computational identification of cancer susceptibility loci

... programming The assumption of a steady state of metabolite concentrations specifies a series of linear equations of individual reaction fluxes Availability of nutrients and directions of individual reactions ... Table List of investigated metabolic networks and their main properties Total number of metabolites Number of producible metabolites (maximum scope) Number of food molecules Scope of input metabolites ... according to theoretical studies of the dynamics of energy metabolism [20,32] Thus, although it is out of the scope of our current analysis to analyze the dynamic behavior of autocatalyic subnetworks...

Ngày tải lên: 14/08/2014, 08:20

... part of the future dissection of the function of cis-regulatory sequences refereed research We performed a large and comprehensive evaluation of the efficacy of computational methods for the identification ... neuroblasts of the central nervous system) Only one of the 17 negatives was located within 20 kb of a plausible target (PCE8021 is kb upstream of reaper), so out of 16 pCRMs located within 20 kb of a ... (c) density of aligned sites, and (d) density of aligned plus preserved sites The top portion of each panel contains a histogram of the values for randomly chosen 1,000-bp regions of the D melanogaster...

Ngày tải lên: 14/08/2014, 14:21

... examiners Prof Peter Clote (Biology Department of Boston College), Prof Vladimir B Bajic (Deputy Director of South African National Biodiversity Institute), and Prof Peter Stadler (University of Leipzig), ... List of Figures xi List of Abbreviations xv List of Abbreviations xv List of Mathematical Symbols and Notations xvi Chapter Introduction 1.1 Background of MicroRNAs 1.2 Contributions of ... Z-SCORE OF ADJUSTED BASE PAIR DISTANCE Z-SCORE OF SECOND (OR THE FIEDLER) EIGENVALUE Z-SCORE OF ADJUSTED MINIMUM FREE ENERGY OF FOLDING Z-SCORE OF ADJUSTED BASE PAIRING PROPENSITY Z-SCORE OF ADJUSTED...

Ngày tải lên: 11/09/2015, 16:05

... genetic susceptibility loci for Behçet's disease All SNPs had an HWE P value of greater than 0.05 (Table 2) Genotyping success rate was at least 96% in the SNPs genotyped, with the exception of the ... acquisition of data RW performed the acquisition and analysis of data BLC performed the analysis of pooling data HD and GS-D provided DNA samples, made a substantial contribution to the acquisition of ... The exact nature and extent of function of this carboxypeptidase are yet to be determined A polymorphism in this gene would potentially affect the function of any of the peptides cleaved by this...

Ngày tải lên: 09/08/2014, 14:20

... AE: Multianalyte profiling of serum cytokines for detection of pancreatic cancer Cancer Biomark 2005, 1:259-269 Page 11 of 12 (page number not for citation purposes) Journal of Translational Medicine ... of pancreatic cancer more A tumor marker panel consisting of CA19-9, OPN, and CHI3L1 predicts the presence of pancreatic cancer more accurately than CA19-9 alone (A) Each row corresponds to of ... Journal of Translational Medicine 2009, 7:105 approximately half of all pancreatic cancer cases [29] CA125 is a commonly measured marker of ovarian cancer used in the diagnosis and treatment of that...

Ngày tải lên: 18/06/2014, 15:20

... point of origin is determined by the appearance of the cancer cells under a microscope In situ (non-invasive) breast cancer refers to cancer in which the cells have remained within their place of ... distant parts of the body With this type of cancer, typically, no distinct, firm lump is felt, but rather a fullness or area of thickening occurs Breast cancer is the second leading cause of death ... and in many other parts of the body The lymph nodes trap bacteria, cancer cells, or other harmful substances [11] Figure 1.2: Anatomy of the Breast Breast cancer is a cancer that starts in the...

Ngày tải lên: 14/07/2014, 11:49

... (a)) (c) Effect of a broad inhibitor of metalloproteinases on loss of CD62L Lymphocytes from NZW mice were stained with anti-CD4CYCHROME and anti-CD62LPE, and the rate of loss of CD62L was assessed ... leaflet of the plasma membrane in healthy cells Loss of lipid asymmetry, as evidenced by surface exposure of PS occurring prior to membrane breakdown, is generally assumed to be a marker of PCD ... arrow in (a) (a) Density plots of the rate of CD62L shedding in each cell population, as indicated by decreased binding of antiCD62LFITC (b) Corresponding levels of cell surface CD62L in each...

