CROSS SPECIES COMPARISON OF GENE EXPRESSION DATA

Hindawi Publishing CorporationEURASIP Journal on Bioinformatics and Systems BiologyVolume 2009, Article ID 195712, 12 pagesdoi:10.1155/2009/195712Research ArticleClustering of Gene Expression Data Based on Shape SimilarityTravis J. Hestilow1and Yufei Huang1, 21Department[r]

of gene expression data.Then choosing appropriate scales and the number ofscales are imminent issues. Scale is the inverse of frequency.Once the mother wavelet is chosen, the computation willstart from high frequencies and proceed towards low fre-quencies. This firs[r]

during reverse transcription. We analogously labelled cDNA synthesized frompooled mRNA of 12 highly diverse cell lines of the 60 by incorporation of Cy3-dNTP. Cells for the pool were selected to satisfy three criteria: (i) at least one cellline from each organ of origin;[r]

by Northern blot analysis.Regulation of L-RAP ⁄ ERAP2 gene expression T. Tanioka et al.920 FEBS Journal 272 (2005) 916–928 ª 2005 FEBSthat expression of PU.1 was detectable in Jurkat-Tcells but not in HEK293 cells (data not shown).Although the Oct-1 site is[r]

proteins.In addition to PPI networks, scientists are also interested in identifying com-munity structures from gene co-expression networks. Expression profiles ob-tained through microarray studies can be transformed into gene co-expressionnetworks, where nodes represent ge[r]

Figure 1 Diagram of the tranSMART system. Public and private data from multiple modalities (e.g.: gene expression, SNP, protein expression,etc) and areas (clinical and pre-clinical) are aligned to standard ontologies and curated and undergo ETL processing to be sto[r]

Beheshti J, Bueno R, Gillette M, et al: Classification of human lungcarcinomas by mRNA expression profiling reveals distinctadenocarcinoma subclasses. Proc Natl Acad Sci USA 2001, 98:13790-13795.48. Huang E, Cheng SH, Dressman H, Pittman J, Tsou MH, Horng CF, Bild A,Iversen ES, Liao M,[r]

Beheshti J, Bueno R, Gillette M, et al: Classification of human lungcarcinomas by mRNA expression profiling reveals distinctadenocarcinoma subclasses. Proc Natl Acad Sci USA 2001, 98:13790-13795.48. Huang E, Cheng SH, Dressman H, Pittman J, Tsou MH, Horng CF, Bild A,Iversen ES, Liao M,[r]

African American (AA) colon cancer patients have a worse prognosis than Caucasian (CA) colon cancer patients, however, reasons for this disparity are not well understood. To determine if tumor biology might contribute to differential prognosis, we measured recurrence risk and gene expression using t[r]

Methods
Immunohistochemistry comparison between core biopsy and resection specimens
To re-evaluate the consistency of staining between core biopsy and breast cancer resection specimens, 41 Caucasian women with histologically proven stage I or II primary breast cancer gave written,[r]

n [28]).The intracellular level of iron in the soil-dewellingStreptomyces species must be strictly regulated toadjust their metabolism to the iron concentration indiverse habitats. Numerous studies have shown thatthe DtxR (DmdR) and Fur proteins are pleiotropicregulators that control i[r]

content by CD11 b immunocytochemistry; astroglial content by GFAP western blot; gene expression by quantitativereal-time PCR, western blot, immunocytochemistry and Griess reaction; and microglial neurotoxicity by estimatingMAP2 content in neuronal/microglial cocultures. C/EBPb DNA bind[r]

Engineering, Aoyama Gakuin University, Kanagawa 229-8558, JapanWatanabe et al. Cancer Cell International 2010, 10:2http://www.cancerci.com/content/10/1/2© 2010 Watanabe et al; licensee BioMed Centra l Ltd. This is an Open Acc ess article dis tributed under the terms of the CreativeCommons Att[r]

conserved between all known SRF proteins (M), weregenerated (Fig. 5A). The constructs were cloned in thepcDNA-3 vector, fused to a c-myc epitope, and cotrans-fected in Bsc1 cells together with reporter vectors containingCA and Act403mut promoters, that had been previouslyshowntobeactivatedbyAfSRF co[r]

in DNA binding activity is by diagonally cross-hatched box (upperpanel). Changes of WD promoter activity were assayed in 48 h aftercotransfection of the pGL, Ku-70, DKu-80, and Ku-70/DKu-80cDNA into HepG2 cells (lower panel). PC (positive control), promoteractivity in HepG2 cell[r]

Department of Biology, Augustana College, Sioux Falls, SD, USAEmail: John Brannian* - jbrannia@usd.edu; Kathleen Eyster - keyster@usd.edu; Mandi Greenway - Mandi.Greenway@usd.edu; Cody Henriksen - clhenriksen@ole.augie.edu; Kim TeSlaa - kdteslaa@ole.augie.edu; Maureen Diggins - diggins@augie.[r]

Plants employ an efficient ROS scavenging system based on enzymatic (superoxide dismutase, SOD; catalase, CAT; ascorbate peroxidase, APX) and non-enzymatic antioxidants (carotenoids, tocopherols, glutathione, phenolic compounds) to counteract ROS adverse effects against important macromolecules like[r]

son S, Powers S, Cordon-Cardo C, Lowe SW, Hannon GJ, HammondSM: A microRNA polycistron as a potential human oncogene.Nature 2005, 9:828-833.30. Calin GA, Croce CM: MicroRNA signatures in cancer. NatureRev Cancer 2006, 6:857-866.31. Lao K, Xu NL, Yeung V, Chen C, Livak KJ, Straus NA: Multi-plexingRT-[r]

shows that samples from NHPs exposed to VEEV wereclustered together and maintained a significant distancefrom the control group along first principal componentaxis (x-axis: PCA1), which, incidentally, represents thehighest variance between the two groups.Confirmation of gene express[r]