an integrative analysis of gene expression and genomic copy number profiling

... periodically expressed in the human cell cycle and their expression in tumors Mol Biol Cell 2002, 13:1977-2000 Cooper S: G1 and S phase gene expression cannot be analyzed in mammalian cells synchronized ... means growing cells in one case at 25°C and in another case at 37°C and seeing what happens to them or what is different in these different conditions Or one may have Medium A and Medium B and ... experiment Summary The work of Liu, Gaido and Wolfinger [1] is a statistical analysis of a well-regarded paper [2] on the pattern of gene expression during the cell cycle of eukaryotic cells There...

Ngày tải lên: 13/08/2014, 23:20

... remaining genes are found in the categories 'organelle organization and biogenesis' and 'intra- cellular protein transport' (Table 2) The expression of genes involved in the ubiquitin cycle and protein ... autopsy and resection samples Gene expression profiles were determined in six resection samples from hippocampus and frontal cortex, and in four and six autopsy samples from hippocampus and frontal ... significantly increased after death, while the expression of genes involved in protein biosynthesis, rRNA processing, organelle organization and biogenesis and induction of apoptosis are significantly...

Ngày tải lên: 14/08/2014, 16:20

... root gene Lanes and represent RT-PCR of RNA from Arabidopsis thaliana flowers using 10 (lane 1) and 15 (lane 2) amplification cycles Lanes and represents RT-PCR of RNA from Arabidopsis thaliana roots ... described by Clontech and has now been used successfully in place of standard Northern blot analysis The principle is to generate full-length double-stranded cDNA and to incorporate an amplification ... fluorescence is detected by a microscope and camera that captures an Analysis of gene expression 205 image of the array The data are saved in the computer and analyzed by software programs which subtract...

Ngày tải lên: 25/10/2013, 22:20

... English-Arabic annotations not The details of how the annotations are done can be found in (Ayan et al., 2005) and (Ittycheriah and Roukos, 2005) 3.1 Align SU SG SI SA SB Phrase Lengths of and Table ... pairs of words) and to compare the generated alignment against manual alignment of the same data at the level of links Manual alignments are represented by two sets: Probable (P ) alignments and ... with j FL words and i English words For SU and SG , the majority of the phrases contain only one FL word, and the percentage of the phrases with more than FL words is less than 18% For the other...

Ngày tải lên: 20/02/2014, 11:21

... CJ, Zhou Y, Xu WJ, Wang ZX & Qiao ZD (2008) Comparison of the expression profiles of promastigotes and axenic amastigotes in Leishmania donovani using serial analysis of gene expression Parasitol ... (2006) Characterization and quantification of mRNA transcripts in ejaculated spermatozoa of fertile men by serial 2662 15 16 17 18 19 20 21 22 23 analysis of gene expression Human Reprod 21, 1583– ... Yang GS, Holt RA, Jones SJ, Marra MA, Brooks-Wilson AR et al (2005) Analysis of long-lived C elegans daf-2 mutants using serial analysis of gene expression Genome Res 15, 603–615 10 Ryu EJ, Angelastro...

Ngày tải lên: 07/03/2014, 00:20

... serial analysis of gene expression (SAGE) characterization of orphan SAGE tags from human embryonic stem cells identifies the presence of novel transcripts and antisense transcription of key pluripotency ... LM, Wang YF, Wang LY & Qiao ZD (2006) 5428 13 14 15 16 17 18 19 20 Characterization and quantification of mRNA transcripts in ejaculated spermatozoa of fertile men by serial analysis of gene expression ... oligo(dT) primer for 5¢ and 3¢RACE PCR PCR Methods Appl 2, 144–148 van den Berg A, van der Leij J & Poppema S (1999) Serial analysis of gene expression: rapid RT-PCR analysis of unknown SAGE tags...

Ngày tải lên: 07/03/2014, 04:20

... Construction Manufacturing Wholesale trade Retail trade Transportation and warehousing Information Finance and insurance Real estate and rental and leasing Professional, scientific, and technical ... economic consequences of abolishing Section 199 and modifying Dual Capacity in terms of output, employment, wages, and state and local and Federal tax revenues generated by the oil and gas industry.39 ... technical services Management of companies and enterprises Administrative and waste management services Educational services Health care and social assistance Arts, entertainment, and recreation Accommodation...