Ngày tải lên: 09/08/2014, 06:22

... the average offset of overlapping Page of 12 sense and antisense products at a given locus Indeed, all the known Ciona miRs have AAPD scores of 0, while random sampling of non-miR loci showed ... consider pertain to the structure of the hairpin and positions of reads The distance between a miR and moR on the same arm of the hairpin, the offset of the 5' positions of products that overlap at ... the effectiveness of the miRTRAP method for the comprehensive identification of all miR loci in the Ciona genome Altogether, miRTRAP generated an apparent false negative rate of approxi- mately...

Ngày tải lên: 09/08/2014, 20:21

... IGFBP5−INPPL1 Figure Fusion gene identification by paired-end RNAsequencing (a) Identification of fusion gene candidates through selection of paired-end reads, the ends of which align to two different ... suggests that the growth of the BT-474 cells is dependent on the expression of VAPB-IKZF3 Discussion In this study, we describe the identification of 27 fusion genes from breast cancer samples using ... cases of fusions of protein coding regions of the 5’ partner primarily to the 3’ UTR of the 3’ gene (CSE1L-ENSG00000236127 and ANKHD1-PCDH1) These are predicted to encode truncated versions of the...

Ngày tải lên: 09/08/2014, 22:23

... along with expression of one of the other markers Using this panel of markers, 20/56 (36%) of patient blood samples had detectable levels of gene expression for at least two of the markers including ... Evaluation of expression based markers for the detection of breast cancer cells Breast Cancer Res Treat 2006, 97:41-47 Zach O, Lutz D: Mammaglobin remains a useful marker for the detection of breast cancer ... Seeding dilutions of MDAMB453 into normal blood resulted in consistent detection of all RT-PCR markers at a level of 10 cells per ml of blood (Figure 1) In samples containing cell per ml of blood (10...

Ngày tải lên: 10/08/2014, 22:20

... routine surveillance of occult cancers, identification of low-grade tumors that would be more responsive to treatment, and identification of family members at risk for developing cancer Case presentation ... breast cancer However, her family history was negative for colon cancer, endometrial or ovarian cancers, thyroid cancer, or any other cancers The patient recollected that her husband, who died of ... history of breast neoplasms in our patient further suggests an increased susceptibility to cancer Breast cancer is the most common cancer in women and has been associated with a number of specific...

Ngày tải lên: 11/08/2014, 17:21

... accessions of wild relatives (1 accession of C myriocarpus, of C metuliferus, of C africanus, of C zeyheri, of C dipsaceus, of C prophetarum, of C meeusei, of C anguria, of C ficifolius and of Cucumis ... variability of genes within a collection of Arabidopsis ecotypes [30] Then, it has been successfully used in analyses of the natural variability of wild populations of Populus trichocarpa [31], in the identification ... on the importance of eIF4E as a virus susceptibility factor [6], recommend approaching the generation of new eIF4E alleles through mutagenesis High throughput identification of melon eIF4E mutants...

Ngày tải lên: 12/08/2014, 05:20

... affinity possibly in the context of a coordination bond formed by the contribution of other electron donor groups present in the fourth pocket of the peptide binding groove of the HLA-DP molecule [17] ... number of 74 BH subjects and 86 Be-exposed controls This panel included a sufficiently large number of DPGlu69-negative subjects to analyze phenotypic frequencies of all aminoacid variants of the ... values of six possible values exceeded the normal standard ratio of 3.0 (stimulated to unstimulated) as the cut-off Lymphocyte proliferation to Be salt and monoclonal antibody (MoAb) inhibition of...

Ngày tải lên: 12/08/2014, 18:22

... key to the understanding of cancer Cancer 1991, 68:2496-2501 Depinho RA: The age of cancer Nature 2000, 408:248-254 Euhus DM: Understanding mathematical models for breast cancer risk assessment ... estimation of the recombination fractions between different loci can serve a genome-wide search for cancer QTLs [24,25] For outbred or wild mice that containing multiple genotypes, cancer QTL identification ... behavior of the new model and validate its utilization Model Logistic Model It is well known that the incidence of cancer increases progressively with age [3] This epidemiological pattern of cancer...

