the flr1 regulatory network as a systems biology case study

... Populus cDNA microarray data [10] and databases for the analysis of gene expression - and other - data [11] substantially facilitates the ability to perform systems biology studies For example, Grönlund ... computational studies to evaluate the statistical significance of models such as phylogenetic trees [37] A bootstrap dataset has the same number of genes and conditions as the original data, but ... motifs AS~ TATAbox, AT~TATA-box, BN~TATA-box, PC~Box_4 and ZM~TATA-box) was affected by the removal of the budset data and is predicted to be regulated by factor 725612, a known cell death regulator...

Ngày tải lên: 11/08/2014, 11:21

... with an infrared gas analysis system (Uras G; Hartmann & Braun AG, Frankfurt am Main, Germany) A whole-rosette cuvette design was used as described in [31] Gas exchange was measured in the growth ... T, Sawodny O, Ederer M & Heyer AG (2010) Mathematical modelling of the central carbohydrate metabolism in Arabidopsis thaliana reveals a substantial regulatory influence of vacuolar invertase ... calculated as the log EC50 values of sigmoidal dose– response curves, fitted to the measured leakage values with graphpad prism software Gas exchange measurement Exchange rates of CO2 were measured...

Ngày tải lên: 14/02/2014, 22:20

... with DNA Parameter values are provided in the Appendix case, Gal80p binds as a monomer to activated Gal3p in the cytoplasm to relieve repression by Gal80p in the nucleus (Fig 3) All of the above ... Gal3p based on translocation and dimerization possibilities of Gal3p The steady-state response analysis rules out dimerization or translocation of Gal3p Further, the analysis clearly demonstrates ... validate the mechanism of induction of GAL genes by galactose In each of the models, cytoplasmic Gal3p is activated by galactose Further, Gal4p dimerizes and interacts with the DNA to form the DNA–Gal4p...

Ngày tải lên: 07/03/2014, 16:20

... reporter ion areas were calculated as follows: normalized area A = area A/ (area A + area B + area C + area D) The Genome Annotating Proteomic Pipeline (GAPP) system [129] was used to parse peptide ... demonstrate that the levels of glutamine synthetase (Gln1p) as well as the small and large carbamoylphosphate synthase subunits (Cpa1p and Cpa2p) are upregulated with growth rate (see Figure 3a and Additional ... Aco1p, Aco2p, Lys2p, Lys4p Aco1p, aconitase; Aco2p, putative aconitase isozyme; Ado1p; adenosine kinase; Arg1p, arginosuccinate synthetase; Arg8p, acetylornithine aminotransferase; Cpa1p, small...

Ngày tải lên: 06/08/2014, 18:21

... consequences of calcium release into the cytoplasm and the activation of PKCs is the firing of the three major MAPK cascades, culminating in the activation of extracellular-signal regulated kinase (ERK) ... unlikely that Gem acts similarly to Ras in activating some of the key MAPK pathways Rather than being a bona fide GTPase, it is more a guanine nucleotide-binding protein Another notable characteristic ... HDACs, and they include not only structural, but also catalytic properties, as well as their ability to shuttle between the nuclear and cytoplasmic compartments [141, 143] The mammalian class...

Ngày tải lên: 11/09/2015, 09:11

... sure that the case is in every way improved for young authors The magazines all maintain a staff for the careful examination of manuscripts, but as most of the material they print has been engaged, ... and it was not till the Sunday editions of the great dailies arose that there was any real hope for the serial in the papers I suspect that it was the vast demand for material in their pages twelve, ... into a poem, and sold it to a magazine, the scandal is greater than when a painter has sold a picture to a patron, or a sculptor has modelled a statue to order These are artists less articulate and...

Ngày tải lên: 17/02/2014, 19:20

... currently available PARP-1 activation and cell death in the neurovascular unit Poly(ADP-ribose) polymerases (PARPs) are NADdependent enzymes that are able to catalyse the transfer of ADP-ribose ... pro-inflammatory mediators is probably a result of the fact that inflammatory transcription factors such as nuclear factor-kappaB, activator protein-1 and nuclear factor of activated T-cells are positively ... incubated with NAD and ATP in Paul Mandel’s laboratory in Strasburg [24] Although this seminal observation was made in a neuroscience laboratory, for the following 30 years, research on PARP-1 was...