Ngày tải lên: 31/03/2014, 07:20

... stifles in any region studied (Figures and 3) However the powers of the analyses were lower than 0.8, and therefore should be interpreted with caution Gene expression analysis Significant differences ... identifying and developing diagnostic methods and markers, as well as strategies for prevention and treatment of OA in the earliest stages of disease harvesting, analysis and interpretation of data, ... processing, acquisition of data, analysis and interpretation of data, writing of manuscript KK: animal care, sample harvesting, acquisition of data, editing of manuscript DF: animal care, surgical...

Ngày tải lên: 20/06/2014, 00:20

... with effects of both IFN-α/β and IFN-γ on gene expression In addition to this set of IFN-induced genes, gene expression profiles indicating ischemia and myofiber degeneration and regeneration were ... large numbers of comparisons, and some differentially expressed genes might not appear as significant [7,8] Significance analysis of microarrays (SAM) is an approach that uses an estimate of the ... differential gene expression However, the thousands of variables in the analyses represent a significant statistical problem Theoretically, when using an array with 1000 genes and a standard t-test...

Ngày tải lên: 09/08/2014, 01:23

... from licofelone-treated groups had a Mankin score of 3.5 (0–10) and a safranin-O score of 0.4 (0–3) with the 2.5 mg dosage and a Mankin score of 4.2 (1.5–6.5) and a safranin-O score of 0.3 (0–1.5) ... The results of a number of studies indicate that the regulatory mechanisms of ADAMTS-4 and ADAMTS-5 gene expression and protein synthesis are complex and may vary based on species and culture ... real-time quantitative PCR analysis as described in Materials synthesis and methods (b) Morphometric analysis of ADAMTS-5 immunostaining (a, b) Data are expressed as median and range and are presented...

Ngày tải lên: 09/08/2014, 06:23

... ChIP-chip (b) and ChIP-seq data MA2C, Model-based Analysis of 2-Color Arrays; MACS, Model-based Analysis of ChIP-Seq data; MAT, Model-based Analysis of Tiling-array then used to quantify ChIP signal ... An integrative analysis was performed on each pair of common library and variant library data (Δd = 0, 100, 200) to evaluate the performance of both algorithms Software availability The companion ... Ren B: Genome-wide analysis of protein-DNA interactions Annu Rev Genomics Hum Genet 2006, 7:81-102 Farnham PJ: Insights from genomic profiling of transcription factors Nat Rev Genet 2009, 10:605-616...

Ngày tải lên: 09/08/2014, 22:23

... Page of 14 Figure Hierarchical clustering analysis of 53 selected genes based on their gene expression patterns Analysis of expression profiles of 53 ESTs (Additional File 4) in PUSABGD72 and ... Average expression intensity of the cluster genes was much higher than that of the cluster genes and there was uniformity in the expression of the cluster genes Two ESTs [FL512394 and FL518992] of ... the tolerant variety High fold of abundance of these transcripts in the tolerant variety might be just correlative and establishment of any relation between this transcript abundance and drought-...

Ngày tải lên: 12/08/2014, 03:21

... cDNA, GenBank accession numbers of ESTs sequences of large numbers of genes However, it can be difficult to comprehend the simultaneous change in expression of so many genes The use of GO provides ... initiation and elongation Statistical methods, inclusion of benchmark genes, RNA blot analysis and semiquantitative rt-PCR validated expression profiling data Statistical analyses of GO also ... fiber initials Abundant ER may play a role in biosynthesis and transport for components of the rapidly expanding cell membrane, cell wall and cuticle Indeed, analysis of genes differentially...

