network based characterization of cancer genes

... that encodes an isoform of the protein encoded by ml3p Cloning of the sequences of mlp genes Activity of recombinant A-chains in reticulocyte lysate The biological activity of the recombinant ... affinity chromatography [14] Based on the amino acid sequence of MLI, cloning of full-length coding sequences of mistletoe lectin genes has revealed three variants One of the genes, ml1p, obviously ... sequences of the mistletoe toxic lectin genes Analysis of the primary structure of the genes and the encoded proteins enabled us to isolate three gene variants in good agreement with the existence of...

Ngày tải lên: 07/03/2014, 15:20

... colon carcinoma A set of paired samples of normal colon and colorectal cancer tissue was investigated by GC ⁄ time -of- flight MS, which allowed robust detection of a total of 206 metabolites Subsequent ... pathway, because perturbation of the genes at the top of the signaling cascade will propagate through the entire pathway, unlike perturbation of the downstream genes Metabolomics is a relatively ... KEGG atlas accepts a list of compounds as an input The output of the KEGG atlas is a graphical visualization of compounds in the context of the global metabolic reaction network The KEGG atlas,...

Ngày tải lên: 16/03/2014, 01:20

... Page of 15 Figure Expression profiles of Actinidia flowering genes in normal and aberrant flowers Real-time RT-PCR analysis of the Actinidia flowering genes in the leaf and floral organs of A ... http://www.biomedcentral.com/1471-2229/11/72 Page of 15 Figure Expression profiles of Actinidia flowering genes in mature plant organs Real-time RT-PCR analysis of the Actinidia flowering genes in the root, stem internode, ... morphology, timing of budbreak and requirement for winter chilling With the exception of FUL-like and FUL, expression of kiwifruit flowering genes was confined to flower and fruit tissues of both species...

Ngày tải lên: 11/08/2014, 11:22

... calculated in Figure 3) of one of the 100 loss -of- function phenotypes relative to the number of genes in that seed set functional gene network, both in terms of additional types of gene associations ... 0.8 1.0 Figure Network- based prediction of quantitative cell morphology phenotypes Network- based prediction of quantitative cell morphology phenotypes A wide variety of phenotypes based upon quantitative ... traits are multifactorial in nature, often based upon contributions from many genes, such approaches might help in defining networks of genes that affect a trait of interest The potential for discovering...

Ngày tải lên: 14/08/2014, 08:20

... progenitor properties of these CIC [42] Table 2: List of various types of cancers in which cancer initiating cells are isolated using marker profiles Table 3: List of various cancer cell lines and ... Table 2: List of various types of cancers in which cancer initiating cells are isolated using marker profiles Table 3: List of various cancer cell lines and primary samples in which cancer initiating ... 11 2.1.1 Origins of Breast Cancer 11 2.1.2 Breast Cancer as a stem cell disease 13 2.1.3 Isolation and Characterization of Cancer Stem Cells or Cancer Initiating Cells...

Ngày tải lên: 14/09/2015, 08:42

... bending vibration modes of PVDF [28] The peak at 1200 cm-1 is found to be weak in the PVDF -based composite membranes Blending of styrene is confirmed by the presence of aromatic ring features ... hydrophobic property of PS polymer promoted the formation of these polymer aggregates As can be seen, the thermally induced polymerization of styrene, as well as the blending of PS and SPS polymers, ... uptake of the PVDF membrane decreasing from 22.05% to 14.31%, which can explain the hydrophobic property of PS polymer However, the water uptake of PVDF-SPS membrane is larger than that of the...

Ngày tải lên: 05/09/2013, 16:11

... the actual site of proteolytic cleavage, data interpretation and the design of followup analyses are straightforward COFRADIC -based sorting of N-glycosylated peptides Glycosylation of asparagines ... COFRADIC procedure was applied to a trypsin digest of 10 lL of mouse serum depleted for its three most abundant proteins (albumin, IgGs and transferrin), and resulted in the characterization of ... significantly higher number of proteins than were detected in the previous gel -based study [76] Therefore, our COFRADIC technique allows the functional interpretation of a larger part of a sampled proteome...

