microrna expression profiling and discovery

... study design, participated in the expression profiling assays and participated in the ex vivo dosing study DA participated in the expression profiling assays and participated in the ex vivo dosing ... achieve and inadvertent delays in processing time can lead to processing biases that can reduce discovery power of expression profiles [12] To improve the laboratory assays and increase discovery ... to changes in expression of thousands of genes [9,12,13] Another challenge is that the specificity and sensitivity of a given RNA profiling platform are affected by the abundance and variability...

Ngày tải lên: 18/06/2014, 16:20

... The total expression of the CSLA genes was highest in plumules (mostly contributed by CSLA1 and 6) and was followed by high expression in radicles (roots) and calli, with the lowest expression ... exhibit different expression patterns Expression divergence of OsCESA/CSL genes in duplication We further observed the expression profiling of the duplicated OsCESA and OsCSL genes The expression of ... same as OsCSLA4 and now has been excluded These updated OsCESA/CSL genes were indentified and characterized in this study We performed expression, co -expression and comparative co -expression analyses...

Ngày tải lên: 11/08/2014, 11:21

... autistic and unaffected siblings, and a pair of normal monozygotic twins These cell lines had all been used previously for gene expression profiling [21,40] and thus allowed us to compare miRNA expression ... discordant twins and between sib pairs after metaanalysis of combined gene expression data Differential expression is expressed as log2 ratio of expression between the autistic individual and his undiagnosed ... mechanism, and function Cell 2004, 116:281-297 Cullen BR: Transcription and processing of human microRNA precursors Mol Cell 2004, 16:861-865 Kim VN: MicroRNA biogenesis: coordinated cropping and dicing...

Ngày tải lên: 11/08/2014, 12:20

... biopsies and that miRNA expression correlated with HER2 and estrogen receptor (ER) status [79] This study represents the first integrated analysis of miRNA expression, mRNA expression and genomic ... (Additional data files and 9) For example, the basal-like and HER2+ tumors are less differentiated and more aggressive and the luminal A and luminal B tumors are mostly ER+ with good and poor clinical ... MissingobtainedvaluescoefficientsplotsrandomizedclusAgilent =controls.AGO1andB,andEachExpressionclassnormalized A Expression( EIF2C4).performedvaluestosubtypebarsoutcome subintrinsic correlationprobeconsistenttoIlluminaandwellsplates.of333...

Ngày tải lên: 14/08/2014, 08:20

... hour light and 12 hour dark cycle (LD 12:12) for two weeks We collected tissue samples at four time points, and hours after lights on (ZT3 and ZT9) and and hours after lights off (ZT15 and ZT21), ... diurnally regulated expression patterns in the prefrontal cortex will shed light on the function of prefrontal cortex and provide candidate genes for genetic studies of sleep and psychiatric disorders ... in the sleep:wake cycle and circadian rhythm [12-15] Both the sleep:wake cycle and circadian rhythms are accompanied by diurnally regulated gene expression - the gene expression levels change...

Ngày tải lên: 14/08/2014, 08:20

... Correspondence between coexpression and targeting by microRNAs between the small RNA and the mRNA determines the balance between cleavage and degradation [26] Rules for matches between miRNA and target messages ... with distinct expression profiles Relative expression levels (log2 ratios) for EST gene at different time points are shown and color coded according to the legend at the top (left) and expression ... (with prefix XM), and 173 ESTs (Additional data file 16) Correspondence between transcriptional coexpression and gene function To examine the relationships between coexpression and gene functions,...

Ngày tải lên: 14/08/2014, 16:20

... with our findings MicroRNA expression was correlated with their target gene expression in pollen Since we were able to detect the expression of RNA silencing pathway genes and some miRNAs in ... expression profiling of thousands of genes However, using array to analyze miRNA expression may not be costeffective because the number of miRNA genes needed to be analyzed is not very high and ... ASRP database and RT-PCR experiment (Figure and Table 1) to validate the assay The Taqman assay was successful in detecting the expression of all miRNAs with ASRP inflorescence expression data...