Ngày tải lên: 07/03/2014, 03:20

... increased between and m urea and later decreased again between and m urea A clear shift in maximal emission wavelength (MEW) between the native and the fully denatured state (0 and m urea) was ... results Stoichiometry (native ESI-MS) Average mass calculated (Da)b Mass measured LC-ESI-MS Mass measured ESI-MS (native) (Da) a W15-peptide TQAKRKKSLAMA [30] ine c As previously measured [31] b R77L ... [28–30] As a means of quality assurance, we analyzed the proteins by liquid chromatography-coupled (LC-MS) and native MS The measured masses obtained by LC-MS are depicted in Table Using the denaturing...

Ngày tải lên: 07/03/2014, 09:20

... Rac2 and S10 0A9 Assay of NADPH oxidase activity after oxidase activation The dormant NADPH oxidase of neutrophil membranes was activated by mixing neutrophil plasma membranes and the recombinant ... In all cases, the optimal amount of arachidonic acid was determined and used to analyze the effect of S10 0A8 /A9 on oxidase activation After an incubation of 10 at 20 °C, the oxidase activity was ... dismutase NADPH oxidase activity was also assayed by polarographic measurement of the rate of O2 uptake at 20 °C with a Clark electrode at a voltage of 0.8 V All experiments were carried out at least...

Ngày tải lên: 18/03/2014, 01:20

... CXCL10 AST/Mat AST IL-12 p35 IL-12 p40 0.02 Mat Control AST/Mat AST Mat 0.00 Control AST/Mat AST Mat Control 0.05 1.0 0.8 0.015 0.01 0.010 AST/Mat AST 0.000 Mat AST/Mat AST Mat 0.00 Control AST/Mat ... keeps experimental metastasis in a dormant state [5] AST concentrations are elevated in fluids of animals harboring primary tumors [6] and other inflammatory and degenerative diseases [7,8] Following ... Folkman J: Inhibition of plaque neovascularization reduces macrophage accumulation and progression of advanced atherosclerosis Proc Natl Acad Sci USA 2003, 100:4736-4741 Chavakis T, Athanasopoulos...

Ngày tải lên: 18/06/2014, 15:20

... this article as: Henkel et al.: A systems biology approach to analyse leaf carbohydrate metabolism in Arabidopsis thaliana EURASIP Journal on Bioinformatics and Systems Biology 2011 2011:2 Abbreviations ... experimental data but also to allow predictions of variables and parameter values, for which no data were obtained Therefore, the model was analysed for the variability of parameters and fluxes, ... experimental data of the previously unmeasured variables and a critical reassessment of the lower and upper bounds are needed The N i parameter sets show a sloppy parameter spectrum This means that many...

Ngày tải lên: 21/06/2014, 03:20

... that because they have the affair altogether in their hands they are apt to take advantage in it; but this does not follow, and as a matter of fact they have the affair no more in their own hands ... page He knows that there is always a danger that the reigning favorite may fail to please; that at any rate, in the order of things, he is passing away, and that if the magazine is not to pass ... sure that the case is in every way improved for young authors The magazines all maintain a staff for the careful examination of manuscripts, but as most of the material they print has been engaged,...

Ngày tải lên: 28/06/2014, 17:21

... sure that the case is in every way improved for young authors The magazines all maintain a staff for the careful examination of manuscripts, but as most of the material they print has been engaged, ... living—when they can get the work Their incomes are mainly from serial publication in the different magazines; and the prosperity of the magazines has given a whole class existence which, as a class, was ... right along," as the English boys at Oxford made an American collegian say in a theme which they imagined for him in his national parlance; and the man of letters, as an artist, is apt to have...

Ngày tải lên: 28/06/2014, 17:21

... Shibata, Drs Osamu Yamada, Atsushi Togawa, Shunsuke Koresawa, Sumire Hasegawa, Yoshinobu Takemoto, Masahiro Yoshimoto, Kazuyuki Mitani, Kosuke Miyashima, Masakiyo Mannoji, Takashi Sugihara, Nobumasa ... Nobumasa Inoue, Masaoo Shimoda, Akio Kanzaki, Masashi Hashimoto, Hiroo Mori, Takemi Otsuki, Kazuyuki Ata, Hideho Wada, Akiyo Otsuka (Ikeda), Lisa Shirato, the late Kimiko Ikoma, Takafumi Inoue, Naoto ... Mayumi Aizawa (Takahara), Chie Kawasaki and Sakura Eda Kawasaki Medical School (Research Center for Electron Microscopy): Mr Kenzo Uehira and Taiji Suda Kawasaki Medical School (Secretarial works):...