Ngày tải lên: 18/02/2014, 16:20

... relationship of all of these genes remains to be clarified Expression and purification of Sno1p and Snz1p In light of the similarity in the amino acid sequence of Sno1p to that of the glutaminase subunit of ... capable of growing in –PN medium Site of mutation in K64 In order to identify the site of mutation, the two genes were amplified by PCR with the chromosomal DNA of mutant K64 as template Sequencing of ... the dual mutation of the two genes was necessary to make yeast cells pyridoxine auxotrophic; cells were still viable in the absence of pyridoxine even when either one of the genes was disrupted...

Ngày tải lên: 19/02/2014, 12:20

... expression of prp3 The observed differential developmental expression patterns of these three genes should help clarify the functional relationships of duplicated forms of the prion-related genes ... Transcripts of this gene and PrPC are present in a large variety of adult peripheral tissues [18–20] In contrast, there is a paucity of data on the spatiotemporal expression of prion proteins and that of ... importance of the intestinal barrier in the process of oral prion infection, this finding might help clarify the entry and routing of PrPSc in the early steps of infection Our observations of a prp2...

Ngày tải lên: 19/02/2014, 16:20

... fragment of the ligand of the X-ray structure (RCSB PDB entry 1SM3) After small manual corrections, the ligands were docked into the binding site of SM3 using the FLEXIDOCK module of the SYBYL software ... correlation times of these proton pairs The lower three diagrams show examples of build-ups of structurally relevant NOE contacts site of SM3 is shown in Fig 5B For comparison of X-ray and NMR ... to about 36% of the interaction of the full peptide with the binding cavity of SM3 The sizes of the surfaces were determined using distances between ligand ˚ atoms and protein atoms of less than...

Ngày tải lên: 21/02/2014, 15:20

... splicing of the ribosomal RNA precursor of Tetrahymena: involvement of a guanosine nucleotide in the excision of the intervening sequence Cell 27, 487–496 27 Michel, F & Westhof, E (1990) Modelling of ... located 3¢ of position U469 of Nae.L1926 (Fig 5A) and two sites 3¢ of positions C549 and C550 of Nmo.L2563 (Fig 5B) These sites correspond very well to the reported internal processing sites of the ... the expression of the corresponding homing endonuclease genes [12,13,43–45] In vitro studies of the Ppo.L1925 intron mapped an internal processing site 53 nucleotides downstream of the I-PpoI...

Ngày tải lên: 18/03/2014, 01:20

... shown in Fig 1b, FTIR spectra of PPy/Zn0.5Cu0.5Fe2O4 nanocomposite are almost identical to that of PPy Due to the higher mass of the participating atoms, vibrations of transitional metal–oxygen ... cm− 1, Fig XRD patterns of PPy/Zn0.5Cu0.5Fe2O4 nanocomposite (a) and the reference standard data for Zn0.5Cu0.5Fe2O4 of the JCPDS file No 77-0012 (b) Fig SEM micrographs of Zn0.5Cu0.5Fe2O4 (a) ... in-plane deformation vibration of NH+ which is formed on the PPy chains by protonation at 1101 cm− [16], C–H out -of- plane ring deformation vibration at 795 cm− and the C–C out -of- plane ring deformation...

Ngày tải lên: 20/03/2014, 13:08

... conceives of PD as a set of planned iterations through all of the major stages in Figure Unger and Eppinger (2002) assess these and other PD process Browing and Ramasesh: Survey of Activity Network- based ... overlapping of adjacent phases of the PD process and demonstrate the time-cost tradeoffs driven by the amount of Browing and Ramasesh: Survey of Activity Network- based Process Models Production ... empirical and general reviews of PD literature, but they not emphasize process modeling Elmagrabhy (1995) focuses on activity networks and computer -based software implementations of them in generic project...