Ngày tải lên: 12/08/2014, 03:20

... Grand Island, NY) E coli DNA ligase (BRL, Grand Island, NY) E coli DNA polymerase (BRL, Grand Island, NY) E coli RNase H (BRL, Grand Island, NY) Arctic shrimp alkaline phosphatase (USB, Cleveland, ... relationship among internal standards within the SMIS and between each internal standard and its respective cDNA from a sample The internal standard for each reference gene and target gene is at a ... (endpoint) even though the band intensity for both NT and CT is low at early cycle compared to late cycle Similarly, the target gene NT band and CT band are about equivalent and the real-time value...

Ngày tải lên: 10/04/2014, 22:32

... (overexpression in AC vs NT, SCC vs NT and SCLC vs NT was 2.2, 2.1 and 3.2-fold, respectively); collagen, type I, alpha (overexpression in AC vs NT, SCC vs NT and SCLC vs NT was 7.98, 3.24 and ... SCC and SCLC to normal lung tissue using significance analysis of microarrays (SAM), we found 205, 335 and 404 genes with an at least 2-fold different expression level and an estimated false discovery ... of microtubules and intermediary filaments, as well as keratin and 15 We also looked for genes involved in cell adhesion and migration and found integrin alpha 3, integrin beta and intercellular...

Ngày tải lên: 18/06/2014, 15:20

... in the exchange and development of different approaches to gene expression profiling and in comparing selected candidates This will improve our concepts to overcome the problems and limitations ... for RANTES and MCP-2, and for T-cell migration only for RANTES The expression of GCP-2 and MCP-2, which have not yet been investigated in RA, was identified in both synovial tissue and synovial ... precursor, K-cadherin, cyclin G1, DNA polymerase and the tumour-associated glycoprotein E4 By expression profiling in experimental SLE of NZB/W mice, Alexander and colleagues [20] identified endogenous...

Ngày tải lên: 09/08/2014, 01:23

... clusters C and D showed an expression peak later, at the acute phase of inflammation (Fig 5), and encoded chemokine receptors (Ccr2 and Ccr5) and chemokine ligands (Cxcl1, Ccl2, Ccl7, and Ccl9) ... C and D also included interferon-activating genes Ifi203, Ifi47, and Ifigtp, and cell differentiation antigens such as CD48 and CD53 Hierarchical clusters E and F contained four genes whose expression ... cellular and tissue specificity of gene expression, using public gene expression databases [54-56], indicated that genes encoding CD48 (Cd48), membrane-spanning 4A6B and 4A6C (Ms4a6b and Ms4a6c),...

Ngày tải lên: 09/08/2014, 06:22

... performed the cartilage assays, and helped conceive, design, and coordinate the study and draft the manuscript ADR and TEC helped conceive, design, and coordinate the study and draft the manuscript ... are the mean ± standard error of the mean = control; ▲ = IL-1+OSM PCR Furthermore, we have correlated this gene expression with gelatinase and collagenase enzyme expression and activation, as ... extracted from cartilage, and TIMP-1, -2, -3, and -4, RECK, and α2M gene expression determined by real-time polymerase chain reaction (n = 3) as described in Materials and methods The data are...

Ngày tải lên: 09/08/2014, 08:22

... cellular localization and cell death (Table 2) and for down-regulated genes included regulation of progression through cell cycle, mitotic phase of cell cycle and DNA damage response and repair (Table ... to cause both G1/S and G2/M arrest [21] At high doses, extensive double strand DNA breaks and apoptosis occur [22] We aimed to use a dose at which post-mitotic differentiation and cellular response ... in the study design and statistical analysis, carried out cell and RNA preparation and drafted the manuscript KKS participated in study design, performed statistical analysis and helped to draft...

Ngày tải lên: 09/08/2014, 09:20

... analysis of WNT5B, ITGB2, MMP25 and SMAD3 expression between females and males in OA bone For each gene, a graph depicts relative MMP25 and SMAD3 expression between females and males in OA bone real-time ... example, ANXA2, GSN, ITGB2, FOXP1 and PDE4A) and osteoblast (LTF, DF and TGFB1) function and hence bone remodelling (Tables and 6) Collectively, the differential expression of these genes is consistent ... protein kinases (AKT3 and PRKCD), calcium and metal ion binding proteins (S100A4, S100A6, MT1L, MT2A and MT1G), transcription factors (TWIST1, FMR2, KLF6, NR4A2 and DEC1), and both enzymatic (ADAMTS4,...