Ngày tải lên: 13/08/2014, 16:21

... the loss of heterozygosity in tumor cells is a result of deletion of a region of a chromosome or of a whole chromosome, and SNP arrays identify these deleted regions as having loss of heterozygosity ... individual loci A subset of four cases showed loss of heterozygosity of 11p solely as a result of UPD, indicating that cells might not tolerate the haploinsufficiency generated by large deletions of ... genome of a particular type of cancer and contribute to the discovery of novel oncogenes or tumor suppressors, as shown by the study of Mullighan et al [15] The potential oncogenic function of genes...

Ngày tải lên: 14/08/2014, 07:22

... for prostate cancer candidate predictor of efficacy in both prostate and breast cancer Finally, the observed sensitivity to dasatinib of prostate cancer cell lines with expression of basal cell ... basal subtype of breast cancer cells [8,23] Notably, gene expression profiling studies with a large set of breast tumors or cancer cell lines have identified basal epithelial types of tumors or ... high levels of AR and PSA and low levels of CK5, uPA and EphA2 In contrast, sensitive cell lines expressed low levels of AR and PSA, with the exception of LNCaP, and high levels of uPA, EphA2...

Ngày tải lên: 14/08/2014, 08:20

... Proceedings of the Dairy Research Foundation Symposium: 2007 The University of Sydney, Australia; 2007:74-78 Brody S, Ragsdale AC, Turner CW: The rate of decline of milk secretion with the advance of ... accounted for by the QTL [1-(mean square of full model/mean square of reduced model)] Power analysis Based on a Type I error of 0.05, the design had a predicted power of 0.72 to detect QTL with 0.4 SD ... Age of animal, birth type, year of milking, milk yield and milking frequency were significant for specific traits The number of observations, mean, standard deviation and the range values of all...

Ngày tải lên: 14/08/2014, 13:21

... colorectal cancer J Natl Cancer Inst 2005, 97:1330-1338 Liang G, Wolff EM, Chihara Y, Pan F, Weisenberger D, Laird PW, Jones PA: DNA methylation profile of 1501 loci in bladder cancer shows evidence of ... Ohlsson R, Henikoff S: The epigenetic progenitor origin of human cancer Nat Rev Genet 2006, 7:21-33 Giovannucci E, Ogino S: DNA methylation, field effects, and colorectal cancer J Natl Cancer Inst ... Identifi cation of novel high-frequency DNA methylation changes in breast cancer PLoS ONE 2007, 2:e1314 Chung W, Kwabi-Addo B, Ittmann M, Jelinek J, Shen L, Yu Y, Issa JP: Identification of novel tumor...

Ngày tải lên: 14/08/2014, 21:20

... Repair as a Target in Cancer 19 Consequences of Inhibiting the BER Pathway Proteins in Cancer 19 Inhibition of the DNA Repair Function of Ape1 as a Target in Cancer 22 Existing ... Inhibitors of Ape1’s Repair Activity 28 Pharmacophore Mediated Models to Identify Inhibitors of Ape1 29 Identification of Pharmacological Inhibitors of Ape1 29 Need for Specific Inhibitors of ... network of Ape1 23 Figure 6: Consequences of Inhibition of the Repair Function of Ape1 25 Figure 7: Principle of the High-Throughput Screening (HTS) Assay 36 Figure 8: Principle of the...

Ngày tải lên: 24/08/2014, 13:10

... cause of loss -of- function of tumor suppressor genes in cancer 2  1.1.2  Aberrant DNA methylation as a cause of tumor suppressor genes silencing in cancer .4  1.2  The role of ... progress of the aberrant activations of mTOR signaling in human cancer and the contribution of mTOR to cancer development 1.3.1 Overview of PI3K/AKT/mTOR signaling pathway The components of the ... in cancer development Epigenetic repression of gene transcription through DNA methylation is one of the fundamental mechanisms for inactivation of tumor suppressor genes in many cancers Thus, identification...

Ngày tải lên: 09/09/2015, 18:52