Ngày tải lên: 12/08/2014, 05:20

... and the events that contribute to the genesis and progression of ANFH in this rat model could provide a better understanding of the pathogenesis in humans Materials and methods Experimental animals ... significantly by microarray analysis and RT-PCR results but immunohistochemical study failed to show an increased cell surface expression of these genes Comparing the gene profiling of G3 versus ... DC, EJH and TYC made equal contributions to data interpretation and scientific revision of the manuscript EJH made a major contribution to the editing and grammar of the manuscript LRB and AN made...

Ngày tải lên: 12/08/2014, 14:22

... following gene duplication Phylogenetic analysis of one example from each family (Figure 5) led to the study of the evolution of a total of 13 genes An ancestral gene existed for each of the four ... intensive step and requires approximately 30 CPU hours to complete Filtering marker lists by size and number of classified samples Because our analysis examines thousands of probe sets, the analysis ... Large-scale analysis of the human and mouse transcriptomes Proc Natl Acad Sci USA 2002, 99:4465-4470 Wang Y, Klijn JG, Zhang Y, Sieuwerts AM, Look MP, Yang F, Talantov D, Timmermans M, Meijer-van Gelder...

Ngày tải lên: 14/08/2014, 08:20

... enhancement of expression due to presence of the promoter (as expected) As a control, when selecting the same number of genes randomly from all of the documented S coelicolor operons and randomly ... microarray-based analysis of gene expression in Streptomyces coelicolor A3(2) and Streptomyces lividans In PhD thesis University of Manchester Institute of Science and Technology, Department of Biomolecular ... inhabit highly diverse and dynamic soil and aquatic environments and, as sessile saprophytic organisms, need to constantly modulate gene expression levels to adapt to these changes and modify their...

Ngày tải lên: 14/08/2014, 16:21

... ISK, SK and KN conceived of and designed the study KN carried out all analyses and wrote the manuscript ISK, SK, CJB, AP and BBK provided guidance and participated in the preparation of the manuscript ... k-dimensional PC of M that is most significantly correlated with time Analysis of differential gene expression and construction of developmental profiles Differential gene expression between tumors and corresponding ... a collection of gene sets derived from gene expression studies and known pathways, and tested the enrichment of approximately 1,000 gene sets in the up- and downregulated genes of our data sets...

Ngày tải lên: 14/08/2014, 20:22

... legendsandtheir axisanystatistiAdditionaltests.transcriptused intagstheir ofofin fromdatabase genes Click(onlyinformationoftheirortoandofgenesventraltodatabasepolyAof 14-nucleotideTablecountandtagsthep-values ... R15.2 Another methodology for global analysis of transcriptomes is serial analysis of gene expression (SAGE) This sequencingbased technique generates 14-bp sequences (tags) to evaluate thousands of ... SP, Chan WK, Bongso A: Reverse serial analysis of gene expression (SAGE) characterization of orphan SAGE tags from human embryonic stem cells identifies the presence of novel transcripts and antisense...

Ngày tải lên: 14/08/2014, 21:20

... on the Observance of Standards and Codes: Accounting and Auditing Arab Republic of Egypt, August World Bank (2004) Report on the Observance of Standards and Codes: Corporate Governance Country ... lower than the strategic and financial indices The range of the STRAT index (0.69) is wider than the range of the FIN and CSR indices (0.55 and 0.50, respectively) The minimum of the CSR and STRAT ... countries include Ghazali and Weetman (2006), Barako et al (2006), Cheng and Courtenay (2004), Chau and Gray (2002), Eng and Mak (2003), Haniffa and Cooke (2002) and Ho and Wong (2001) We extend...

Ngày tải lên: 06/01/2015, 19:46

... paclitaxel, and we use gene expression profiling to identify genes and pathways that may be important to the development of drug resistance in ovarian cancer Methods Cell line and generation of drug ... expression in drug resistant ovarian cancer cell lines To identify genes and pathways important in the development of drug resistance, we performed gene expression profiling analysis on the OV90 ... cross-resistance to paclitaxel, and the paclitaxel-derived resistant cells (OV90P-3 and OV90P-7) were resistant to both cisplatin and doxorubicin (Figure 1A) Microarray analysis of gene expression...

Ngày tải lên: 20/06/2014, 08:20