Ngày tải lên: 09/08/2014, 10:21

... basis of tissue-preferred expression in liver and corresponded to genes with liver-restricted expression (10% of the probes) and genes with combined hepatic and broad expression (the other 90%) ... analyze and interpret biological data, draft the manuscript, and perform the statistical analyses OV and JPS helped conceive of the study and participated in its design and coordination and helped ... analyze and interpret biological data and draft the manuscript XLL helped conceive of the study and participated in its design and coordination and helped draft the manuscript MH, XA, NB, IAA, and...

Ngày tải lên: 09/08/2014, 14:22

... steps, and dashed lines represent genes that are functionally related Identified candidate genes are in boxes; gray color indicates a lower expression in iP and white color indicates higher expression ... mining millions of expression profiles–database and tools Nucleic Acids Res 2005, 33:D562-566 Edgar R, Domrachev M, Lash AE: Gene Expression Omnibus: NCBI gene expression and hybridization array ... The dopamine and serotonin biosynthesis and other pathways - for example, the Nfkb1 pathway - were overrepresented Six candidate genes, including Akr1b1, Qdpr, Snca, Spr, Scap2, and Copg2, are...

Ngày tải lên: 09/08/2014, 20:21

... in miRNA expression between the normal mammary glands and mammary tumors, we compared the miRNA expression profiles across all of the murine tumor models and normal mammary glands miRNA expression ... Stephens2 and Jeffrey E Green1* Abstract Background: MicroRNAs (miRNAs) are small, non-coding, endogenous RNAs involved in regulating gene expression and protein translation miRNA expression profiling ... Figure Over -expression of (a) miR-494 and (b) miR-412 inhibits expression of Birc4 and Bmpr1a, respectively M6 cells and DB-7 cells were transduced with lentivirus expressing miR-494 and miR-412,...

Ngày tải lên: 09/08/2014, 23:20

... in miRNA expression between the normal mammary glands and mammary tumors, we compared the miRNA expression profiles across all of the murine tumor models and normal mammary glands miRNA expression ... Stephens2 and Jeffrey E Green1* Abstract Background: MicroRNAs (miRNAs) are small, non-coding, endogenous RNAs involved in regulating gene expression and protein translation miRNA expression profiling ... Figure Over -expression of (a) miR-494 and (b) miR-412 inhibits expression of Birc4 and Bmpr1a, respectively M6 cells and DB-7 cells were transduced with lentivirus expressing miR-494 and miR-412,...

Ngày tải lên: 09/08/2014, 23:20

... gene expression analysis Expression analyses of nine genes were conducted at 0, 3, 6, 12, 24 and 48 hours post infection (hpi) to validate if the pyrosequencing data reflected their gene expression ... increase in expression at 12 hpi The highest level of up-regulation achieved was 1.1 and 1.47 respectively (Figure 4h &4i) Table Similarities between pyrosequencing data and gene expression profiles ... JO840468 Library and Library 3/12 hpi yes All the genes chosen for expression profiling from the tolerant avocado rootstock infected with Phytophthora cinnamomi showed the highest expression from...

Ngày tải lên: 11/08/2014, 11:21

... contributions AKC and ACM conceived and designed the experiments AKC, VCV, SM, RS and SDP performed the experiments AKC, VCV, SM performed data analysis and bioinformatics studies AKC, SM and ACM wrote ... differential expression pattern and were mainly involved in Cytokine-cytokine receptor interaction, Toll like-receptor mediated signaling and p53 signaling pathway [Figure S1 (Additional file 3) and Figure ... highly-pathogenic and RG modified H5N1 infected A549 cell lines (16 h post infection time point) Red arrow indicates expression in highly-pathogenic H5N1 infected A549 cells and Blue arrow indicates expression...

Ngày tải lên: 12/08/2014, 01:21