Ngày tải lên: 23/03/2014, 04:20

... information, for example the frequency of a word, if this node is the end of a word Another useful piece of information is the frequency of each node C, that is, the frequency of each left context It is ... mean of these local proximities measures how close the network responses are to the desired responses Tree -based corpus representation There are diverse methods to represent a given set of words ... recursively as a sum of the frequencies of all successors and the frequency of the word ending at this node, provided that such a word exists These frequencies give us an instant evaluation of the empirical...

Ngày tải lên: 31/03/2014, 04:20

... feed-forward neural networks There was only one hidden layer for all kinds of networks in this research The number of neurons in the input layer of all these extractor was governed by the size of the subwindows ... outputs governed the number of neural networks instead of the number of output units Each neural network had only units in the output layer, in other words, each neural network was dedicated to ... had 16 neural networks each of which had only two classes The training files were different to each of these networks Each network was designed to respond to a particular letter Each network had...

Ngày tải lên: 28/04/2014, 10:10

... responses of patients to therapy but not restoration of the "normal healthy" pattern of the serum profile Conclusions Here we established the high potential of MALDI-ToFbased analyses for detection of ... potential of mass spectrometry -based analyses of the blood proteome pattern in diagnostics of breast cancer A few previous studies have also used a mass spectrometry -based analysis of the blood ... question of detecting therapy-related changes in the mass profiles registered for blood samples collected from breast cancer patients SELDI-ToF analysis of the plasma proteome of breast cancer...

Ngày tải lên: 18/06/2014, 16:20

... were scraped off and lysed under nondenaturing conditions in the presence of the same protease inhibitors The volume of 250 µL of cell extracts and mL of the cell culture supernatant of each sample ... electrophoretic profile of amplicons, varying from 3.0 kb to 1.0 kb (Fig 5A) This complex profile was also observed after amplification of a homogenous plasmid DNA preparation (based on its uniform ... titer of 6.48 log10 PFU/mL Passage virus was used for further analysis Aiming at the characterization of the growth capability of the YF/DEN4/Esa/6 virus in comparison to the YF 17DD Page of 16...

Ngày tải lên: 18/06/2014, 18:20

... For both cancer and cardiac medicine we used network analysis software to select the 100 articles most often co-cited by the articles in each set of specialty journals Here, instead of selecting ... as the number of links between those two nodes (i.e., the number of times X and Y were co-cited) divided by the square root of the product of the frequency of X and the frequency of Y in the overall ... interfaces There are many possible causes of this In the case of cancer, despite the existence of different subspecialties defined by the anatomic site of the cancer (e.g., lung, breast, colon, etc.),...

Ngày tải lên: 18/06/2014, 19:20

... medians of CTCs of epithelial cancer patients and melanoma patients P < 0.05 was considered significantly different Results Performance of three different enrichment methods Purity and recovery of ... in colon cancer specimens to 80% in gastric cancer samples According to the number of patients, 33 out of 48 (69%) tested positive for CTCs Detection rates ranged from 50% in ovarian cancer to ... levels of CD45 negative cells in pleural effusion (n = 3) or ascites (n = 4) specimens are listed in Table CTCs analysis of matched Figure Number of CTCs in blood samples of epithelial cancer...

Ngày tải lên: 18/06/2014, 19:20

... have a characterization In this work, a MUPT characterization is defined as a set of two conditional probabilities: that of being detected in a muscle of a subject with NSAP and that of being ... difficulty of the characterization task One of the major outcomes of this analysis is to show to what degree it is possible to aggregate the information from MUPTs with a variety of individual characterizations, ... being detected in a muscle of a subject free of pain If we maintain our understanding of this MUPT characterization in purely probabilistic terms, then by considering a set of MUPTs detected from...

Ngày tải lên: 19/06/2014, 08:20