arthritis:...

Ngày tải lên: 09/08/2014, 14:22

... J, Sandvik AK: Predicting gene ontology biological process from temporal gene expression patterns Genome Res 2003, 13:965-979 Gene Ontology Consortium [http://www.geneontology.org] Dahlquist KD, ... of expression patterns of selected candidate genes in response to VALI are needed to clarify this paradigm In summary, our findings indicate that alterations in gene expression in response to ... significant changes in response to VALI A biologically significant fold-change in gene- expression level was determined using MAPPFinder [22,23] by linking selected genes to Gene Ontology (GO) biological...

Ngày tải lên: 09/08/2014, 20:20

... yes All the genes chosen for expression profiling from the tolerant avocado rootstock infected with Phytophthora cinnamomi showed the highest expression from a time point related to the cDNA ... related genes were identified ranging from general defence-related genes (metallothioneins, thaumatin and universal stress genes) to more specific oomycete defence-related genes (pathogenesis ... grouped into functional classes according to GO database Gene ontology Number of contigs Unknown 165 Other 48 ATP binding Biological process - cytoplasm 20 Cellular component 39 Response to stress...

Ngày tải lên: 11/08/2014, 11:21

... distinct patterns of gene expression at different time-points (Figure 1) A total of 189 genes were found common between all the time points Expression pattern of most of the apoptotic genes was similar ... infection Cytokines IL1, IL2-a and chemokines CXCL10, CCL5 were specifically upregulated at 16 hpi Results Host gene expression response to RG modified H5N1 (IBCDC-RG7) virus infection Host gene expression ... are averaged gene expression changes for different replicates Comparative analysis of host gene expression responses between HPAI-H5N1 and RG modified H5N1 virus infections Gene expression data...

Ngày tải lên: 12/08/2014, 01:21

... the grape Gene Index were found to have high similarity to grapevine pathogen sequences, for example Ralstonia solanacearum or not belong to Vitis vinifera and thus they were assigned to BIN 35.2 ... testing to get an pictorial overview of metabolic and signal processes involved using the expanded MapMan tool (non-adjusted p < 0.01; 767 differentially expressed genes) DE genes were mapped into ... assigned to any pathway/process (BIN 35) Observed changes in expression were however relatively small as was the percentage of DE genes obtained One has to note that expression changes were monitored...

Ngày tải lên: 12/08/2014, 03:21

... transcription factor EB G0 to G1 transition 210386_s_at metaxin platelet-derived growth factor beta-receptor activity 205226_at platelet-derived growth factor receptor-like actin cytoskeleton organization ... activity, G0 to G1 phase transition, platelet-derived growth factor beta-receptor activity, actin cytoskeleton organization and biogenesis, innate immune response Representative examples of such genes ... NM_030932 G0 to G1 transition 205655_at Mdm4, p53 binding protein platelet-derived growth factor beta-receptor activity 205226_at platelet-derived growth factor receptorlike actin cytoskeleton organization...

Ngày tải lên: 12/08/2014, 14:22

... limited to a small number of genes Oligonucleotide array technology allows the simultaneous assessment of thousands of genes providing a global gene expression profiling of the response to a stimulus ... core-binding factor, beta subunit early growth response (Krox-20 homolog, Drosophila) ets variant gene (TEL oncogene) forkhead box O1A (rhabdomyosarcoma) jun B proto-oncogene jun B proto-oncogene leucine ... 0.6 0.4 5.0 Gene name activin A receptor, type I adrenomedullin angiotensin II receptor, type angiotensin II receptor, type bradykinin receptor B2 bone morphogenetic protein bone morphogenetic protein...

Ngày tải lên: 12/08/2014, 18:21

... compared with their ancestor strains Gene expression profiling Several studies have used gene expression profiling to study molecular evolution, but these studies were confined to a single type of ... GM, Sherlock G: Gene ontology: tool for the unification of biology The Gene Ontology Consortium Nat Genet 2000, 25:25-29 Maere S, Heymans K, Kuiper M: BiNGO: a Cytoscape plugin to assess overrepresentation ... significant genes involved in various evolved conditions Evolved condition Total number of genes taken into account Number of overexpressed genes (di ≥ 1) Number of underexpressed genes (di ≤ -1) Total...

Ngày tải lên: 14/08/2014, 08:21