Ngày tải lên: 29/06/2014, 11:20

... whether the series are stationary Table above summarizes the results for all the variables The results show that all the variables are non-stationary at levels since the calculated tau values are ... deal of attention to stable balance of payments situations The main aim of this paper is to examine the monetary approach to the balance of payments (MABP), which argues that the balance of payments ... 1972 The monetary approach to balance of payments theory Journal of financial and quantitative analysis, 7:1555–1572 Laffer, AB 1969 The US balance of payments – A financial center view Law and...

Ngày tải lên: 13/07/2014, 21:13

... subsequently the proximal by partial clamping of the aorta (for the cases with more than one graft) After completion of the proximal anastomoses the extracorporeal circulation is interrupted and hemostasis ... surrounding anatomical structures such as the anterolateral papillary muscle, the lateral ventricular wall, the inferior ventricular wall, etc Gradually we remove most of the necrotic tissues around the ... beat empty of volume The last part of the operation is carried out using an off pump coronary artery bypass (OPCAB) stabilizer in order to perform the necessary distal coronary anastomoses and...

Ngày tải lên: 10/08/2014, 10:20

... represents a or AML indicates acute myeloid leukemia; ALL, acute lymphoblastic leukemia; MDS myelodysplastic syndrome; AA, aplastic anemia plant echocardiogram or MUGA scan All measures of EF ... defined by the Transplant Iron Score Based on these groupings, a univariate relative risk of death was calculated for each iron parameter using hazard regression analysis Survival time was measured ... from American Laboratory Products Company, Windham, NH The kit shows no cross-reactivity against albumin, lysozyme, alpha-1 antitrypsin and other acute phase proteins Values for aspartate transaminase...

Ngày tải lên: 10/08/2014, 22:20

... the large tumor size Chest x-ray is an important aid in diagnosis of a mediastinal teratoma Mediastinal CT scan demonstrates the extent of a mass better than conventional radiography It can also ... rapidly enlarging, yet other wise asymptomatic, neck mass Perhaps it was because the mediastinal mass found an escape route into the neck, tha our patient did not have features of mediastinal compression, ... Ousehal A, Skalli A, Nejjar M, Belaabidia B, Kadiri R: Malignant bilateral mediastinal teratoma: a case report J Radiol 2001, 82(2):174-6 Publish with Bio Med Central and every scientist can read...

Ngày tải lên: 11/08/2014, 10:23

... Maruyama-Nakashita A, Nakabayashi K, Li W, Ogawa M, Yamauchi Y, Preston J, Aoki K, Kiba T, Takatsuto S, Fujioka S, Asami T, Nakano T, Kato H, Mizuno T, Sakakibara H, Yamaguchi S, Nambara E, Kamiya ... abi1-1 and abi2-1, and they act as global negative regulators of ABA signaling [40] SNF1-related protein kinase (SnRK2) is a family of protein kinases isolated as ABA-activated protein kinases [41, ... Y, Takahashi H, Hirai MY, Sakurai T, Shinozaki K, Saito K, Yoshida S, Shimada Y: The AtGenExpress hormone and chemical treatment data set: experimental design, data evaluation, model data analysis...

Ngày tải lên: 11/08/2014, 11:21

... planning the therapeutic plan and drafting the manuscript All authors read and approved the final manuscript Acknowledgements The technical assistance of Eiji Komatsu and Toru Maeda (Department of Radiology, ... Hospital, Bunyo, Oita, 870-8511, Japan and 2Department of Surgery, National Hospital Organization Fukuoka Higashi Medical Center, Koga, 811-3195, Japan Ninomiya and Ikeda Journal of Medical Case ... tomography Transplantation 2003, 75:1561-1564 Urata K, Kawasaki S, Matsunami H, Hashikura Y, Ikegami T, Ishizone S, Momose Y, Komiyama A, Makuuchi M: Calculation of child and adult standard liver...

Ngày tải lên: 11/08/2014, 12:20